40774
2018
2018
eng
113
doctoralthesis
1
--
--
--
Comparative and systemic metabolomic analysis of the model plant Arabidopsis thaliana after perturbing the essential Target of Rapamycin (TOR) pathway
online registration
Dissertation, Universität Potsdam, 2018
Mohamed Abd Allah Salem
Biowissenschaften; Biologie
Institut für Biochemie und Biologie
Universität Potsdam
Universität Potsdam
15882
2003
2003
eng
122 S.
doctoralthesis
1
--
--
--
Molecular-physiological analysis of two novel isoforms of phosphoinositide kinases from Arabidopisis thaliana (L.) Heynh.
allegro:1991-2014
10096139
Potsdam, Univ., Diss., 2003
Mahmoud E. F. Abdel-Haliem
Institut für Biochemie und Biologie
57329
2020
2020
eng
2469
2471
3
9
71
article
Oxford Univ. Press
Oxford
1
2020-03-07
2020-03-07
--
Say it with double flowers
Every year, lovers world-wide rely on mutants to show their feelings on Valentine's Day. This is because many of the most popular ornamental flowering plants have been selected to form extra petals at the expense of reproductive organs to enhance their attractiveness and aesthetic value to humans. This so-called 'double flower' (DF) phenotype, first described more than 2000 years ago (Meyerowitz et al., 1989) is present, for example, in many modern roses, carnations, peonies, and camellias. Gattolin et al. (2020) now identify a unifying explanation for the molecular basis of many of these DF cultivars.
Journal of experimental botany
10.1093/jxb/eraa109
32145014
0022-0957
1460-2431
outputup:dataSource:PubMed:2020
WOS:000546003200002
Lenhard, M (corresponding author), Univ Potsdam, Inst Biochem & Biol, Karl Liebknecht Str 24-25, D-14476 Potsdam, Germany., michael.lenhard@uni-potsdam.de
Deutsche Forschungsgemeinschaft German Research Foundation (DFG); [Le1412/11-1]
Lenhard, Michael
2023-01-05T07:30:00+00:00
sword
importub
filename=package.tar
e14f0f2a3addbed58f676053439c27d3
1466717-4
2976-2
false
true
Hashim Abdirashid
Michael Lenhard
eng
uncontrolled
ABCE model
eng
uncontrolled
APETALA2
eng
uncontrolled
double flowers
eng
uncontrolled
flower development
eng
uncontrolled
homoeotic
eng
uncontrolled
mutants
eng
uncontrolled
microRNA172
Biowissenschaften; Biologie
Institut für Biochemie und Biologie
Referiert
Import
Bronze Open-Access
31551
2009
2009
eng
article
1
--
--
--
Permanent genetic resources added to molecular ecology resources database 1 January 2009-30 April 2009
This article documents the addition of 283 microsatellite marker loci to the Molecular Ecology Resources Database. Loci were developed for the following species: Agalinis acuta; Ambrosia artemisiifolia; Berula erecta; Casuarius casuarius; Cercospora zeae-maydis; Chorthippus parallelus; Conyza canadensis; Cotesia sesamiae; Epinephelus acanthistius; Ficedula hypoleuca; Grindelia hirsutula; Guadua angustifolia; Leucadendron rubrum; Maritrema novaezealandensis; Meretrix meretrix; Nilaparvata lugens; Oxyeleotris marmoratus; Phoxinus neogaeus; Pristomyrmex punctatus; Pseudobagrus brevicorpus; Seiridium cardinale; Stenopsyche marmorata; Tetranychus evansi and Xerus inauris. These loci were cross-tested on the following species: Agalinis decemloba; Agalinis tenella; Agalinis obtusifolia; Agalinis setacea; Agalinis skinneriana; Cercospora zeina; Cercospora kikuchii; Cercospora sorghi; Mycosphaerella graminicola; Setosphaeria turcica; Magnaporthe oryzae; Cotesia flavipes; Cotesia marginiventris; Grindelia Xpaludosa; Grindelia chiloensis; Grindelia fastigiata; Grindelia lanceolata; Grindelia squarrosa; Leucadendron coniferum; Leucadendron salicifolium; Leucadendron tinctum; Leucadendron meridianum; Laodelphax striatellus; Sogatella furcifera; Phoxinus eos; Phoxinus rigidus; Phoxinus brevispinosus; Phoxinus bicolor; Tetranychus urticae; Tetranychus turkestani; Tetranychus ludeni; Tetranychus neocaledonicus; Tetranychus amicus; Amphitetranychus viennensis; Eotetranychus rubiphilus; Eotetranychus tiliarium; Oligonychus perseae; Panonychus citri; Bryobia rubrioculus; Schizonobia bundi; Petrobia harti; Xerus princeps; Spermophilus tridecemlineatus and Sciurus carolinensis.
http://onlinelibrary.wiley.com/journal/10.1111/%28ISSN%291755-0998
10.1111/j.1755-0998.2009.02746.x
1755-098X
allegro:1991-2014
10107872
Molecular ecology resources. - ISSN 1755-098X. - 9 (2009), 5, S. 1375 - 1379
Laura Good Abercrombie
Cynthia M. Anderson
Bruce G. Baldwin
In-Chul Bang
Ricardo Beldade
Giacomo Bernardi
Angham Boubou
Antoine Branca
Francois Bretagnolle
Michael W. Bruford
Anna Buonamici
Robert K. Burnett
D. Canal
H. Cardenas
Coraline Caullet
S. Y. Chen
Y. J. Chun
C. Cossu
Charles F. Crane
Sandrine Cros-Arteil
Richard Cudney-Bueno
Roberto Danti
José Antonio Davila
Gianni Della Rocca
Shigeto Dobata
Larry D. Dunkle
Stephane and others Dupas
Institut für Biochemie und Biologie
Referiert
35556
2012
2012
eng
2441
2453
13
11
159
article
Springer
New York
1
--
--
--
Warming induces shifts in microzooplankton phenology and reduces time-lags between phytoplankton and protozoan production
Indoor mesocosm experiments were conducted to test for potential climate change effects on the spring succession of Baltic Sea plankton. Two different temperature (Delta 0 A degrees C and Delta 6 A degrees C) and three light scenarios (62, 57 and 49 % of the natural surface light intensity on sunny days), mimicking increasing cloudiness as predicted for warmer winters in the Baltic Sea region, were simulated. By combining experimental and modeling approaches, we were able to test for a potential dietary mismatch between phytoplankton and zooplankton. Two general predator-prey models, one representing the community as a tri-trophic food chain and one as a 5-guild food web were applied to test for the consequences of different temperature sensitivities of heterotrophic components of the plankton. During the experiments, we observed reduced time-lags between the peaks of phytoplankton and protozoan biomass in response to warming. Microzooplankton peak biomass was reached by 2.5 day A degrees C-1 earlier and occurred almost synchronously with biomass peaks of phytoplankton in the warm mesocosms (Delta 6 A degrees C). The peak magnitudes of microzooplankton biomass remained unaffected by temperature, and growth rates of microzooplankton were higher at Delta 6 A degrees C (mu(a dagger 0 A degrees C) = 0.12 day(-1) and mu(a dagger 6 A degrees C) = 0.25 day(-1)). Furthermore, warming induced a shift in microzooplankton phenology leading to a faster species turnover and a shorter window of microzooplankton occurrence. Moderate differences in the light levels had no significant effect on the time-lags between autotrophic and heterotrophic biomass and on the timing, biomass maxima and growth rate of microzooplankton biomass. Both models predicted reduced time-lags between the biomass peaks of phytoplankton and its predators (both microzooplankton and copepods) with warming. The reduction of time-lags increased with increasing Q(10) values of copepods and protozoans in the tritrophic food chain. Indirect trophic effects modified this pattern in the 5-guild food web. Our study shows that instead of a mismatch, warming might lead to a stronger match between protist grazers and their prey altering in turn the transfer of matter and energy toward higher trophic levels.
Marine biology : international journal on life in oceans and coastal waters
10.1007/s00227-012-1947-0
0025-3162
wos:2011-2013
WOS:000310586900008
Aberle, N (reprint author), Alfred Wegener Inst Polar & Marine Res, Biol Anstalt Helgoland, D-27498 Helgoland, Germany., Nicole.Aberle-Malzahn@awi.de
'AQUASHIFT' of the German Research Foundation (DFG) [1162]
Nicole Aberle-Malzahn
Barbara Bauer
A. Lewandowska
Ursula Gaedke
U. Sommer
Institut für Biochemie und Biologie
Referiert
32032
2010
2010
eng
article
1
--
--
--
Stress inoculation facilitates active avoidance learning of the semi-precocial rodent Octodon degus
A growing body of evidence highlights the impact of the early social environment for the adequate development of brain and behavior in animals and humans. Disturbances of this environment were found to be both maladaptive and adaptive to emotional and cognitive function. Using the semi-precocial, biparental rodent Octodon degus, we aimed to examine (i) the impact of age (juvenile/adult), sex (male/female), and (ii) "motivation" to solve the task (by applying increasing foot-shock-intensities) on two-way active avoidance (TWA) learning in socially reared degus, and (iii) whether early life stress inoculation by 1 h daily parental separation during the first three weeks of life has maladaptive or adaptive consequences on cognitive function as measured by TWA learning. Our results showed that (i) juvenile degus, unlike altricial rats of the same age, can successfully learn the TWA task comparable to adults, and (ii) that learning performance improves with increasing "task motivation", irrespective of age and sex. Furthermore, we revealed that (iii) stress inoculation improves avoidance learning, particularly in juvenile males, quantitatively and qualitatively depending on "task motivation". In conclusion, the present study describes for the first time associative learning in O. degus and its modulation by early life stress experience as an animal model to study the underlying mechanisms of learning and memory in the stressed and unstressed brain. Although, stress is commonly viewed as being maladaptive, our data indicate that early life stress inoculation triggers developmental cascades of adaptive functioning, which may improve cognitive and emotional processing of stressors later in life.
http://www.sciencedirect.com/science/journal/01664328
10.1016/j.bbr.2010.05.018
0166-4328
allegro:1991-2014
10108386
Behavioural brain research. - ISSN 0166-4328. - 213 (2010), 2, S. 293 - 303
Andreas Abraham
Michael Gruss
Institut für Biochemie und Biologie
Referiert
46259
2017
2017
eng
14
12
article
PLoS
San Fransisco
1
--
--
--
A question of data quality-Testing pollination syndromes in Balsaminaceae
Pollination syndromes and their predictive power regarding actual plant-animal interactions have been controversially discussed in the past. We investigate pollination syndromes in Balsaminaceae, utilizing quantitative respectively categorical data sets of flower morphometry, signal and reward traits for 86 species to test for the effect of different types of data on the test patterns retrieved. Cluster Analyses of the floral traits are used in combination with independent pollinator observations. Based on quantitative data we retrieve seven clusters, six of them corresponding to plausible pollination syndromes and one additional, well-supported cluster comprising highly divergent floral architectures. This latter cluster represents a non-syndrome of flowers not segregated by the specific data set here used. Conversely, using categorical data we obtained only a rudimentary resolution of pollination syndromes, in line with several earlier studies. The results underscore that the use of functional, exactly quanitified trait data has the power to retrieve pollination syndromes circumscribed by the specific data used. Data quality can, however, not be replaced by sheer data volume. With this caveat, it is possible to identify pollination syndromes from large datasets and to reliably extrapolate them for taxa for which direct observations are unavailable.
PLoS one
10.1371/journal.pone.0186125
29036172
1932-6203
wos:2017
e0186125
WOS:000413054800014
Abrahamczyk, S (reprint author), Univ Bonn, Nees Inst Biodivers Plants, Meckenheimer Allee 170, Bonn, Germany., sabraham@uni-bonn.de
importub
2020-04-19T23:59:01+00:00
filename=package.tar
7afe72b7818d15de65fd3d0c968cd1ae
Stefan Abrahamczyk
Sissi Donna Lozada Gobilard
Markus Ackermann
Eberhard Fischer
Vera Krieger
Almut Redling
Maximilian Weigend
Institut für Biochemie und Biologie
Referiert
Import
14817
2004
2004
eng
article
1
--
--
--
Deciphering the oxygen sensing pathway by microscopy
allegro:1991-2014
10099136
Methods in Enzymology. - 381 (2004), S. 488 - 510
Helmut Acker
Christine Huckstorf
Heinrich Sauer
Tino Streller
Maria Wartenberg
Institut für Biochemie und Biologie
Referiert
8101
2015
2015
eng
109
doctoralthesis
1
2015-09-22
--
2015-03-31
Polyglutamine- and aging-dependent aberrancies in transcription and translation
online registration
Potsdam, Univ., Diss., 2015
Frauke Adamla
Biowissenschaften; Biologie
Institut für Biochemie und Biologie
Universität Potsdam
Universität Potsdam
38839
2015
2015
eng
10
5
article
Nature Publ. Group
London
1
--
--
--
Somatic expression of unc-54 and vha-6 mRNAs declines but not pan-neuronal rgef-1 and unc-119 expression in aging Caenorhabditis elegans
Aging is a highly controlled biological process characterized by a progressive deterioration of various cellular activities. One of several hallmarks of aging describes a link to transcriptional alteration, suggesting that it may impact the steady-state mRNA levels. We analyzed the mRNA steady-state levels of polyCAG-encoding transgenes and endogenous genes under the control of well-characterized promoters for intestinal (vha-6), muscular (unc-54, unc-15) and pan-neuronal (rgef-1, unc-119) expression in the nematode Caenorhabditis elegans. We find that there is not a uniform change in transcriptional profile in aging, but rather a tissue-specific difference in the mRNA levels of these genes. While levels of mRNA in the intestine (vha-6) and muscular (unc-54, unc-15) cells decline with age, pan-neuronal tissue shows more stable mRNA expression (rgef-1, unc-119) which even slightly increases with the age of the animals. Our data on the variations in the mRNA abundance from exemplary cases of endogenous and transgenic gene expression contribute to the emerging evidence for tissue-specific variations in the aging process.
Scientific reports
10.1038/srep10692
26031360
2045-2322
wos:2015
10692
WOS:000355611800002
Ignatova, Z (reprint author), Univ Potsdam, Inst Biochem & Biol, Biochem, Potsdam, Germany., zoya.ignatova@uni-hamburg.de
NIH Office of Research Infrastructure Programme; Leibniz Graduate School
(Berlin); DFG grant [FOR 1805]
Frauke Adamla
Zoya Ignatova
Institut für Biochemie und Biologie
Referiert
Open Access
44974
2016
2016
eng
8882
8888
9
6
article
Nature Publ. Group
London
1
--
--
--
Viruses-to-mobile genetic elements skew in the deep Atlantis II brine pool sediments
The central rift of the Red Sea has 25 brine pools with different physical and geochemical characteristics. Atlantis II (ATIID), Discovery Deeps (DD) and Chain Deep (CD) are characterized by high salinity, temperature and metal content. Several studies reported microbial communities in these brine pools, but few studies addressed the brine pool sediments. Therefore, sediment cores were collected from ATIID, DD, CD brine pools and an adjacent brine-influenced site. Sixteen different lithologic sediment sections were subjected to shotgun DNA pyrosequencing to generate 1.47 billion base pairs (1.47 x 10(9) bp). We generated sediment-specific reads and attempted to annotate all reads. We report the phylogenetic and biochemical uniqueness of the deepest ATIID sulfur-rich brine pool sediments. In contrary to all other sediment sections, bacteria dominate the deepest ATIID sulfur-rich brine pool sediments. This decrease in virus-to-bacteria ratio in selected sections and depth coincided with an overrepresentation of mobile genetic elements. Skewing in the composition of viruses-to-mobile genetic elements may uniquely contribute to the distinct microbial consortium in sediments in proximity to hydrothermally active vents of the Red Sea and possibly in their surroundings, through differential horizontal gene transfer.
Scientific reports
10.1038/srep32704
27596223
2045-2322
wos2016:2019
32704
WOS:000382466500001
Siam, R (reprint author), Amer Univ Cairo, Dept Biol, Biotechnol Grad Program, Cairo, Egypt.; Siam, R (reprint author), Amer Univ Cairo, YJ Sci & Technol Res Ctr, Cairo, Egypt., rsiam@aucegypt.edu
King Abdullah University for Science and Technology Global Collaborative Partners (GCR) program [SA-C0039]; American University in Cairo Faculty (Research) Support Grant
importub
2020-03-22T14:39:00+00:00
filename=package.tar
3672165d1f14877b1b542b29eeb9704b
Mustafa Adel
Ali H. A. Elbehery
Sherry K. Aziz
Ramy K. Aziz
Hans-Peter Grossart
Rania Siam
Institut für Biochemie und Biologie
Referiert
Import
48421
2019
2019
eng
2609
2617
9
18
33
article
Routledge, Taylor & Francis Group
Abingdon
1
2019-04-16
--
--
Cytotoxic flavonoids from two Lonchocarpus species
A new isoflavone, 4′-prenyloxyvigvexin A (1) and a new pterocarpan, (6aR,11aR)-3,8-dimethoxybitucarpin B (2) were isolated from the leaves of Lonchocarpus bussei and the stem bark of Lonchocarpus eriocalyx, respectively. The extract of L. bussei also gave four known isoflavones, maximaisoflavone H, 7,2′-dimethoxy-3′,4′-methylenedioxyisoflavone, 6,7,3′-trimethoxy-4′,5′-methylenedioxyisoflavone, durmillone; a chalcone, 4-hydroxylonchocarpin; a geranylated phenylpropanol, colenemol; and two known pterocarpans, (6aR,11aR)-maackiain and (6aR,11aR)-edunol. (6aR,11aR)-Edunol was also isolated from the stem bark of L. eriocalyx. The structures of the isolated compounds were elucidated by spectroscopy. The cytotoxicity of the compounds was tested by resazurin assay using drug-sensitive and multidrug-resistant cancer cell lines. Significant antiproliferative effects with IC50 values below 10 μM were observed for the isoflavones 6,7,3′-trimethoxy-4′,5′-methylenedioxyisoflavone and durmillone against leukemia CCRF-CEM cells; for the chalcone, 4-hydroxylonchocarpin and durmillone against its resistant counterpart CEM/ADR5000 cells; as well as for durmillone against the resistant breast adenocarcinoma MDA-MB231/BCRP cells and resistant gliobastoma U87MG.ΔEGFR cells.
Natural Product Research
10.1080/14786419.2018.1462179
29656660
1478-6419
1478-6427
wos:2019
WOS:000475501100004
Yenesew, A (reprint author), Univ Nairobi, Dept Chem, Nairobi, Kenya.; Efferth, T (reprint author), Johannes Gutenberg Univ Mainz, Inst Pharm & Biochem, Dept Pharmaceut Biol, Mainz, Germany., ayenesew@uonbi.ac.ke; efferth@uni-mainz.de
International Science Program (ISP) [KEN 02]
importub
2020-11-24T17:54:52+00:00
filename=package.tar
e79c4bdc8db2cfa04e3172f76fd7dcac
false
true
Fozia A. Adem
Victor Kuete
Armelle T. Mbaveng
Matthias Heydenreich
Andreas Koch
Albert Ndakala
Beatrice Irungu
Abiy Yenesew
Thomas Efferth
eng
uncontrolled
Lonchocarpus bussei
eng
uncontrolled
Lonchocarpus eriocalyx
eng
uncontrolled
Leguminosae
eng
uncontrolled
isoflavone
eng
uncontrolled
pterocarpan
eng
uncontrolled
cytotoxicity
Chemie
Institut für Biochemie und Biologie
Referiert
Import
52660
2018
2018
eng
26
30
5
128
article
Elsevier
Amsterdam
1
2018-04-30
2018-04-30
--
Cytotoxic benzylbenzofuran derivatives from Dorstenia kameruniana
Chromatographic separation of the extract of the roots of Dorstenia kameruniana (family Moraceae) led to the isolation of three new benzylbenzofuran derivatives, 2-(p-hydroxybenzyl)benzofuran-6-ol (1), 2-(p-hydroxybenzyl)-7-methoxybenzofuran-6-ol (2) and 2-(p-hydroxy)-3-(3-methylbut-2-en-1-yl)benzyl)benzofuran-6-ol (3) (named dorsmerunin A, B and C, respectively), along with the known furanocoumarin, bergapten (4). The twigs of Dorstenia kameruniana also produced compounds 1-4 as well as the known chalcone licoagrochalcone A (5). The structures were elucidated by NMR spectroscopy and mass spectrometry. The isolated compounds displayed cytotoxicity against the sensitive CCRF-CEM and multidrug-resistant CEM/ADR5000 leukemia cells, where compounds 4 and 5 had the highest activities (IC50 values of 7.17 mu M and 5.16 mu M, respectively) against CCRF-CEM leukemia cells. Compound 5 also showed cytotoxicity against 7 sensitive or drug-resistant solid tumor cell lines (breast carcinoma, colon carcinoma, glioblastoma), with IC50 below 50 mu M, whilst 4 showed selective activity.
Fitoterapia
10.1016/j.fitote.2018.04.019
29715541
0367-326X
1873-6971
wos:2018
WOS:000437076200005
Yenesew, A (reprint author), Univ Nairobi, Dept Chem, POB 30197-00100, Nairobi, Kenya.; Efferth, T (reprint author), Johannes Gutenberg Univ Mainz, Inst Pharm & Biochem, Dept Pharmaceut Biol, Stawdenger Weg 5, D-55128 Mainz, Germany., efferth@uni-mainz.de; ayenesew@uonbi.ac.ke
German Academic Exchange Service (DAAD) through the Natural Products Research Network for Eastern and Central Africa (NAPRECA); International Science Program (ISP) [KEN 02]; Alexander von Humboldt FoundationAlexander von Humboldt Foundation
2021-11-15T15:04:18+00:00
sword
importub
filename=package.tar
430dbdbefdd06b2253e6eba6d0e19702
Yenesew, Abiy
false
true
Fozia A. Adem
Victor Kuete
Armelle T. Mbaveng
Matthias Heydenreich
Albert Ndakala
Beatrice Irungu
Thomas Efferth
Abiy Yenesew
eng
uncontrolled
Dorstenia kameruniana
eng
uncontrolled
Moraceae
eng
uncontrolled
Benzylbenzofuran
eng
uncontrolled
Furanocoumarin
eng
uncontrolled
Chalcone
eng
uncontrolled
Cytotoxicity
Chemie und zugeordnete Wissenschaften
Institut für Biochemie und Biologie
Referiert
Import
61687
2023
2023
2023
eng
XVII, 169
doctoralthesis
1
--
--
2023-01-25
Functional characterization of ROS-responsive genes, ANAC085 and ATR7, in Arabidopsis thaliana
Dissertation, Universität Potsdam, 2023
false
true
Pallavi Agarwal
Biowissenschaften; Biologie
Institut für Biochemie und Biologie
Universität Potsdam
Universität Potsdam
62656
2022
2022
eng
3177
3186
10
10
414
article
Springer
Heidelberg
1
2022-01-19
2022-01-19
--
Lateral flow-based nucleic acid detection of SARS-CoV-2 using enzymatic incorporation of biotin-labeled dUTP for POCT use
The degree of detrimental effects inflicted on mankind by the COVID-19 pandemic increased the need to develop ASSURED (Affordable, Sensitive, Specific, User-friendly, Rapid and Robust, Equipment-free, and Deliverable) POCT (point of care testing) to overcome the current and any future pandemics. Much effort in research and development is currently advancing the progress to overcome the diagnostic pressure built up by emerging new pathogens. LAMP (loop-mediated isothermal amplification) is a well-researched isothermal technique for specific nucleic acid amplification which can be combined with a highly sensitive immunochromatographic readout via lateral flow assays (LFA). Here we discuss LAMP-LFA robustness, sensitivity, and specificity for SARS-CoV-2 N-gene detection in cDNA and clinical swab-extracted RNA samples. The LFA readout is designed to produce highly specific results by incorporation of biotin and FITC labels to 11-dUTP and LF (loop forming forward) primer, respectively. The LAMP-LFA assay was established using cDNA for N-gene with an accuracy of 95.65%. To validate the study, 82 SARS-CoV-2-positive RNA samples were tested. Reverse transcriptase (RT)-LAMP-LFA was positive for the RNA samples with an accuracy of 81.66%; SARS-CoV-2 viral RNA was detected by RT-LAMP-LFA for as low as CT-33. Our method reduced the detection time to 15 min and indicates therefore that RT-LAMP in combination with LFA represents a promising nucleic acid biosensing POCT platform that combines with smartphone based semi-quantitative data analysis.
Analytical and bioanalytical chemistry : a merger of Fresenius' journal of analytical chemistry, Analusis and Quimica analitica
10.1007/s00216-022-03880-4
35044487
1618-2642
1618-2650
outputup:dataSource:WoS:2022
WOS:000744405000003
Bier, FF (corresponding author), Univ Potsdam, Inst Biochem & Biol, Chair Mol Bioanal & Bioelect, Karl Liebknecht Str 24-25, D-14476 Potsdam, Germany.; Bier, FF (corresponding author), Inst Mol Diagnost & Bioanal IMDB gGmbH, Veltener Str 12, D-16761 Hennigsdorf, Germany., agarwal@uni-potsdam.de; christian.Warmt@izi-bb.fraunhofer.de; <br /> joerg.henkel@izi-bb.fraunhofer.de; SchrickL@rki.de; NitscheA@rki.de; <br /> fbier@uni-potsdam.de
BMBF (Federal Ministry of Education and Research, Germany) [03COV22A/B];; Projekt DEAL
Bier, Frank F.
2024-02-15T12:06:52+00:00
sword
importub
filename=package.tar
cc28c32d0721672acf123314cafa1956
2071767-2
CC-BY - Namensnennung 4.0 International
Saloni Agarwal
Christian Warmt
Jörg Henkel
Livia Schrick
Andreas Nitsche
Frank Fabian Bier
eng
uncontrolled
Point of care testing (POCT)
eng
uncontrolled
Lateral flow assay (LFA)
eng
uncontrolled
COVID-19
eng
uncontrolled
Reverse transcription loop-mediated isothermal amplification (RT-LAMP);
eng
uncontrolled
SARS-CoV-2 N-gene
Biowissenschaften; Biologie
Institut für Biochemie und Biologie
Referiert
Import
Hybrid Open-Access
57459
2022
2022
eng
5
10
article
Frontiers Media S.A.
Lausanne, Schweiz
1
2022-06-17
2022-06-17
--
Simultaneous Barcode Sequencing of Diverse Museum Collection Specimens Using a Mixed RNA Bait Set
A growing number of publications presenting results from sequencing natural history collection specimens reflect the importance of DNA sequence information from such samples. Ancient DNA extraction and library preparation methods in combination with target gene capture are a way of unlocking archival DNA, including from formalin-fixed wet-collection material. Here we report on an experiment, in which we used an RNA bait set containing baits from a wide taxonomic range of species for DNA hybridisation capture of nuclear and mitochondrial targets for analysing natural history collection specimens. The bait set used consists of 2,492 mitochondrial and 530 nuclear RNA baits and comprises specific barcode loci of diverse animal groups including both invertebrates and vertebrates. The baits allowed to capture DNA sequence information of target barcode loci from 84% of the 37 samples tested, with nuclear markers being captured more frequently and consensus sequences of these being more complete compared to mitochondrial markers. Samples from dry material had a higher rate of success than wet-collection specimens, although target sequence information could be captured from 50% of formalin-fixed samples. Our study illustrates how efforts to obtain barcode sequence information from natural history collection specimens may be combined and are a way of implementing barcoding inventories of scientific collection material.
Frontiers in Ecology and Evolution
10.3389/fevo.2022.909846
2296-701X
Agne, Stefanie
909846
<a href="https://doi.org/10.25932/publishup-57460">Zweitveröffentlichung in der Schriftenreihe Zweitveröffentlichungen der Universität Potsdam : Mathematisch-Naturwissenschaftliche Reihe ; 1293</a>
CC-BY - Namensnennung 4.0 International
Stefanie Agne
Michaela Preick
Nicolas Straube
Michael Hofreiter
eng
uncontrolled
target capture
eng
uncontrolled
type specimens
eng
uncontrolled
molecular species identification
eng
uncontrolled
museum specimens
eng
uncontrolled
cross-species capture
Biowissenschaften; Biologie
Institut für Biochemie und Biologie
Extern
Referiert
Publikationsfonds der Universität Potsdam
Gold Open-Access
57460
2022
2022
eng
5
1293
postprint
1
2023-01-11
2023-01-11
--
Simultaneous Barcode Sequencing of Diverse Museum Collection Specimens Using a Mixed RNA Bait Set
A growing number of publications presenting results from sequencing natural history collection specimens reflect the importance of DNA sequence information from such samples. Ancient DNA extraction and library preparation methods in combination with target gene capture are a way of unlocking archival DNA, including from formalin-fixed wet-collection material. Here we report on an experiment, in which we used an RNA bait set containing baits from a wide taxonomic range of species for DNA hybridisation capture of nuclear and mitochondrial targets for analysing natural history collection specimens. The bait set used consists of 2,492 mitochondrial and 530 nuclear RNA baits and comprises specific barcode loci of diverse animal groups including both invertebrates and vertebrates. The baits allowed to capture DNA sequence information of target barcode loci from 84% of the 37 samples tested, with nuclear markers being captured more frequently and consensus sequences of these being more complete compared to mitochondrial markers. Samples from dry material had a higher rate of success than wet-collection specimens, although target sequence information could be captured from 50% of formalin-fixed samples. Our study illustrates how efforts to obtain barcode sequence information from natural history collection specimens may be combined and are a way of implementing barcoding inventories of scientific collection material.
Zweitveröffentlichungen der Universität Potsdam : Mathematisch-Naturwissenschaftliche Reihe
10.25932/publishup-57460
urn:nbn:de:kobv:517-opus4-574600
1866-8372
Agne, Stefanie
Version of record
<a href="https://publishup.uni-potsdam.de/57459">Bibliographieeintrag der Originalveröffentlichung/Quelle</a>
CC-BY - Namensnennung 4.0 International
Stefanie Agne
Michaela Preick
Nicolas Straube
Michael Hofreiter
Zweitveröffentlichungen der Universität Potsdam : Mathematisch-Naturwissenschaftliche Reihe
1293
eng
uncontrolled
target capture
eng
uncontrolled
type specimens
eng
uncontrolled
molecular species identification
eng
uncontrolled
museum specimens
eng
uncontrolled
cross-species capture
Biowissenschaften; Biologie
open_access
Institut für Biochemie und Biologie
Referiert
Green Open-Access
Universität Potsdam
https://publishup.uni-potsdam.de/files/57460/pmnr1293.pdf
41847
2018
2018
eng
viii, 131
doctoralthesis
1
--
--
2018-09-10
Engineering the isoprenoid pathway for molecular farming and effect of tRNA(Glu) manipulation on tetrapyrrole biosynthesis
online registration
Keine öffentliche Lizenz: Unter Urheberrechtsschutz
Shreya Agrawal
Biowissenschaften; Biologie
Institut für Biochemie und Biologie
Universität Potsdam
Universität Potsdam
34613
2013
2013
eng
199
209
11
4
118
review
Elsevier
Oxford
1
--
--
--
Light-dependent genetic and phenotypic differences in the squat lobster Munida tenuimana (Crustacea: Decapoda) along deep continental margins
The levels of environmental light experienced by organisms during the behavioral activity phase deeply influence the performance of important ecological tasks. As a result, their shape and coloring may experience a light-driven selection process via the day-night rhythmic behavior. In this study, we tested the phenotypic and genetic variability of the western Mediterranean squat lobster (Munida tenuimana). We sampled at depths with different photic conditions and potentially, different burrow emergence rhythms. We performed day-night hauling at different depths, above and below the twilight zone end (i.e., 700 m, 1200 m, 1350 m, and 1500 m), to portray the occurrence of any burrow emergence rhythmicity. Collected animals were screened for shape and size (by geometric morphometry), spectrum and color variation (by photometric analysis), as well as for sequence variation at the mitochondria] DNA gene encoding for the NADH dehydrogenase subunit I. We found that a weak genetic structuring and shape homogeneity occurred together with significant variations in size, with the smaller individuals living at the twilight zone inferior limit and the larger individuals above and below. The infra-red wavelengths of spectral reflectance varied significantly with depth while the blue-green ones were size-dependent and expressed in smaller animals, which has a very small spectral reflectance. The effects of solar and bioluminescence lighting are discussed as depth-dependent evolutionary forces likely influencing the behavioral rhythms and coloring of M. tenuimana.
Progress in oceanography
10.1016/j.pocean.2013.07.011
0079-6611
wos:2011-2013
WOS:000329267400015
Aguzzi, J (reprint author), CSIC, ICM, Passeig Maritim Barceloneta 37-49, E-08003 Barcelona, Spain., jaguzzi@cmima.csic.es
Spanish "Ministerio de Ciencia e Innovacion" (MICINN): NERIT
[MAR/98/0935, REN02/04556/C02/MAR, CTM2007-66316-C02/MAR,
CTM2010-21810-C03-03/MAR]; Spanish "Ministerio de Ciencia e Innovacion"
(MICINN): RECS [MAR/98/0935, REN02/04556/C02/MAR, CTM2007-66316-C02/MAR,
CTM2010-21810-C03-03/MAR]; Spanish "Ministerio de Ciencia e Innovacion"
(MICINN): PROMETEO [MAR/98/0935, REN02/04556/C02/MAR,
CTM2007-66316-C02/MAR, CTM2010-21810-C03-03/MAR]; Spanish "Ministerio de
Ciencia e Innovacion" (MICINN): DOS MARES [MAR/98/0935,
REN02/04556/C02/MAR, CTM2007-66316-C02/MAR, CTM2010-21810-C03-03/MAR];
Italian Ministry of Agricultural, Food and Forestry Politics (MIPAF):
High-Vision [DM 19177/7303/08]
Jacopo Aguzzi
C. Costa
V. Ketmaier
C. Angelini
F. Antonucci
P. Menesatti
J. B. Company
Institut für Biochemie und Biologie
Referiert
1328
2007
eng
doctoralthesis
1
2007-06-29
--
2007-06-22
Development and application of novel genetic transformation technologies in maize (Zea mays L.)
Entwicklung und Anwendung neuer genetischer Transformationstechnologien im Mais (Zea Mays L.)
Plant genetic engineering approaches are of pivotal importance to both basic and applied research. However, rapid commercialization of genetically engineered crops, especially maize, raises several ecological and environmental concerns largely related to transgene flow via pollination. In most crops, the plastid genome is inherited uniparentally in a maternal manner. Consequently, a trait introduced into the plastid genome would not be transferred to the sexually compatible relatives of the crops via pollination. Thus, beside its several other advantages, plastid transformation provides transgene containment, and therefore, is an environmentally friendly approach for genetic engineering of crop plants. Reliable in vitro regeneration systems allowing repeated rounds of regeneration are of utmost importance to development of plastid transformation technologies in higher plants. While being the world’s major food crops, cereals are among the most difficult-to-handle plants in tissue culture which severely limits genetic engineering approaches. In maize, immature zygotic embryos provide the predominantly used material for establishing regeneration-competent cell or callus cultures for genetic transformation experiments. The procedures involved are demanding, laborious and time consuming and depend on greenhouse facilities. In one part of this work, a novel tissue culture and plant regeneration system was developed that uses maize leaf tissue and thus is independent of zygotic embryos and greenhouse facilities. Also, protocols were established for (i) the efficient induction of regeneration-competent callus from maize leaves in the dark, (ii) inducing highly regenerable callus in the light, and (iii) the use of leaf-derived callus for the generation of stably transformed maize plants. Furthermore, several selection methods were tested for developing a plastid transformation system in maize. However, stable plastid transformed maize plants could not be yet recovered. Possible explanations as well as suggestions for future attempts towards developing plastid transformation in maize are discussed. Nevertheless, these results represent a first essential step towards developing chloroplast transformation technology for maize, a method that requires multiple rounds of plant regeneration and selection to obtain genetically stable transgenic plants. In order to apply the newly developed transformation system towards metabolic engineering of carotenoid biosynthesis, the daffodil phytoene synthase (PSY) gene was integrated into the maize genome. The results illustrate that expression of a recombinant PSY significantly increases carotenoid levels in leaves. The beta-carotene (pro-vitamin A) amounts in leaves of transgenic plants were increased by ~21% in comparison to the wild-type. These results represent evidence for maize to have significant potential to accumulate higher amounts of carotenoids, especially beta-carotene, through transgenic expression of phytoene synthases. Finally, progresses were made towards developing transformation technologies in Peperomia (Piperaceae) by establishing an efficient leaf-based regeneration system. Also, factors determining plastid size and number in Peperomia, whose species display great interspecific variation in chloroplast size and number per cell, were investigated. The results suggest that organelle size and number are regulated in a tissue-specific manner rather than in dependency on the plastid type. Investigating plastid morphology in Peperomia species with giant chloroplasts, plasmatic connections between chloroplasts (stromules) were observed under the light microscope and in the absence of tissue fixation or GFP overexpression demonstrating the relevance of these structures in vivo. Furthermore, bacteria-like microorganisms were discovered within Peperomia cells, suggesting that this genus provides an interesting model not only for studying plastid biology but also for investigating plant-microbe interactions.
Pflanzliche Gentechnik spielt sowohl in der Grundlagenforschung als auch der Biotechnologie eine große Rolle. Allerdings bringt die landwirtschaftliche Nutzung gentechnisch veränderter Pflanzen (GM) ökologische Umweltrisiken mit sich, wie z.B. die Kreuzung GM Pflanzen mit sexuell kompatiblen Verwandten durch Fremdbestäubung. Gegenüber den Kerntransformanden haben Plastidtransformanden für die biotechnologische Nutzung große Vorteile, unter anderem da die Vererbung des Plastidgenoms bei höheren Angiospermen ausschließlich maternal geschieht. Somit kann ein Gentransfer transplastomischer Pflanzen über Pollen ausgeschlossen werden. Zuverlässige in-vitro-Regenerationssysteme, die wiederholte Regenerationsrunden erlauben, sind von großem Wert für die Etablierung der Plastidentransformationstechnologie. Trotz Sein die Hauptgetreidenahrungsmittel der Welt, Zerealie Pflanzen gehören zu schwierigsten in der Gewebekultur zu handeln, die Annäherungen der genetischen Technik streng begrenzt. Im Mais werden hauptsächlich junge zygotische Embryonen für die Herstellung der Regenerations-kompetenten Kalluskulturen benutzt. Der Arbeitsaufwand dafür ist hoch und die Prozedur schwierig und von den Gewächshausbedingungen abhängig. Im Rahmen dieser Arbeit wurden neue Gewebekultursysteme für Mais etabliert, welches junge Blattgewebe nutzt und somit unabhängig von Embryonen und Gewächshaus ist. Weiterhin wurden die aus Blättern gebildeten Kalluskulturen für die Generierung der genetisch veränderten Maispflanzen benutzt. Ebenso wurden verschiedene Selektionsmethoden für die Entwicklung eines Plastidentransformationssystems in Mais getestet. Jedoch konnten keine transplastomischen Maispflanzen erhalten werden. Sowohl die möglichen Ursachen als auch Vorschläge für weiterführende Versuche diesbezüglich werden im Rahmen dieser Arbeit diskutiert. Dennoch stellt diese Arbeit den ersten wesentlichen Schritt für die Entwicklung eines Plastidentransformationssystems in Mais vor. In einem zweiten Teil dieses Projekts wird die erfolgreiche Integration der Narzissen Phytoene Synthase in das Maisgenom durch das neu entwickelte nukleäre Transformationssystem gezeigt. Dadurch konnte eine signifikante Steigerung um 17% des Gesamtcarotinoid- und 21% des Beta-Carotengehalts in Maisblättern beobachtet werden. Schließlich wurden Fortschritte für die Entwicklung eines Transformationssystems für Peperomia (Piperaceae) durch die Etablierung eines Regenerationssystems aus Blättern gemacht. Außerdem wurden Faktoren, die die Plastidengröße und –zahl bestimmen, untersucht. Diese Ergebnisse geben Hinweise darauf, dass die Organellengröße und –zahl eher gewebespezifisch als in Abhängigkeit vom Plastidentyp reguliert wird.
urn:nbn:de:kobv:517-opus-14572
1457
WG 3450
Mohammad Ahmad Abadi
deu
uncontrolled
Mais
deu
uncontrolled
genetische Manipulation
deu
uncontrolled
Regeneratin
deu
uncontrolled
Plastid
eng
uncontrolled
Maize
eng
uncontrolled
Genetic transformation
eng
uncontrolled
Regeneration
eng
uncontrolled
Plastid
Biowissenschaften; Biologie
open_access
Institut für Biochemie und Biologie
Universität Potsdam
Universität Potsdam
https://publishup.uni-potsdam.de/files/1328/ahmad_abadi_diss.pdf
46616
2017
2017
eng
1538
1546
9
12
article
American Chemical Society
Washington
1
--
--
--
Phylogenomic Analysis of the Microviridin Biosynthetic Pathway Coupled with Targeted Chemo-Enzymatic Synthesis Yields Potent Protease Inhibitors
Natural products and their semisynthetic derivatives are an important source of drugs for the pharmaceutical industry. Bacteria are prolific producers of natural products and encode a vast diversity of natural product biosynthetic gene clusters. However, much of this diversity is inaccessible to natural product discovery. Here, we use a combination of phylogenomic analysis of the microviridin biosynthetic pathway and chemo-enzymatic synthesis of bioinformatically predicted microviridins to yield new protease inhibitors. Phylogenomic analysis demonstrated that microviridin biosynthetic gene clusters occur across the bacterial domain and encode three distinct subtypes of precursor peptides. Our analysis shed light on the evolution of microviridin biosynthesis and enabled prioritization of their chemo-enzymatic production. Targeted one-pot synthesis of four microviridins encoded by the cyanobacterium Cyanothece sp. PCC 7822 identified a set of novel and potent serine protease inhibitors, the most active of which had an IC50 value of 21.5 nM. This study advances the genome mining techniques available for natural product discovery and obviates the need to culture bacteria.
ACS chemical biology
10.1021/acschembio.7b00124
28406289
1554-8929
1554-8937
wos:2017
WOS:000403854000014
Fewer, DP (reprint author), Univ Helsinki, Dept Food & Environm Sci, Microbiol & Biotechnol Div, Viikki Bioctr, POB 56,Viikinkaari 9, FIN-00014 Helsinki, Finland.; Dittmann, E (reprint author), Univ Potsdam, Inst Biochem & Biol, Karl Liebknecht Str 24-25, D-14476 Potsdam, Germany., editt@uni-potsdam.de; david.fewer@helsinki.fi
Academy of Finland [259505]; German Research Foundation [Di910/7-1]; Cluster of Excellence, Unifying Concepts in Catalysis (UniCAT) by German Research Foundation (DFG)
importub
2020-04-20T02:57:02+00:00
filename=package.tar
015c5840ac76e25169602f525a2ef025
Muhammad N. Ahmed
Emmanuel Reyna-Gonzalez
Bianca Schmid
Vincent Wiebach
Roderich D. Suessmuth
Elke Dittmann
David P. Fewer
Institut für Biochemie und Biologie
Referiert
Import
62448
2022
2022
eng
1857
1867
11
4
14
article
Copernicus
Göttingen
1
2022-04-19
2022-04-19
--
Spatial and seasonal patterns of water isotopes in northeastern German lakes
Water stable isotopes (delta O-18 and delta H-2) were analyzed in samples collected in lakes, associated with riverine systems in northeastern Germany, throughout 2020. The dataset (Aichner et al., 2021; https://doi.org/10.1594/PANGAEA.935633) is derived from water samples collected at (a) lake shores (sampled in March and July 2020), (b) buoys which were temporarily installed in deep parts of the lake (sampled monthly from March to October 2020), (c) multiple spatially distributed spots in four selected lakes (in September 2020), and (d) the outflow of Muggelsee (sampled biweekly from March 2020 to January 2021). At shores, water was sampled with a pipette from 40-60 cm below the water surface and directly transferred into a measurement vial, while at buoys a Limnos water sampler was used to obtain samples from 1 m below the surface. Isotope analysis was conducted at IGB Berlin, using a Picarro L2130-i cavity ring-down spectrometer, with a measurement uncertainty of < 0.15 parts per thousand (delta O-18) and < 0.0 parts per thousand (delta H-2). The data give information about the vegetation period and the full seasonal isotope amplitude in the sampled lakes and about spatial isotope variability in different branches of the associated riverine systems.
Earth system science data : ESSD
10.5194/essd-14-1857-2022
1866-3508
1866-3516
outputup:dataSource:WoS:2022
WOS:000783503300001
Aichner, B (corresponding author), Leibniz Inst Freshwater Ecol & Inland Fisheries, Dept Community & Ecosyst Ecol 2, Muggelseedamm 301, Berlin, Germany., bernhard.aichner@gmx.de
Deutsche Forschungsgemeinschaft [Ai 134/3-1]; Leibniz Association; [K45/2017]
Aichner, Bernhard
2024-02-02T07:29:15+00:00
sword
importub
filename=package.tar
137c9c901e62d93617d5bd9d2b04dbc0
2475469-9
2442009-8
false
true
CC-BY - Namensnennung 4.0 International
Bernhard Aichner
David Dubbert
Christine Kiel
Katrin Kohnert
Igor Ogashawara
Andreas Jechow
Sarah-Faye Harpenslager
Franz Hölker
Jens Christian Nejstgaard
Hans-Peter Grossart
Gabriel Singer
Sabine Wollrab
Stella Angela Berger
Geowissenschaften
Institut für Biochemie und Biologie
Referiert
Import
Gold Open-Access
DOAJ gelistet
36910
2011
2011
eng
1798
1804
7
7
23
article
American Chemical Society
Washington
1
--
--
--
A molecular precursor approach to tunable porous tin-rich indium tin oxide with durable high electrical conductivity for bioelectronic devices
The preparation of porous, i.e., high surface area electrodes from transparent conducting oxides, is a valuable goal in materials chemistry as such electrodes can enable further development of optoelectronic, electrocatalytic, or bioelectronic devices. In this work the first tin-rich mesoporous indium tin oxide is prepared using the molecular heterobimetallic single-source precursor, indium tin tris-tert-butoxide, together with an appropriate structure-directing template, yielding materials with high surface areas and tailorable pore size. The resulting mesoporous tin-rich ITO films show a high and durable electrical conductivity and transparency, making them interesting materials for hosting electroactive biomolecules such as proteins. In fact, its unique performance in bioelectronic applications has been demonstrated by immobilization of high amounts of cytochrome c into the mesoporous film which undergo redox processes directly with the conductive electrode material.
Chemistry of materials : a publication of the American Chemical Society
10.1021/cm103087p
0897-4756
wos:2011-2013
WOS:000289029400022
Driess, M (reprint author), Tech Univ Berlin, Inst Chem Metalorgan & Inorgan Mat, Str 17,Juni 135, D-10623 Berlin, Germany., matthias.driess@tu-berlin.de; arne.thomas@tu-berlin.de
Deutsche Forschungsgemeinschaft; TU Berlin
Yilmaz Aksu
Stefano Frasca
Ursula Wollenberger
Matthias Driess
Arne Thomas
eng
uncontrolled
indium tin oxide ITO
eng
uncontrolled
electrode
eng
uncontrolled
bioelectrochemistry
eng
uncontrolled
device
eng
uncontrolled
cytochrome c
Institut für Biochemie und Biologie
Referiert
41007
2018
2018
eng
156
doctoralthesis
1
--
--
--
Influence of sphingosine 1-phosphate and its receptor modulators on the development of liver fibrosis
online registration
Dissertation, Universität Potsdam, 2018
Frdoos Al Fadel
Biowissenschaften; Biologie
Institut für Biochemie und Biologie
Universität Potsdam
Universität Potsdam
48395
2020
2020
eng
215
doctoralthesis
1
--
--
2020-09-29
Biochemical studies to determine the role of Early Starvation 1 (ESV1) protein and its homologue Like-Early Starvation 1 (LESV) during starch degradation
Depending on the biochemical and biotechnical approach, the aim of this work was to understand the mechanism of protein-glucan interactions in regulation and control of starch degradation. Although starch degradation starts with the phosphorylation process, the mechanisms by which this process is controlling and adjusting starch degradation are not yet fully understood. Phosphorylation is a major process performed by the two dikinases enzymes α-glucan, water dikinase (GWD) and phosphoglucan water dikinase (PWD). GWD and PWD enzymes phosphorylate the starch granule surface; thereby stimulate starch degradation by hydrolytic enzymes. Despite these important roles for GWD and PWD, so far the biochemical processes by which these enzymes are able to regulate and adjust the rate of phosphate incorporation into starch during the degradation process haven‘t been understood. Recently, some proteins were found associated with the starch granule. Two of these proteins are named Early Starvation Protein 1 (ESV1) and its homologue Like-Early Starvation Protein 1 (LESV). It was supposed that both are involved in the control of starch degradation, but their function has not been clearly known until now. To understand how ESV1 and LESV-glucan interactions are regulated and affect the starch breakdown, it was analyzed the influence of ESV1 and LESV proteins on the phosphorylating enzyme GWD and PWD and hydrolysing enzymes ISA, BAM, and AMY. However, the analysis determined the location of LESV and ESV1 in the chloroplast stroma of Arabidopsis. Mass spectrometry data predicted ESV1and LESV proteins as a product of the At1g42430 and At3g55760 genes with a predicted mass of ~50 kDa and ~66 kDa, respectively. The ChloroP program predicted that ESV1 lacks the chloroplast transit peptide, but it predicted the first 56 amino acids N-terminal region as a chloroplast transit peptide for LESV. Usually, the transit peptide is processed during transport of the proteins into plastids. Given that this processing is critical, two forms of each ESV1 and LESV were generated and purified, a full-length form and a truncated form that lacks the transit peptide, namely, (ESV1and tESV1) and (LESV and tLESV), respectively. Both protein forms were included in the analysis assays, but only slight differences in glucan binding and protein action between ESV1 and tESV1 were observed, while no differences in the glucan binding and effect on the GWD and PWD action were observed between LESV and tLESV. The results revealed that the presence of the N-terminal is not massively altering the action of ESV1 or LESV. Therefore, it was only used the ESV1 and tLESV forms data to explain the function of both proteins.
However, the analysis of the results revealed that LESV and ESV1 proteins bind strongly at the starch granule surface. Furthermore, not all of both proteins were released after their incubation with starches after washing the granules with 2% [w/v] SDS indicates to their binding to the deeper layers of the granule surface. Supporting of this finding comes after the binding of both proteins to starches after removing the free glucans chains from the surface by the action of ISA and BAM. Although both proteins are capable of binding to the starch structure, only LESV showed binding to amylose, while in ESV1, binding was not observed. The alteration of glucan structures at the starch granule surface is essential for the incorporation of phosphate into starch granule while the phosphorylation of starch by GWD and PWD increased after removing the free glucan chains by ISA. Furthermore, PWD showed the possibility of starch phosphorylation without prephosphorylation by GWD.
Biochemical studies on protein-glucan interactions between LESV or ESV1 with different types of starch showed a potentially important mechanism of regulating and adjusting the phosphorylation process while the binding of LESV and ESV1 leads to altering the glucan structures of starches, hence, render the effect of the action of dikinases enzymes (GWD and PWD) more able to control the rate of starch degradation. Despite the presence of ESV1 which revealed an antagonistic effect on the PWD action as the PWD action was decreased without prephosphorylation by GWD and increased after prephosphorylation by GWD (Chapter 4), PWD showed a significant reduction in its action with or without prephosphorylation by GWD in the presence of ESV1 whether separately or together with LESV (Chapter 5). However, the presence of LESV and ESV1 together revealed the same effect compared to the effect of each one alone on the phosphorylation process, therefore it is difficult to distinguish the specific function between them. However, non-interactions were detected between LESV and ESV1 or between each of them with GWD and PWD or between GWD and PWD indicating the independent work for these proteins. It was also observed that the alteration of the starch structure by LESV and ESV1 plays a role in adjusting starch degradation rates not only by affecting the dikinases but also by affecting some of the hydrolysing enzymes since it was found that the presence of LESV and ESV1leads to the reduction of the action of BAM, but does not abolish it.
Ziel dieser Arbeit war es, den Mechanismus der Protein-Glucan-Wechselwirkungen bei der Regulation und Kontrolle des Stärkeabbaus zu verstehen. Der Stärkeabbau beginnt mit dem Phosphorylierungsprozess, der von den beiden Dikinasen, der a-Glucan, Wasserdikinase (GWD) und der Phosphoglucanwasserdikinase (PWD) durchgeführt wird. Kürzlich wurden einige Proteine gefunden, die mit dem Stärkegranulum assoziiert sind. Zwei dieser Proteine heißen Early Starvation 1 (ESV1) und das Homolog Like-Early Starvation (LESV), Es wurde vorgeschlagen, dass beide an der Kontrolle des Stärkeabbaus beteiligt sind, aber ihre Funktion ist bisher nicht bekannt.
Um zu verstehen, wie ESV1- und LESV-Glucan-Wechselwirkungen reguliert werden und den Stärkeabbau beeinflussen, wurde der Einfluss der beiden Proteine auf die Phosphorylierungsenzyme GWD und PWD, sowie die Hydrolasen isoamylase, betaamylase, und alpha-amylase ntersucht. Dabei ergab die Analyse, dass LESV und ESV1
nicht nur stark an der Oberfläche, sondern auch in den tieferen Schichten der Stärkegranula binden. Obwohl beide Proteine in der Lage sind, an die Stärkestruktur zu binden, zeigte nur LESV eine Bindung an Amylose, während für ESV1 keine Bindung beobachtet werden konnte.
Die Veränderung der Glucanstrukturen an der Oberfläche der Stärkekörner ist für den Einbau von Phosphat wesentlich, so nahm beispielsweise die Phosphorylierung der Stärke durch GWD und PWD nach Entfernung der freien Glucanketten mittels ISA zu. Darüber hinaus konnte ebenso gezeigt werden, dass PWD auch ohne eine
Präphosphorylierung durch GWD die Glucosyleinheiten innerhalb der Stärke phosphorylieren kann. Die Bindung von LESV und ESV1 führt zu einer Veränderung der Glucanstrukturen von Stärken, wodurch die Aktivität der Dikinasen (GWD und PWD) und somit die Geschwindigkeit des Stärkeabbaus wahrscheinlich besser gesteuert werden kann. Es wurden keine Wechselwirkungen zwischen LESV und ESV1 oder zwischen jedem von ihnen mit GWD und PWD oder zwischen GWD und PWD festgestellt, was auf die unabhängige Arbeit von diesen Proteinen hinweist. Es wurde auch beobachtet, dass die Modifikation der Stärkestruktur durch LESV und ESV1 eine Rolle bei der Anpassung der Stärkeabbauraten spielt, nicht nur durch Beeinflussung der Dikinasen, sondern auch durch die Beeinflussung einiger hydrolysierender Enzyme wie BAM. Den so zeigte die Amylase eine eindeutige Reduktion ihrer katalytischen Wirkung in Präsenz von LESV und ESV1.
Daraus resumierend kann davon ausgegangen werden, dass die beiden Proteine ESV1 und LESV für die Feinregulation des Stärkeabbaus von höchster Relevanz sind.
Biochemische Studien zur Bestimmung der Rolle des ESV1-Proteins
(Early Starvation 1) und seines Homologen Like-Early Starvation 1 (LESV) während des Stärkeabbaus
10.25932/publishup-48395
urn:nbn:de:kobv:517-opus4-483956
online registration
Dissertation, Universität Potsdam, 2020
WD 5560
Keine öffentliche Lizenz: Unter Urheberrechtsschutz
Shadha AL-Rawi
eng
uncontrolled
Early starvation protein
eng
uncontrolled
Like-Early starvation protein
eng
uncontrolled
Glucan water dikinase
eng
uncontrolled
Phosphoglucan water dikinase
eng
uncontrolled
Phosphorylation process
eng
uncontrolled
Starch metabolism
deu
uncontrolled
Early Starvation 1
deu
uncontrolled
Glucan-Wasser-Dikinase
deu
uncontrolled
Like-Early Starvation 1
deu
uncontrolled
Phosphoglucan-Wasser-Dikinase
deu
uncontrolled
Phosphorylierungsprozess
deu
uncontrolled
Stärkestoffwechsel
Naturwissenschaften und Mathematik
open_access
Institut für Biochemie und Biologie
Universität Potsdam
Universität Potsdam
https://publishup.uni-potsdam.de/files/48395/AL_rawi_diss.pdf
51827
2018
2018
eng
1
10
108
other
American Phytopathological Society
Saint Paul
1
--
2018-08-03
--
Identification of a novel target of the bacterial effector HopZ1a
The plant pathogen Pseudomonas syringae is a gram-negative bacterium which infects a wide range of plant species including important crops plants. To suppress plant immunity and cause disease P.syringae injects type-III effector proteins (T3Es) into the plant cell cytosol. In this study, we identified a novel target of the well characterized bacterial T3E HopZ1a. HopZ1a is an acetyltransferase that was shown to disrupt vesicle transport during innate immunity by acetylating tubulin. Using a yeast-two-hybrid screen approach, we identified a REMORIN (REM) protein from tobacco as a novel HopZ1a target. HopZ1a interacts with REM at the plasma membrane (PM) as shown by split-YFP experiments. Interestingly, we found that PBS1, a well-known kinase involved in plant immunity also interacts with REM in pull-down assays, and at the PM as shown by BiFC. Furthermore, we confirmed that REM is phosphorylated by PBS1 in vitro. Overexpression of REM provokes the upregulation of defense genes and leads to disease-like phenotypes pointing to a role of REM in plant immune signaling. Further protein-protein interaction studies reveal novel REM binding partners with a possible role in plant immune signaling. Thus, REM might act as an assembly hub for an immune signaling complex targeted by HopZ1a. Taken together, this is the first report describing that a REM protein is targeted by a bacterial effector. How HopZ1a might mechanistically manipulate the plant immune system through interfering with REM function will be discussed.
Phytopathology
0031-949X
1943-7684
wos:2018
International Congress of Plant Pathology (ICPP)
JUL 29-AUG 03, 2018
WOS:000447398201293
Boston, MA
2021-09-20T16:03:02+00:00
sword
importub
filename=package.tar
ec29fc65448e7e572b49bd912f0bdd11
false
true
Philip Albers
Suayib Uestuen
Katja Witzel
Frederik Bornke
Biowissenschaften; Biologie
Institut für Biochemie und Biologie
Import
48264
2019
2019
eng
1229
1242
14
9
32
article
Amer phytopathological SOC
ST Paul
1
2019-08-05
--
--
A Remorin from Nicotiana benthamiana Interacts with the Pseudomonas Type-III Effector Protein HopZ1a and is Phosphorylated by the Immune-Related Kinase PBS1
The plasma membrane (PM) is at the interface of plant-pathogen interactions and, thus, many bacterial type-III effector (T3E) proteins target membrane-associated processes to interfere with immunity. The Pseudomonas syringae T3E HopZ1a is a host cell PM-localized effector protein that has several immunity-associated host targets but also activates effector-triggered immunity in resistant backgrounds. Although HopZ1a has been shown to interfere with early defense signaling at the PM, no dedicated PM-associated HopZ1a target protein has been identified until now. Here, we show that HopZ1a interacts with the PM-associated remorin protein NbREM4 from Nicotiana benthamiana in several independent assays. NbREM4 relocalizes to membrane nanodomains after treatment with the bacterial elicitor flg22 and transient overexpression of NbREM4 in N. benthamiana induces the expression of a subset of defense-related genes. We can further show that NbREM4 interacts with the immune-related receptor-like cytoplasmic kinase avrPphB-susceptible 1 (PBS1) and is phosphorylated by PBS1 on several residues in vitro. Thus, we conclude that NbREM4 is associated with early defense signaling at the PM. The possible relevance of the HopZ1a-NbREM4 interaction for HopZ1a virulence and avirulence functions is discussed.
Molecular Plant-Microbe Interactions
10.1094/MPMI-04-19-0105-R
31012804
0894-0282
1943-7706
wos:2019
WOS:000484540600016
Bornke, F (reprint author), Leibniz Inst Vegetable & Ornamental Crops IGZ, Plant Metab, D-14979 Grossbeeren, Germany.; Bornke, F (reprint author), Univ Potsdam, Inst Biochem & Biol, D-14476 Potsdam, Germany., boernke@igzev.de
Deutsche ForschungsgemeinschaftGerman Research Foundation (DFG) [BO1916/5-1, BO1916/5-2]
importub
2020-11-15T17:53:10+00:00
filename=package.tar
3a303e7373e1a69d217236c402218aa6
false
true
Philip Albers
Suayib Üstün
Katja Witzel
Max Erdmund Kraner
Frederik Börnke
eng
uncontrolled
bacterial pathogenesis
eng
uncontrolled
defense signaling pathways
eng
uncontrolled
effectors
eng
uncontrolled
elicitors
eng
uncontrolled
HopZ1a
eng
uncontrolled
MAMPs
eng
uncontrolled
PAMPs
eng
uncontrolled
PBS1
eng
uncontrolled
Pseudomonas syringae
eng
uncontrolled
remorin
eng
uncontrolled
type-3 secretion
Biowissenschaften; Biologie
Institut für Biochemie und Biologie
Referiert
Open Access
Import
Hybrid Open-Access
38643
2015
2015
eng
1109
1120
12
9
124
article
Wiley-Blackwell
Hoboken
1
--
--
--
Seed dispersal by ungulates as an ecological filter: a trait-based meta-analysis
Plant communities are often dispersal-limited and zoochory can be an efficient mechanism for plants to colonize new patches of potentially suitable habitat. We predicted that seed dispersal by ungulates acts as an ecological filter - which differentially affects individuals according to their characteristics and shapes species assemblages - and that the filter varies according to the dispersal mechanism (endozoochory, fur-epizoochory and hoof-epizoochory). We conducted two-step individual participant data meta-analyses of 52 studies on plant dispersal by ungulates in fragmented landscapes, comparing eight plant traits and two habitat indicators between dispersed and non-dispersed plants. We found that ungulates dispersed at least 44% of the available plant species. Moreover, some plant traits and habitat indicators increased the likelihood for plant of being dispersed. Persistent or nitrophilous plant species from open habitats or bearing dry or elongated diaspores were more likely to be dispersed by ungulates, whatever the dispersal mechanism. In addition, endozoochory was more likely for diaspores bearing elongated appendages whereas epizoochory was more likely for diaspores released relatively high in vegetation. Hoof-epizoochory was more likely for light diaspores without hooked appendages. Fur-epizoochory was more likely for diaspores with appendages, particularly elongated or hooked ones. We thus observed a gradient of filtering effect among the three dispersal mechanisms. Endozoochory had an effect of rather weak intensity (impacting six plant characteristics with variations between ungulate-dispersed and non-dispersed plant species mostly below 25%), whereas hoof-epizoochory had a stronger effect (eight characteristics included five ones with above 75% variation), and fur-epizoochory an even stronger one (nine characteristics included six ones with above 75% variation). Our results demonstrate that seed dispersal by ungulates is an ecological filter whose intensity varies according to the dispersal mechanism considered. Ungulates can thus play a key role in plant community dynamics and have implications for plant spatial distribution patterns at multiple scales.
Oikos
10.1111/oik.02512
0030-1299
1600-0706
wos:2015
WOS:000360823400001
Albert, A (reprint author), UR EFNO, Irstea, Domaine Barres, FR-45290 Nogent Sur Vernisson, France., aurelie84.albert@gmail.com
Conservation and Nuclear Safety, Germany [ISE 01LN0003]; Swedish
research program EkoKlim; [S-2009/AMB/1783]; [CGL2011-24871/BOS]
Aurelie Albert
Alistair G. Auffret
Eric Cosyns
Sara A. O. Cousins
Carsten Eichberg
Amy E. Eycott
Thilo Heinken
Maurice Hoffmann
Bogdan Jaroszewicz
Juan E. Malo
Anders Marell
Maarten Mouissie
Robin J. Pakeman
Melanie Picard
Jan Plue
Peter Poschlod
Sam Provoost
Kiowa Alraune Schulze
Christophe Baltzinger
Institut für Biochemie und Biologie
Referiert
37221
2011
2011
eng
217
225
9
3
13
article
Elsevier
Jena
1
--
--
--
When and how should intraspecific variability be considered in trait-based plant ecology?
Trait-based studies have become extremely common in plant ecology. Trait-based approaches often rely on the tacit assumption that intraspecific trait variability (ITV) is negligible compared to interspecific variability, so that species can be characterized by mean trait values. Yet, numerous recent studies have challenged this assumption by showing that ITV significantly affects various ecological processes. Accounting for ITV may thus strengthen trait-based approaches, but measuring trait values on a large number of individuals per species and site is not feasible. Therefore, it is important and timely to synthesize existing knowledge on ITV in order to (1) decide critically when ITV should be considered, and (2) establish methods for incorporating this variability. Here we propose a practical set of rules to identify circumstances under which ITV should be accounted for. We formulate a spatial trait variance partitioning hypothesis to highlight the spatial scales at which ITV cannot be ignored in ecological studies. We then refine a set of four consecutive questions on the research question, the spatial scale, the sampling design, and the type of studied traits, to determine case-by-case if a given study should quantify ITV and test its effects. We review methods for quantifying ITV and develop a step-by-step guideline to design and interpret simulation studies that test for the importance of ITV. Even in the absence of quantitative knowledge on ITV, its effects can be assessed by varying trait values within species within realistic bounds around the known mean values. We finish with a discussion of future requirements to further incorporate ITV within trait-based approaches. This paper thus delineates a general framework to account for ITV and suggests a direction towards a more quantitative trait-based ecology.
Perspectives in plant ecology, evolution and systematics
10.1016/j.ppees.2011.04.003
1433-8319
wos:2011-2013
WOS:000296000300007
Albert, CH (reprint author), Univ Grenoble 1, CNRS UMR 5553, Lab Ecol Alpine, BP 53, F-38041 Grenoble 9, France., cecile.albert@m4x.org
ANR [ANR-07-CIS7, ANR-07-BDIV-014, ANR-05-BDIV-009]; la Region
Rhone-Alpes (France); ANR-MEEDDAT VITAL [09P00954]; region "Basse
Normandie" (France); European Union [MTKD-CT-2006-042261]; European
Community [221060]
Cécile H. Albert
Fabrice Grassein
Frank Martin Schurr
Ghislain Vieilledent
Cyrille Violle
eng
uncontrolled
Comparative ecology
eng
uncontrolled
Functional ecology
eng
uncontrolled
Genetic variability
eng
uncontrolled
Intraspecific functional variability
eng
uncontrolled
Phenotypic plasticity
eng
uncontrolled
Plant functional hairs
eng
uncontrolled
Within-species variability
Institut für Biochemie und Biologie
Referiert
51257
2018
2018
eng
1196
1208
13
6
18
article
Wiley
Hoboken
1
--
2018-06-07
--
Optimized DNA sampling of ancient bones using Computed Tomography scans
The prevalence of contaminant microbial DNA in ancient bone samples represents the principal limiting factor for palaeogenomic studies, as it may comprise more than 99% of DNA molecules obtained. Efforts to exclude or reduce this contaminant fraction have been numerous but also variable in their success. Here, we present a simple but highly effective method to increase the relative proportion of endogenous molecules obtained from ancient bones. Using computed tomography (CT) scanning, we identify the densest region of a bone as optimal for sampling. This approach accurately identifies the densest internal regions of petrous bones, which are known to be a source of high-purity ancient DNA. For ancient long bones, CT scans reveal a high-density outermost layer, which has been routinely removed and discarded prior to DNA extraction. For almost all long bones investigated, we find that targeted sampling of this outermost layer provides an increase in endogenous DNA content over that obtained from softer, trabecular bone. This targeted sampling can produce as much as 50-fold increase in the proportion of endogenous DNA, providing a directly proportional reduction in sequencing costs for shotgun sequencing experiments. The observed increases in endogenous DNA proportion are not associated with any reduction in absolute endogenous molecule recovery. Although sampling the outermost layer can result in higher levels of human contamination, some bones were found to have more contamination associated with the internal bone structures. Our method is highly consistent, reproducible and applicable across a wide range of bone types, ages and species. We predict that this discovery will greatly extend the potential to study ancient populations and species in the genomics era.
Molecular ecology resources
10.1111/1755-0998.12911
29877032
1755-098X
1755-0998
wos:2018
WOS:000449535600003
Hofreiter, M; Barlow, A (reprint author), Univ Potsdam, Inst Biochem & Biol, D-14476 Potsdam, Germany.; Hildebrandt, T (reprint author), Forsch Verbund Berli eV, Leibniz Inst Zoo & Wildlife Res, Alfred Kowalke Str 17, D-10315 Berlin, Germany., hildebrand@izw-berlin.de; michi@palaeo.eu; axel.barlow.ab@gmail.com
ERC consolidator grant GeneFlow [310763]; Klaus Tschira foundation [00.298.2016]
2021-07-08T16:42:08+00:00
sword
importub
filename=package.tar
d7f2cca9f650e212a70d03859c858db5
Barlow, Axel
Hofreiter, Michael
Hildebrandt, Thomas
false
true
Federica Alberti
Javier Gonzalez
Johanna L. A. Paijmans
Nikolas Basler
Michaela Preick
Kirstin Henneberger
Alexandra Trinks
Gernot Rabeder
Nicholas J. Conard
Susanne C. Muenzel
Ulrich Joger
Guido Fritsch
Thomas Hildebrandt
Michael Hofreiter
Axel Barlow
eng
uncontrolled
ancient DNA
eng
uncontrolled
computer tomography
eng
uncontrolled
palaeogenomics
eng
uncontrolled
paleogenetics
eng
uncontrolled
petrous bone
Biowissenschaften; Biologie
Institut für Biochemie und Biologie
Referiert
Import
Green Open-Access
23498
1998
1998
eng
article
1
--
--
--
Homo- and Heterodimers of Pho1-Type Phosphorylase Isoforms in Solanum tuberosum L. as Revealed by Sequence- Specific Antibodies
allegro:1991-2014
10085760
European Journal of Biochemistry. - 251 (1998), S. 343 - 352
Tanja Albrecht
Burkhard Greve
Kerstin Pusch
Jens Koßmann
Peter Buchner
Ulrich Wobus
Martin Steup
Institut für Biochemie und Biologie
Institut für Biochemie und Molekulare Physiologie
15035
2004
2004
eng
article
1
--
--
--
Yeast glycogenin (Glg2p) produced in Escherichia coli is simultaneously glucosylated at two vicinal tyrosin residues but results in a reduced bacterial glycogen accumulation
Saccharomyces cerevisiae possesses two glycogenin isoforms (designated as Glg1p and Glg2p) that both contain a conserved tyrosine residue, Tyr232. However, Glg2p possesses an additional tyrosine residue, Tyr230 and therefore two potential autoglucosylation sites. Glucosylation of Glg2p was studied using both matrix-assisted laser desorption ionization and electrospray quadrupole time of flight mass spectrometry. Glg2p, carrying a C-terminal (His(6)) tag, was produced in Escherichia coli and purified. By tryptic digestion and reversed phase chromatography a peptide (residues 219-246 of the complete Glg2p sequence) was isolated that contained 4-25 glucosyl residues. Following incubation of Glg2p with UDPglucose, more than 36 glucosyl residues were covalently bound to this peptide. Using a combination of cyanogen bromide cleavage of the protein backbone, enzymatic hydrolysis of glycosidic bonds and reversed phase chromatography, mono- and diglucosylated peptides having the sequence PNYGYQSSPAM were generated. MS/MS spectra revealed that glucosyl residues were attached to both Tyr232 and Tyr230 within the same peptide. The formation of the highly glucosylated eukaryotic Glg2p did not favour the bacterial glycogen accumulation. Under various experimental conditions Glg2p-producing cells accumulated approximately 30% less glycogen than a control transformed with a Glg2p lacking plasmid. The size distribution of the glycogen and extractable activities of several glycogen-related enzymes were essentially unchanged. As revealed by high performance anion exchange chromatography, the intracellular maltooligosaccharide pattern of the bacterial cells expressing the functional eukaryotic transgene was significantly altered. Thus, the eukaryotic glycogenin appears to be incompatible with the bacterial initiation of glycogen biosynthesis
allegro:1991-2014
10097057
European Journal of Biochemistry. - 271 (2004), 20, S. 3978 - 3989
Tanja Albrecht
Sophie Haebel
Anke Koch
Ulrike Krause
Nora Eckermann
Martin Steup
Institut für Biochemie und Biologie
Nicht ermittelbar
18406
2001
2001
eng
article
1
--
--
--
Plastidic (Pho1-type) phosphorylase isoforms in potato (Solanum tuberosum L.) plants : expression analysis and immunochemical characterization
allegro:1991-2014
10094762
Planta. - 213 (2001), S. 602 - 613
Tanja Albrecht
Anke Koch
Anja Lode
Burkhard Greve
Jens Schneider-Mergener
Martin Steup
Institut für Biochemie und Biologie
14312
2004
2004
eng
article
1
--
--
--
Erysiphe catalpae and E. elevata in Europe
allegro:1991-2014
10096952
Mycological progress : international journal of fungal sciences. - 3 (2004), S. 291 - 296
Nosratollah Ale-Agha
Adrien Bolay
Uwe Braun
Horst Jage
Volker Kummer
Ales Lebeda
Marcin Piatek
Hyeon-Dong Shin
Katarina Zimmermannova-Pastircakova
Institut für Biochemie und Biologie
Referiert
30155
2008
2008
eng
book
1
--
--
--
Taxonomy, host range and distribution of some powdery mildew fungi (Erysiphales)
Oidium pedaliacearum sp. nov. (; O. sesami, nom. inval.) and Podosphaera macrospora comb. et stat. nov. (; Sphaerotheca alpina f. macrospora) are introduced, and the taxonomy and distribution of Erysiphe celosiae is discussed. New host species and new collections of Erysiphe cruciferarum (on Cleome hassleriana), E. flexuosa (on Aesculus hippocastanum), E. hedwigii (on Viburnum carlesii), E. heraclei (on Tinguarra montana), E. cf. macleayae (on Macleaya cordata), E. prunastri (on Prunus cerasifera), E. sedi (on Sedum aff. spectabilis), E. trifolii (on Trigonella caerulea), Golovinomyces cichoracearum (on Argyranthemum pinnatifidum subsp. succulentum), G. cf. hydrophyllacearum (on Nemophila menziesii), G. orontii (on Nolana spp.), G. cf. orontii (on Tiarella cordifolia), Neoerysiphe cumminsiana (on Bidens cf. ferulifolia), Oidium clitoriae (on Clitoria ternatea), O. cf. hortensiae (on Philadelphus coronarius), O. pedilanthi (on Pedilanthus tithymaloides), Oidium (Pseudoidium) sp. (on Utricularia alpina), Podosphaera sp. (on Bergia capensis), Sawadaea bicornis (on Acer platanoides) and S. tulasnei (on Acer ginnala and A. tatarica) are recorded from France, Germany, Greece and Mexico.
allegro:1991-2014
10105949
Schlechtendalia. - 17 (2008), S. 39 - 54
Nosratollah Ale-Agha
H. Boyle
Uwe Braun
H. Butin
Horst Jage
Volker Kummer
H. Shin
Institut für Biochemie und Biologie
Nicht referiert
42093
2018
2018
2018
eng
109
doctoralthesis
1
2018-12-14
2018-12-14
2018-11-23
Characterization of altered inflorescence architecture in Arabidopsis thaliana BG-5 x Kro-0 hybrid
Charakterisierung veränderter Blütenstandarchitektur in Arabidopsis thaliana BG-5 x Kro-0-Hybrid
A reciprocal cross between two A. thaliana accessions, Kro-0 (Krotzenburg, Germany) and BG-5 (Seattle, USA), displays purple rosette leaves and dwarf bushy phenotype in F1 hybrids when grown at 17 °C and a parental-like phenotype when grown at 21 °C. This F1 temperature-dependent-dwarf-bushy phenotype is characterized by reduced growth of the primary stem together with an increased number of branches. The reduced stem growth was the strongest at the first internode. In addition, we found that a temperature switch from 21 °C to 17 °C induced the phenotype only before the formation of the first internode of the stem. Similarly, the F1 dwarf-bushy phenotype could not be reversed when plants were shifted from 17 °C to 21 °C after the first internode was formed. Metabolic analysis showed that the F1 phenotype was associated with a significant upregulation of anthocyanin(s), kaempferol(s), salicylic acid, jasmonic acid and abscisic acid. As it has been previously shown that the dwarf-bushy phenotype is linked to two loci, one on chromosome 2 from Kro-0 and one on chromosome 3 from BG-5, an artificial micro-RNA approach was used to investigate the necessary genes on these intervals. From the results obtained, it was found that two genes, AT2G14120 that encodes for a DYNAMIN RELATED PROTEIN3B and AT2G14100 that encodes a member of the Cytochrome P450 family protein CYP705A13, were necessary for the appearance of the F1 phenotype on chromosome 2. It was also discovered that AT3G61035 that encodes for another cytochrome P450 family protein CYP705A13 and AT3G60840 that encodes for a MICROTUBULE-ASSOCIATED PROTEIN65-4 on chromosome 3 were both necessary for the induction of the F1 phenotype. To prove the causality of these genes, genomic constructs of the Kro-0 candidate genes on chromosome 2 were transferred to BG-5 and genomic constructs of the chromosome 3 candidate genes from BG-5 were transferred to Kro-0. The T1 lines showed that these genes are not sufficient alone to induce the phenotype. In addition to the F1 phenotype, more severe phenotypes were observed in the F2 generations that were grouped into five different phenotypic classes. Whilst seed yield was comparable between F1 hybrids and parental lines, three phenotypic classes in the F2 generation exhibited hybrid breakdown in the form of reproductive failure. This F2 hybrid breakdown was less sensitive to temperature and showed a dose-dependent effect of the loci involved in F1 phenotype. The severest class of hybrid breakdown phenotypes was observed only in the population of backcross with the parent Kro-0, which indicates a stronger contribution of the BG-5 allele when compared to the Kro-0 allele on the hybrid breakdown phenotypes. Overall, the findings of my thesis provide a further understanding of the genetic and metabolic factors underlying altered shoot architecture in hybrid dysfunction.
Die reziproke Kreuzung der zwei A. thaliana-Akzessionen Kro-0 aus Krotzenburg (Deutschland) sowie BG-5 aus Seattle (USA) manifestiert sich in einem Zwergbusch-Phänotyp in den F1 Hybriden bei 17 °C. Dagegen zeigen die Nachkommen bei 21 °C einen Phänotyp, der den Eltern ähnelt. Somit handelt es sich bei dieser Kreuzung um einen temperaturabhängigen Phänotyp. Dieser ist gekennzeichnet durch einen gestörten Wuchs des Primärstammes sowie einer vermehrten Anzahl an gebildeten Seitenzweigen. Das gestörte Wachstum des Hauptsprosses ist am gravierendsten rund um das 1. Internodium der Pflanzen. Es konnte gezeigt werden, dass durch einen Temperaturwechsel von 21 °C auf 17 °C der Phänotyp nur induziert werden kann vor der Bildung des 1. Internodiums. Im Gegenzug dazu ist ebenfalls die Rettung des parentalen Phänotyps nur möglich vor der Bildung des 1. Internodiums am Hauptspross. Des Weiteren zeigten metabolische und hormonelle Analysen der F1 Hybriden eine signifikante Erhöhung von Anthozyanen, Kaempferol, Salizylsäure, Jasmonsäure sowie Abscisinsäure. In Vorarbeiten wurde der Phänotyp bereits mit zwei verschiedenen Loci verknüpft, einer befindet sich auf Chromosom 2 der Elternlinie Kro-0, der andere auf Chromosom 3 von BG-5. Mittels eines micro-RNA Versuches konnte ich zeigen, dass die zwei Gene AT2G14120 DYNAMIN RELATED PROTEIN3B und CYP705A13, welches zur Familie des Zytochrom P450 gehört, auf dem Chromosom 2 von Kro-0 involviert sind. Auf Chromosom 3 von BG-5 gehören die Gene CYP76C8P (AT3G61035) sowie MICROTUBULE-ASSOCIATED65-4 (AT3G60840) zu den verantwortlichen Genen. Es wurden genomische Konstrukte der Kro-0-Kandidatengene auf BG-5 übertragen sowie ebenfalls genomische Konstrukte der Chr3-Kandidatengene auf Kro-0 übertragen. Die T1-Linien bewiesen keines dieser Gene als allein ausreichend. Zusätzlich zu dem F1-Phänotyp wurden in den F2-Generationen, die in fünf verschiedene phänotypische Klassen eingeteilt waren, schwerwiegendere Phänotypen beobachtet. Während die Samenausbeute zwischen F1-Hybriden und Elternlinien vergleichbar war, zeigten drei phänotypische Klassen in der F2-Generationen einen Hybridabbau in Form von Fortpflanzungsversagen. Dieser F2-Hybridabbau war weniger temperaturempfindlich und zeigte einen dosisabhängigen Effekt, basierend auf der genetischen Architektur der am F1-Phänotyp beteiligten Loci. Die schwerste Klasse von hybriden Abbauphänotypen wurde nur in der Population von Rückkreuzungen mit dem Elternteil Kro-0 beobachtet, was einen stärkeren Beitrag des BG-5-Allels im Vergleich zu dem Kro-0-Allel auf den hybriden Abbauphänotypen anzeigt. Insgesamt liefern die Ergebnisse meiner Dissertation ein weiteres Verständnis der genetischen und metabolischen Faktoren, die der veränderten Sprossarchitektur bei hybrider Dysfunktion zugrunde liegen.
urn:nbn:de:kobv:517-opus4-420934
online registration
Dissertation, Universität Potsdam, 2018
WN 5500
CC-BY - Namensnennung 4.0 International
Dema Alhajturki
eng
uncontrolled
hybrid incompatibility
deu
uncontrolled
hybride Inkompatibilität
eng
uncontrolled
hybrid breakdown
deu
uncontrolled
Hybridzerfall
eng
uncontrolled
altered shoot branching
deu
uncontrolled
veränderte Triebverzweigung
Biowissenschaften; Biologie
open_access
Institut für Biochemie und Biologie
Nicht referiert
Universität Potsdam
Universität Potsdam
https://publishup.uni-potsdam.de/files/42093/diss_alhajturki.pdf
44763
2016
2016
eng
76
81
6
225
article
American Chemical Society
Jena
1
--
--
--
Microthlaspi erraticum (Jord.) T. Ali et Thines has a wide distribution, ranging from the Alps to the Tien Shan
Microthlaspi is a predominantly Eurasian genus which also occurs in the northernmost parts of Africa (Maghreb). The most widespread species of the genus is M. perfoliatum, which can be found from Sweden to Algeria and from Portugal to China. The other species are thought to have much more confined distribution ranges, often covering only a few hundred kilometres. This is also believed for the diploid M. erraticum, which was recently re-appraised as a taxon independent from the tetra- to hexaploid M. perfoliatum. Previously, M. erraticum was believed to be present only in Central Europe, from the East of France to Slovenia. In order to gain a deeper understanding of the ecology, evolution and migration history of Microthlaspi it was the focus of the current study to investigate, if M. erraticum is present in habitats outside Central Europe, but with microclimates similar to Central Europe. It is demonstrated that M. erraticum is much more widespread than previously thought, while other lineages apart from M. perfoliatum s.str. and M. erraticum seem to have restricted distribution ranges. The latter species was observed from the Alps and their foreland, the Balkans, the mountainous areas around the Black Sea, Southern Siberia, as well as the Altai and Tien Shan mountains. This demonstrates a widespread occurrence of this easily-overlooked species. (C) 2016 Elsevier GmbH. All rights reserved.
Flora : morphology, distribution, functional ecology of plants
10.1016/j.flora.2016.09.008
0367-2530
1618-0585
wos2016:2019
WOS:000392562000009
Thines, M (reprint author), Goethe Univ, Inst Ecol Evolut & Div, Dept Biol, Campus Riedberg,Max von Laue Str 13, 0-60439 Frankfurt, Germany., marco.thines@senckenberg.de
importub
2020-03-22T12:54:01+00:00
filename=package.tar
aebd06d3a895b45f38ce28d4b2ae9308
Tahir Ali
Fabian Runge
Ayan Dutbayev
Angelika Schmuker
Irina Solovyeva
Lisa Nigrelli
Ann-Katrin Buch
Xiaojuan Xia
Sebastian Ploch
Ouria Orren
Volker Kummer
Juraj Paule
Ali Celik
Ljudmila Vakhrusheva
Ivan Gabrielyan
Marco Thines
eng
uncontrolled
Biogeography
eng
uncontrolled
Coluteocarpeae
eng
uncontrolled
Noccaea
eng
uncontrolled
Phylogeny
eng
uncontrolled
Species complex
eng
uncontrolled
Thlaspi perfoliatum
Institut für Biochemie und Biologie
Referiert
Import
47580
2020
2020
eng
xix, 111
doctoralthesis
1
--
--
2020-08-13
Movement strategies of a multi-mode bacterial swimmer
Bacteria are one of the most widespread kinds of microorganisms that play essential roles in many biological and ecological processes. Bacteria live either as independent individuals or in organized communities. At the level of single cells, interactions between bacteria, their neighbors, and the surrounding physical and chemical environment are the foundations of microbial processes. Modern microscopy imaging techniques provide attractive and promising means to study the impact of these interactions on the dynamics of bacteria. The aim of this dissertation is to deepen our understanding four fundamental bacterial processes – single-cell motility, chemotaxis, bacterial interactions with environmental constraints, and their communication with neighbors – through a live cell imaging technique. By exploring these processes, we expanded our knowledge on so far unexplained mechanisms of bacterial interactions.
Firstly, we studied the motility of the soil bacterium Pseudomonas putida (P. putida), which swims through flagella propulsion, and has a complex, multi-mode swimming tactic. It was recently reported that P. putida exhibits several distinct swimming modes – the flagella can push and pull the cell body or wrap around it. Using a new combined phase-contrast and fluorescence imaging set-up, the swimming mode (push, pull, or wrapped) of each run phase was automatically recorded, which provided the full swimming statistics of the multi-mode swimmer. Furthermore, the investigation of cell interactions with a solid boundary illustrated an asymmetry for the different swimming modes; in contrast to the push and pull modes, the curvature of runs in wrapped mode was not affected by the solid boundary. This finding suggested that having a multi-mode swimming strategy may provide further versatility to react to environmental constraints.
Then we determined how P. putida navigates toward chemoattractants, i.e. its chemotaxis strategies. We found that individual run modes show distinct chemotactic responses in nutrition gradients. In particular, P. putida cells exhibited an asymmetry in their chemotactic responsiveness; the wrapped mode (slow swimming mode) was affected by the chemoattractant, whereas the push mode (fast swimming mode) was not. These results can be seen as a starting point to understand more complex chemotaxis strategies of multi-mode swimmers going beyond the well-known paradigm of Escherichia coli, that exhibits only one swimming mode.
Finally we considered the cell dynamics in a dense population. Besides physical interactions with their neighbors, cells communicate their activities and orchestrate their population behaviors via quorum-sensing. Molecules that are secreted to the surrounding by the bacterial cells, act as signals and regulate the cell population behaviour. We studied P. putida’s motility in a dense population by exposing the cells to environments with different concentrations of chemical signals. We found that higher amounts of chemical signals in the surrounding influenced the single-cell behaviourr, suggesting that cell-cell communications may also affect the flagellar dynamics.
In summary, this dissertation studies the dynamics of a bacterium with a multi-mode swimming tactic and how it is affected by the surrounding environment using microscopy imaging. The detailed description of the bacterial motility in fundamental bacterial processes can provide new insights into the ecology of microorganisms.
Bakterien gehören zu den am weitesten verbreiteten Mikroorganismen mit einer essentiellen Bedeutung in vielen biologischen und okologischen Prozessen. Bakterien können entweder als unabhängige Individuen oder in organisierten Gemeinschaften leben. Auf dem Level einer einzelnen Zelle sind Interaktionen zwischen Bakterien, ihren Nachbarn und des umgebenden physikalischen und chemischen Umwelt die Grundlage von mikrobiellen Prozessen. Mikroskopische Bildgebungs techniken bieten attraktive und vielversprechende Möglichkeiten den Einfluß dieses Interaktionen auf die Dynamik von Bakterien zu untersuchen. Das ziel dieser Dissertation ist es, vier fundamentale bakterielle Prozesse mittels Lebendzell-Mikroskopie besser zu verstehen – die Einzelzellbewegung, die Chemotaxis, die Wechselwirkungen der Bakterien mit der Umgebung und ihre Kommunikation mit Nachbarzellen. Durch die Untersuchung dieser Prozesse konnten wir das Wissen über die bisher ungeklärten Mechanismen der bakteriellen Interaktionen erweitern.
Als Erstes untersuchten wir die Fortbewegung des Bodenbakteriums Pseudomonas putida (P. putida), welches mit Hilfe eines Flagellenantriebs schwimmt und eine komplexe multi-mode Schwimmstrategie aufweist. Kürzlich wurde veröffentlich, dass P. putida mehrere unterschiedliche Schwimmmodi besitzt – die Flagellen können den Zellkörper nach vorne drücken (push) oder ziehen (pull) oder sich um ihn wickeln (wrap). Unter Verwendung einer neuen Methode, der kombinierten Phasenkontrast- und Fluoreszenzmikroskopie, konnten die Schwimmmodi (push, pull oder wrap) für jede Schwimmphase automatisch aufgenommen werden, was eine vollständige Schwimmstatistik des multi-mode Schwimmers lieferte. Weiterhin zeigte die Untersuchung von Interaktionen mit einer festen Grenzschicht eine Asymmetrie bezüglich der verschiedenen Schwimmmodi. Im Gegensatz zu push und pull, der wrapped Modus nicht durch die feste Grenzschicht beeinflusst. Diese Ergebnisse lassen vermuten, dass eine multi-mode Schwimmstrategie dem Bakterium weitere möglichkeiten bietet, sich an die Umgebungsbedingungen anzupassen.
Als Nächstes haben wir bestimmt, wie P. putida in Richtung eines Lockstoffes navigiert (Chemotaxis). Wir haben herausgefunden, dass einzelne Schwimmmodi eine unterschiedliche chemotaktische Antwort in Nährstoff-gradienten zeigen. P. putida besitzt eine Asymmetrie in seiner chemotaktischen Ansprechbarkeit: der wrapped Modus (langsamer Schwimmmodus) wird vom Lockstoff beeinflusst, der push Modus (schneller Schwimmmodus) hingegen nicht. Diese Ergebnisse können als Ausgangspunkt gesehen werden, um komplexere Chemotaxisstrategien von mulit-mode Schwimmern zu verstehen, die über das bekannte Musterbeispiel Escherichia coli hinaus gehen, des nur einen schwimmmodus aufweist.
schließend haben wir die Zelldynamik in dichten Kulturen untersucht. Neben den physikalischen Interaktionen mit den Nachbarzellen, kommunizieren zellen ihre Aktivitäten und organisieren ihr Populationsverhalten über quorum sensing. Moleküle, die von den Bakterienzellen in die Umgebung sekretiert werden, wirken als Signale und regulieren das Verhalten der Zellpopulation. Wir haben die Bewegung von P. putida in hoher Zelldichte untersucht, indem wir die Zellen unterschiedlichen Konzentrationen dieses Moleküle aussetzten. Wir haben festgestellt, dass größere Mengen dieser signalstoffe in der Umgebung die Einzelzelldynamik beeinflusst haben. Dies lässt uns vermuten, dass sich die Zell-Zell-Kommunikation auch auf die Flagellendynamik auswirkt.
Zusammenfassend zeigt diese Dissertation mittels Mikroskopie die Dynamik von einem Bakterium mit multi-mode Schwimmstrategie und wie die umgebende Umwelt diese Dynamik beeinflußt. Die detaillierte Beschreibung der Bakterienmotilität in grundlegenden bakteriellen Prozessen kann neue Erkenntnisse für die ökologie der Mikroorganismen bringen.
Bewegungsstrategien von bakteriellenmulti-mode Schwimmern
10.25932/publishup-47580
urn:nbn:de:kobv:517-opus4-475806
online registration
Dissertation, Universität Potsdam, 2020
WF 5300
Keine öffentliche Lizenz: Unter Urheberrechtsschutz
Zahra Alirezaeizanjani
eng
uncontrolled
Single-cell motility
deu
uncontrolled
Einzelzellbewegung
eng
uncontrolled
Chemotaxis
deu
uncontrolled
Chemotaxis
deu
uncontrolled
Flagellen
eng
uncontrolled
Flagella
eng
uncontrolled
Bacteria
deu
uncontrolled
Bakterien
Naturwissenschaften und Mathematik
open_access
Institut für Biochemie und Biologie
Universität Potsdam
Universität Potsdam
https://publishup.uni-potsdam.de/files/47580/alirezaeizanjani_diss.pdf
46543
2017
2017
eng
S281
S281
1
46
other
Springer
New York
1
--
--
--
How growth conditions affect bacterial chemotaxis responses
European biophysics journal : with biophysics letters ; an international journal of biophysics
0175-7571
1432-1017
wos:2017
19th IUPAB Congress / 11th EBSA Congress
JUL 16-20, 2017
WOS:000416406201521
British Biophys Soc, Edinburgh, SCOTLAND, British Biophys Soc
importub
2020-04-20T02:21:01+00:00
filename=package.tar
22a0b2971768851e4f935d008dd91ab8
Zahra Alirezaeizanjani
V. Waljor
Marius Hintsche
Carsten Beta
Institut für Biochemie und Biologie
Referiert
Import
33901
2012
2012
eng
138 S.
doctoralthesis
Potsdam
1
--
--
--
Further insights into plastid tRNA and reading of the genetic code in Nicotiana tabacum and Analysis of plastid ribosomal proteins in nicotiana tabacum
allegro:1991-2014
10110928
Potsdam, Univ., Diss., 2012
Sibah Alkatib
Institut für Biochemie und Biologie
48500
2019
2019
eng
13
16
20
article
MDPI
Basel
1
--
2019-08-16
--
A Zinpyr-1-based Fluorimetric Microassay for Free Zinc in Human Serum
Zinc is an essential trace element, making it crucial to have a reliable biomarker for evaluating an individual’s zinc status. The total serum zinc concentration, which is presently the most commonly used biomarker, is not ideal for this purpose, but a superior alternative is still missing. The free zinc concentration, which describes the fraction of zinc that is only loosely bound and easily exchangeable, has been proposed for this purpose, as it reflects the highly bioavailable part of serum zinc. This report presents a fluorescence-based method for determining the free zinc concentration in human serum samples, using the fluorescent probe Zinpyr-1. The assay has been applied on 154 commercially obtained human serum samples. Measured free zinc concentrations ranged from 0.09 to 0.42 nM with a mean of 0.22 ± 0.05 nM. It did not correlate with age or the total serum concentrations of zinc, manganese, iron or selenium. A negative correlation between the concentration of free zinc and total copper has been seen for sera from females. In addition, the free zinc concentration in sera from females (0.21 ± 0.05 nM) was significantly lower than in males (0.23 ± 0.06 nM). The assay uses a sample volume of less than 10 µL, is rapid and cost-effective and allows us to address questions regarding factors influencing the free serum zinc concentration, its connection with the body’s zinc status, and its suitability as a future biomarker for an individual’s zinc status.
International journal of molecular sciences
10.3390/ijms20164006
31426452
1661-6596
1422-0067
wos:2019
4006
WOS:000484411100163
Haase, H (reprint author), Berlin Inst Technol, Dept Food Chem & Toxicol, D-13355 Berlin, Germany.; Haase, H (reprint author), TraceAge DFG Res Unit Interact Essential Trace El, Potsdam Berlin Jena, Germany., Haase@tu-berlin.de
Deutsche Forschungsgemeinschaft (TraceAge - DFG Research Unit on Interactions of essential trace elements in healthy and diseased elderly, Potsdam-Berlin-Jena)German Research Foundation (DFG) [FOR 2558/1, HA 4318/41, SCH 903/161-, SCHO 849/61-]
2020-12-02T18:51:40+00:00
sword
importub
filename=package.tar
f2742b9a877f424ea701b72eb8bcd4bd
false
true
Wiebke Alker
Tanja Schwerdtle
Lutz Schomburg
Hajo Haase
eng
uncontrolled
zinc
eng
uncontrolled
free zinc
eng
uncontrolled
serum
eng
uncontrolled
biomarker
eng
uncontrolled
fluorescent probe
eng
uncontrolled
Zinypr-1
Biowissenschaften; Biologie
Institut für Biochemie und Biologie
Import
38161
2014
2014
eng
308
313
6
1
111
article
National Acad. of Sciences
Washington
1
--
--
--
Interannual variation in land-use intensity enhances grassland multidiversity
Although temporal heterogeneity is a well-accepted driver of biodiversity, effects of interannual variation in land-use intensity (LUI) have not been addressed yet. Additionally, responses to land use can differ greatly among different organisms; therefore, overall effects of land-use on total local biodiversity are hardly known. To test for effects of LUI (quantified as the combined intensity of fertilization, grazing, and mowing) and interannual variation in LUI (SD in LUI across time), we introduce a unique measure of whole-ecosystem biodiversity, multidiversity. This synthesizes individual diversity measures across up to 49 taxonomic groups of plants, animals, fungi, and bacteria from 150 grasslands. Multidiversity declined with increasing LUI among grasslands, particularly for rarer species and aboveground organisms, whereas common species and belowground groups were less sensitive. However, a high level of interannual variation in LUI increased overall multidiversity at low LUI and was even more beneficial for rarer species because it slowed the rate at which the multidiversity of rare species declined with increasing LUI. In more intensively managed grasslands, the diversity of rarer species was, on average, 18% of the maximum diversity across all grasslands when LUI was static over time but increased to 31% of the maximum when LUI changed maximally over time. In addition to decreasing overall LUI, we suggest varying LUI across years as a complementary strategy to promote biodiversity conservation.
Proceedings of the National Academy of Sciences of the United States of America
10.1073/pnas.1312213111
24368852
0027-8424
wos:2014
WOS:000329350700081
Allan, E (reprint author), Univ Bern, Inst Plant Sci, CH-3013 Bern, Switzerland., eric.allan@ips.unibe.ch
Deutsche Forschungsgemeinschaft Priority Program [1374]
Eric Allan
Oliver Bossdorf
Carsten F. Dormann
Daniel Prati
Martin M. Gossner
Teja Tscharntke
Nico Blüthgen
Michaela Bellach
Klaus Birkhofer
Steffen Boch
Stefan Böhm
Carmen Börschig
Antonis Chatzinotas
Sabina Christ
Rolf Daniel
Tim Diekötter
Christiane Fischer
Thomas Friedl
Karin Glaser
Christine Hallmann
Ladislav Hodac
Norbert Hölzel
Kirsten Jung
Alexandra Maria Klein
Valentin H. Klaus
Till Kleinebecker
Jochen Krauss
Markus Lange
E. Kathryn Morris
Jörg Müller
Heiko Nacke
Esther Pasalic
Matthias C. Rillig
Christoph Rothenwoehrer
Peter Schally
Christoph Scherber
Waltraud X. Schulze
Stephanie A. Socher
Juliane Steckel
Ingolf Steffan-Dewenter
Manfred Türke
Christiane N. Weiner
Michael Werner
Catrin Westphal
Volkmar Wolters
Tesfaye Wubet
Sonja Gockel
Martin Gorke
Andreas Hemp
Swen C. Renner
Ingo Schöning
Simone Pfeiffer
Birgitta König-Ries
Francois Buscot
Karl Eduard Linsenmair
Ernst-Detlef Schulze
Wolfgang W. Weisser
Markus Fischer
eng
uncontrolled
biodiversity loss
eng
uncontrolled
agricultural grasslands
eng
uncontrolled
Biodiversity Exploratories
Institut für Biochemie und Biologie
Referiert
38733
2015
2015
eng
834
843
10
8
18
article
Wiley-Blackwell
Hoboken
1
--
--
--
Land use intensification alters ecosystem multifunctionality via loss of biodiversity and changes to functional composition
Global change, especially land-use intensification, affects human well-being by impacting the delivery of multiple ecosystem services (multifunctionality). However, whether biodiversity loss is a major component of global change effects on multifunctionality in real-world ecosystems, as in experimental ones, remains unclear. Therefore, we assessed biodiversity, functional composition and 14 ecosystem services on 150 agricultural grasslands differing in land-use intensity. We also introduce five multifunctionality measures in which ecosystem services were weighted according to realistic land-use objectives. We found that indirect land-use effects, i.e. those mediated by biodiversity loss and by changes to functional composition, were as strong as direct effects on average. Their strength varied with land-use objectives and regional context. Biodiversity loss explained indirect effects in a region of intermediate productivity and was most damaging when land-use objectives favoured supporting and cultural services. In contrast, functional composition shifts, towards fast-growing plant species, strongly increased provisioning services in more inherently unproductive grasslands.
Ecology letters
10.1111/ele.12469
26096863
1461-023X
1461-0248
wos:2015
WOS:000357958900011
Allan, E (reprint author), Univ Bern, Inst Plant Sci, Altenbergrain 21, CH-3013 Bern, Switzerland., eric.allan@ips.unibe.ch
Deutsche Forschungsgemeinschaft Priority Program 1374
Eric Allan
Pete Manning
Fabian Alt
Julia Binkenstein
Stefan Blaser
Nico Blüthgen
Stefan Böhm
Fabrice Grassein
Norbert Hölzel
Valentin H. Klaus
Till Kleinebecker
E. Kathryn Morris
Yvonne Oelmann
Daniel Prati
Swen C. Renner
Matthias C. Rillig
Martin Schaefer
Michael Schloter
Barbara Schmitt
Ingo Schöning
Marion Schrumpf
Emily Solly
Elisabeth Sorkau
Juliane Steckel
Ingolf Steffen-Dewenter
Barbara Stempfhuber
Marco Tschapka
Christiane N. Weiner
Wolfgang W. Weisser
Michael Werner
Catrin Westphal
Wolfgang Wilcke
Markus Fischer
eng
uncontrolled
Biodiversity-ecosystem functioning
eng
uncontrolled
ecosystem services
eng
uncontrolled
global change
eng
uncontrolled
land use
eng
uncontrolled
multifunctionality
Institut für Biochemie und Biologie
Referiert
34789
2013
2013
eng
223
237
15
1
173
article
Springer
New York
1
--
--
--
A comparison of the strength of biodiversity effects across multiple functions
In order to predict which ecosystem functions are most at risk from biodiversity loss, meta-analyses have generalised results from biodiversity experiments over different sites and ecosystem types. In contrast, comparing the strength of biodiversity effects across a large number of ecosystem processes measured in a single experiment permits more direct comparisons. Here, we present an analysis of 418 separate measures of 38 ecosystem processes. Overall, 45 % of processes were significantly affected by plant species richness, suggesting that, while diversity affects a large number of processes not all respond to biodiversity. We therefore compared the strength of plant diversity effects between different categories of ecosystem processes, grouping processes according to the year of measurement, their biogeochemical cycle, trophic level and compartment (above- or belowground) and according to whether they were measures of biodiversity or other ecosystem processes, biotic or abiotic and static or dynamic. Overall, and for several individual processes, we found that biodiversity effects became stronger over time. Measures of the carbon cycle were also affected more strongly by plant species richness than were the measures associated with the nitrogen cycle. Further, we found greater plant species richness effects on measures of biodiversity than on other processes. The differential effects of plant diversity on the various types of ecosystem processes indicate that future research and political effort should shift from a general debate about whether biodiversity loss impairs ecosystem functions to focussing on the specific functions of interest and ways to preserve them individually or in combination.
Oecologia
10.1007/s00442-012-2589-0
0029-8549
wos:2011-2013
WOS:000323504300021
Allan, E (reprint author), Univ Jena, Inst Ecol, Dornburger Str 159, D-07749 Jena, Germany., eric.allan@ips.unibe.ch
Deutsche Forschungsgemeinschaft DFG; Swiss National Science Foundation
[31003A-107531]
Eric Allan
Wolfgang W. Weisser
Markus Fischer
Ernst-Detlef Schulze
Alexandra Weigelt
Christiane Roscher
Jussi Baade
Romain L. Barnard
Holger Bessler
Nina Buchmann
Anne Ebeling
Nico Eisenhauer
Christof Engels
Alexander J. F. Fergus
Gerd Gleixner
Marlen Gubsch
Stefan Halle
Alexandra Maria Klein
Ilona Kertscher
Annely Kuu
Markus Lange
Xavier Le Roux
Sebastian T. Meyer
Varvara D. Migunova
Alexandru Milcu
Pascal A. Niklaus
Yvonne Oelmann
Esther Pasalic
Jana S. Petermann
Franck Poly
Tanja Rottstock
Alexander C. W. Sabais
Christoph Scherber
Michael Scherer-Lorenzen
Stefan Scheu
Sibylle Steinbeiss
Guido Schwichtenberg
Vicky Temperton
Teja Tscharntke
Winfried Voigt
Wolfgang Wilcke
Christian Wirth
Bernhard Schmid
eng
uncontrolled
Bottom-up effects
eng
uncontrolled
Carbon cycling
eng
uncontrolled
Ecological synthesis
eng
uncontrolled
Ecosystem processes
eng
uncontrolled
Grasslands
eng
uncontrolled
Jena experiment
eng
uncontrolled
Nitrogen cycling
Institut für Biochemie und Biologie
Referiert
38834
2015
2015
eng
12
5
article
Nature Publ. Group
London
1
--
--
--
Evolutionary food web model based on body masses gives realistic networks with permanent species turnover
The networks of predator-prey interactions in ecological systems are remarkably complex, but nevertheless surprisingly stable in terms of long term persistence of the system as a whole. In order to understand the mechanism driving the complexity and stability of such food webs, we developed an eco-evolutionary model in which new species emerge as modifications of existing ones and dynamic ecological interactions determine which species are viable. The food-web structure thereby emerges from the dynamical interplay between speciation and trophic interactions. The proposed model is less abstract than earlier evolutionary food web models in the sense that all three evolving traits have a clear biological meaning, namely the average body mass of the individuals, the preferred prey body mass, and the width of their potential prey body mass spectrum. We observed networks with a wide range of sizes and structures and high similarity to natural food webs. The model networks exhibit a continuous species turnover, but massive extinction waves that affect more than 50% of the network are not observed.
Scientific reports
10.1038/srep10955
26042870
2045-2322
wos:2015
10955
WOS:000355724300001
Allhoff, KT (reprint author), Tech Univ Darmstadt, Inst Condensed Matter Phys, Darmstadt, Germany., allhoff@fkp.tu-darmstadt.de
DFG [Dr300/12-1, 13-1]; Leopoldina Fellowship Program [LPDS 2012-07]
Korinna Theresa Allhoff
Daniel Ritterskamp
Björn C. Rall
Barbara Drossel
Christian Guill
Institut für Biochemie und Biologie
Referiert
Open Access
44802
2016
2016
eng
1578
1589
12
17
article
Wiley-Blackwell
Hoboken
1
--
--
--
Transcription factor ANAC032 modulates JA/SA signalling in response to Pseudomonas syringae infection
Responses to pathogens, including host transcriptional reprogramming, require partially antagonistic signalling pathways dependent on the phytohormones salicylic (SA) and jasmonic (JA) acids. However, upstream factors modulating the interplay of these pathways are not well characterized. Here, we identify the transcription factor ANAC032 from Arabidopsis thaliana as one such regulator in response to the bacterial pathogen Pseudomonas syringae pv. tomato DC3000 (Pst). ANAC032 directly represses MYC2 activation upon Pst attack, resulting in blockage of coronatine-mediated stomatal reopening which restricts entry of bacteria into plant tissue. Furthermore, ANAC032 activates SA signalling by repressing NIMIN1, a key negative regulator of SA-dependent defence. Finally, ANAC032 reduces expression of JA-responsive genes, including PDF1.2A. Thus, ANAC032 enhances resistance to Pst by generating an orchestrated transcriptional output towards key SA- and JA-signalling genes coordinated through direct binding of ANAC032 to the MYC2, NIMIN1 and PDF1.2A promoters.
EMBO reports
10.15252/embr.201642197
27632992
1469-221X
1469-3178
wos2016:2019
WOS:000387148700010
Balazadeh, S (reprint author), Univ Potsdam, Inst Biochem & Biol, Potsdam, Germany.; Balazadeh, S (reprint author), Max Planck Inst Mol Plant Physiol, Potsdam, Germany., balazadeh@mpimp-golm.mpg.de
Deutsche Forschungsgemeinschaft [BA 4769/2-1]; University of Potsdam; MPI of Molecular Plant Physiology
importub
2020-03-22T13:13:02+00:00
filename=package.tar
581a81e9c57a8eb4c4bb8022ea737a04
Annapurna Devi Allu
Yariv Brotman
Gang-Ping Xue
Salma Balazadeh
eng
uncontrolled
Arabidopsis
eng
uncontrolled
jasmonic acid
eng
uncontrolled
pathogens
eng
uncontrolled
salicylic acid
eng
uncontrolled
transcription factor
Institut für Biochemie und Biologie
Referiert
Import
46441
2017
2017
eng
20
8
article
Frontiers Research Foundation
Lausanne
1
--
--
--
Defense-Related Transcriptional Reprogramming in Vitamin E-Deficient Arabidopsis Mutants Exposed to Contrasting Phosphate Availability
Vitamin E inhibits the propagation of lipid peroxidation and helps protecting photosystem II from photoinhibition, but little is known about its possible role in plant response to Pi availability. Here, we aimed at examining the effect of vitamin E deficiency in Arabidopsis thaliana vte mutants on phytohormone contents and the expression of transcription factors in plants exposed to contrasting Pi availability. Plants were subjected to two doses of Pi, either unprimed (controls) or previously exposed to low Pi (primed). In the wild type, alpha-tocopherol contents increased significantly in response to repeated periods of low Pi, which was paralleled by increased growth, indicative of a priming effect. This growth-stimulating effect was, however, abolished in vte mutants. Hormonal profiling revealed significant effects of Pi availability, priming and genotype on the contents of jasmonates and salicylates; remarkably, vte mutants showed enhanced accumulation of both hormones under low Pi. Furthermore, expression profiling of 1,880 transcription factors by qRT-PCR revealed a pronounced effect of priming on the transcript levels of 45 transcription factors mainly associated with growth and stress in wild-type plants in response to low Pi availability; while distinct differences in the transcriptional response were detected in vte mutants. We conclude that alpha-tocopherol plays a major role in the response of plants to Pi availability not only by protecting plants from photo-oxidative stress, but also by exerting a control over growth-and defense-related transcriptional reprogramming and hormonal modulation.
Frontiers in plant science
10.3389/fpls.2017.01396
28848594
1664-462X
wos:2017
1396
WOS:000407703700001
Munne-Bosch, S (reprint author), Univ Barcelona, Dept Evolutionary Biol Ecol & Environm Sci, Fac Biol, Barcelona, Spain., smunne@ub.edu
Catalan Government (Institucio Catalana de Recerca i Estudis Avancats Academia Award); Spanish Government [BFU2015-64001-P/MINECO/FEDER]; Max-Planck Institute of Molecular Plant Physiology
importub
2020-04-20T01:30:01+00:00
filename=package.tar
dfe6b4ccc0aa455dbac1d371f8040a2e
Annapurna Devi Allu
Barbara Simancas
Salma Balazadeh
Sergi Munne-Bosch
eng
uncontrolled
antioxidants
eng
uncontrolled
photosystem II
eng
uncontrolled
plastochromanol-8
eng
uncontrolled
priming
eng
uncontrolled
retrograde signaling
eng
uncontrolled
tocochromanols
eng
uncontrolled
vitamin E
Institut für Biochemie und Biologie
Referiert
Import
37735
2014
2014
eng
3993
4008
16
14
65
article
Oxford Univ. Press
Oxford
1
--
--
--
Salt stress and senescence: identification of cross-talk regulatory components
Leaf senescence is an active process with a pivotal impact on plant productivity. It results from extensive signalling cross-talk coordinating environmental factors with intrinsic age-related mechanisms. Although many studies have shown that leaf senescence is affected by a range of external parameters, knowledge about the regulatory systems that govern the interplay between developmental programmes and environmental stress is still vague. Salinity is one of the most important environmental stresses that promote leaf senescence and thus affect crop yield. Improving salt tolerance by avoiding or delaying senescence under stress will therefore play an important role in maintaining high agricultural productivity. Experimental evidence suggests that hydrogen peroxide (H2O2) functions as a common signalling molecule in both developmental and salt-induced leaf senescence. In this study, microarray-based gene expression profiling on Arabidopsis thaliana plants subjected to long-term salinity stress to induce leaf senescence was performed, together with co-expression network analysis for H2O2-responsive genes that are mutually up-regulated by salt induced-and developmental leaf senescence. Promoter analysis of tightly co-expressed genes led to the identification of seven cis-regulatory motifs, three of which were known previously, namely CACGTGT and AAGTCAA, which are associated with reactive oxygen species (ROS)-responsive genes, and CCGCGT, described as a stress-responsive regulatory motif, while the others, namely ACGCGGT, AGCMGNC, GMCACGT, and TCSTYGACG were not characterized previously. These motifs are proposed to be novel elements involved in the H2O2-mediated control of gene expression during salinity stress-triggered and developmental senescence, acting through upstream transcription factors that bind to these sites.
Journal of experimental botany
10.1093/jxb/eru173
24803504
0022-0957
1460-2431
wos:2014
WOS:000339954000017
Balazadeh, S (reprint author), Univ Potsdam, Inst Biochem & Biol, Karl Liebknecht Str 24-25,Haus 20, D-14476 Potsdam, Germany., balazadeh@mpimp-golm.mpg.de
Deutsche Forschungsgemeinschaft [FOR 948, BA4769/1-2]; German Academic
Exchange Service (DAAD) [A/07/71707]; University of Potsdam; Max-Planck
Institute of Molecular Plant Physiology, Potsdam-Golm
Annapurna Devi Allu
Aleksandra Maria Soja
Anhui Wu
Jedrzej Szymanski
Salma Balazadeh
eng
uncontrolled
Arabidopsis
eng
uncontrolled
hydrogen peroxide
eng
uncontrolled
longevity
eng
uncontrolled
reactive oxygen species
eng
uncontrolled
salt stress
eng
uncontrolled
senescence
eng
uncontrolled
signal cross-talk
eng
uncontrolled
transcription factor
Institut für Biochemie und Biologie
Referiert
45231
2016
2016
eng
6707
6712
6
113
article
National Acad. of Sciences
Washington
1
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Ancient and modern DNA reveal dynamics of domestication and cross-continental dispersal of the dromedary
Dromedaries have been fundamental to the development of human societies in arid landscapes and for long-distance trade across hostile hot terrains for 3,000 y. Today they continue to be an important livestock resource in marginal agro-ecological zones. However, the history of dromedary domestication and the influence of ancient trading networks on their genetic structure have remained elusive. We combined ancient DNA sequences of wild and early-domesticated dromedary samples from arid regions with nuclear microsatellite and mitochondrial genotype information from 1,083 extant animals collected across the species’ range. We observe little phylogeographic signal in the modern population, indicative of extensive gene flow and virtually affecting all regions except East Africa, where dromedary populations have remained relatively isolated. In agreement with archaeological findings, we identify wild dromedaries from the southeast Arabian Peninsula among the founders of the domestic dromedary gene pool. Approximate Bayesian computations further support the “restocking from the wild” hypothesis, with an initial domestication followed by introgression from individuals from wild, now-extinct populations. Compared with other livestock, which show a long history of gene flow with their wild ancestors, we find a high initial diversity relative to the native distribution of the wild ancestor on the Arabian Peninsula and to the brief coexistence of early-domesticated and wild individuals. This study also demonstrates the potential to retrieve ancient DNA sequences from osseous remains excavated in hot and dry desert environments.
Proceedings of the National Academy of Sciences of the United States of America
10.1073/pnas.1519508113
27162355
0027-8424
wos2016:2019
WOS:000377948800047
Hanotte, O (reprint author), Univ Nottingham, Genet Ecol & Evolut, Sch Life Sci, Nottingham NG7 2RD, England.; Burger, PA (reprint author), Vetmeduni Vienna, Res Inst Wildlife Ecol, A-1160 Vienna, Austria., olivier.hanotte@nottingham.ac.uk; pamela.burger@vetmeduni.ac.at
Grant KFU from King Faisal University, Saudi Arabia [F289]; Natural Environment Research Council, Sheffield University, United Kingdom [NBAF419]; European Research Council Consolidator Grant [310763]; Austrian Science Fund [P21084-B17, P24706-B25]; Austrian Programme for Advanced Research and Technology Fellowship from the Austrian Academy of Sciences [1106/12]
importub
2020-03-22T16:48:01+00:00
filename=package.tar
50978bcf708e96d82821b3a0420af4f9
Faisal Almathen
Pauline Charruau
Elmira Mohandesan
Joram M. Mwacharo
Pablo Orozco-terWengel
Daniel Pitt
Abdussamad M. Abdussamad
Margarethe Uerpmann
Hans-Peter Uerpmann
Bea De Cupere
Peter Magee
Majed A. Alnaqeeb
Bashir Salim
Abdul Raziq
Tadelle Dessie
Omer M. Abdelhadi
Mohammad H. Banabazi
Marzook Al-Eknah
Chris Walzer
Bernard Fayer
Michael Hofreiter
Joris Peters
Olivier Hanotte
Pamela A. Burger
eng
uncontrolled
anthropogenic admixture
eng
uncontrolled
Camelus dromedarius
eng
uncontrolled
demographic history
eng
uncontrolled
paleogenetics
eng
uncontrolled
wild dromedary
Institut für Biochemie und Biologie
Referiert
Import
8082
2015
2015
eng
134
doctoralthesis
1
2015-09-14
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Identification and mode of inheritance of quantitative trait loci (QTL) for metabolite abundance in tomato
online registration
Potsdam, Univ., Diss., 2015
Saleh Alseekh
Biowissenschaften; Biologie
Institut für Biochemie und Biologie
Universität Potsdam
Universität Potsdam