TY  - JOUR
A1  - Trauth, Martin H.
A1  - Maslin, Mark A.
A1  - Deino, Alan L.
A1  - Junginger, Annett
A1  - Lesoloyia, Moses
A1  - Odada, Eric O.
A1  - Olago, Daniel O.
A1  - Olaka, Lydia A.
A1  - Strecker, Manfred
A1  - Tiedemann, Ralph
T1  - Human evolution in a variable environment : the amplifier lakes of Eastern Africa
N2  - The development of rise Cenozoic East African Rift System (EARS) profoundly re-shaped the landscape and significantly increased the amplitude of short-term environmental response to climate variation. In particular, the development of amplifier lakes in rift basins after three million years ago significantly contributed to this exceptional sensitivity of East Africa to climate change compared to elsewhere on the African continent. Amplifier lakes are characterized by tectonically-formed graben morphologies in combination with an extreme contrast between high precipitation in the elevated parts of the catchment and high evaporation in the lake area. Such amplifier lakes respond rapidly to moderate, precessional-forced climate shifts, and as they do so apply dramatic environmental pressure to the biosphere. Rift basins, when either extremely dry or lake-filled, form important barriers for migration, mixing and competition of different populations of animals and hominins. Amplifier lakes link long-term, high-amplitude tectonic processes and short-term environmental fluctuations. East Africa may have become the place where early humans evolved as a consequence of this strong link between different time scales. (C) 2010 Elsevier Ltd. All rights reserved.
Y1  - 2010
UR  - http://www.sciencedirect.com/science/journal/02773791
U6  - https://doi.org/10.1016/j.quascirev.2010.07.007
SN  - 0277-3791
ER  - 
TY  - JOUR
A1  - Stoof-Leichsenring, Kathleen Rosemarie
A1  - Junginger, Annett
A1  - Olaka, Lydia A.
A1  - Tiedemann, Ralph
A1  - Trauth, Martin H.
T1  - Environmental variability in Lake Naivasha, Kenya, over the last two centuries
JF  - Journal of paleolimnolog
N2  - Lake Naivasha, Kenya, is one of a number of freshwater lakes in the East African Rift System. Since the beginning of the twentieth century, it has experienced greater anthropogenic influence as a result of increasingly intensive farming of coffee, tea, flowers, and other horticultural crops within its catchment. The water-level history of Lake Naivasha over the past 200 years was derived from a combination of instrumental records and sediment data. In this study, we analysed diatoms in a lake sediment core to infer past lacustrine conductivity and total phosphorus concentrations. We also measured total nitrogen and carbon concentrations in the sediments. Core chronology was established by (210)Pb dating and covered a similar to 186-year history of natural (climatic) and human-induced environmental changes. Three stratigraphic zones in the core were identified using diatom assemblages. There was a change from littoral/epiphytic diatoms such as Gomphonema gracile and Cymbella muelleri, which occurred during a prolonged dry period from ca. 1820 to 1896 AD, through a transition period, to the present planktonic Aulacoseira sp. that favors nutrient-rich waters. This marked change in the diatom assemblage was caused by climate change, and later a strong anthropogenic overprint on the lake system. Increases in sediment accumulation rates since 1928, from 0.01 to 0.08 g cm(-2) year(-1) correlate with an increase in diatom-inferred total phosphorus concentrations since the beginning of the twentieth century. The increase in phosphorus accumulation suggests increasing eutrophication of freshwater Lake Naivasha. This study identified two major periods in the lake's history: (1) the period from 1820 to 1950 AD, during which the lake was affected mainly by natural climate variations, and (2) the period since 1950, during which the effects of anthropogenic activity overprinted those of natural climate variation.
KW  - Lake sediments
KW  - Diatoms
KW  - Conductivity
KW  - Lake Naivasha
KW  - Human impact
KW  - Eutrophication
Y1  - 2011
U6  - https://doi.org/10.1007/s10933-011-9502-4
SN  - 0921-2728
VL  - 45
IS  - 3
SP  - 353
EP  - 367
PB  - Springer
CY  - Dordrecht
ER  - 
TY  - JOUR
A1  - Stoof-Leichsenring, Kathleen Rosemarie
A1  - Epp, Laura Saskia
A1  - Trauth, Martin H.
A1  - Tiedemann, Ralph
T1  - Hidden diversity in diatoms of Kenyan Lake Naivasha a genetic approach detects temporal variation
JF  - Molecular ecology
N2  - This study provides insights into the morphological and genetic diversity in diatoms occurring in core sediments from tropical lakes in Kenya. We developed a genetic survey technique specific for diatoms utilizing a short region (7667 bp) of the ribulose-1,5-bisphosphate carboxylase/oxygenase large subunit (rbcL) gene as genetic barcode. Our analyses (i) validated the use of rbcL as a barcoding marker for diatoms, applied to sediment samples, (ii) showed a significant correlation between the results obtained by morphological and molecular data and (iii) indicated temporal variation in diatom assemblages on the inter- and intra-specific level. Diatom assemblages from a short core from Lake Naivasha show a drastic shift over the last 200 years, as littoral species (e.g. Navicula) are replaced by more planktonic ones (e.g. Aulacoseira). Within that same period, we detected periodic changes in the respective frequencies of distinct haplotype groups of Navicula, which coincide with wet and dry periods of Lake Naivasha between 1820 and 1938 AD. Our genetic analyses on historical lake sediments revealed inter- and intra-specific variation in diatoms, which is partially hidden behind single morphotypes. The occurrence of particular genetic lineages is probably correlated with environmental factors.
KW  - diatoms
KW  - DNA barcoding
KW  - historical DNA
KW  - intra-specific variation
KW  - rbcL
KW  - tropical lake sediments
Y1  - 2012
U6  - https://doi.org/10.1111/j.1365-294X.2011.05412.x
SN  - 0962-1083
VL  - 21
IS  - 8
SP  - 1918
EP  - 1930
PB  - Wiley-Blackwell
CY  - Malden
ER  - 
TY  - JOUR
A1  - Krüger, Johanna
A1  - Foerster, Verena Elisabeth
A1  - Trauth, Martin H.
A1  - Hofreiter, Michael
A1  - Tiedemann, Ralph
T1  - Exploring the Past Biosphere of Chew Bahir/Southern Ethiopia: Cross-Species Hybridization Capture of Ancient Sedimentary DNA from a Deep Drill Core
JF  - Frontiers in Earth Science
N2  - Eastern Africa has been a prime target for scientific drilling because it is rich in key paleoanthropological sites as well as in paleolakes, containing valuable paleoclimatic information on evolutionary time scales. The Hominin Sites and Paleolakes Drilling Project (HSPDP) explores these paleolakes with the aim of reconstructing environmental conditions around critical episodes of hominin evolution. Identification of biological taxa based on their sedimentary ancient DNA (sedaDNA) traces can contribute to understand past ecological and climatological conditions of the living environment of our ancestors. However, sedaDNA recovery from tropical environments is challenging because high temperatures, UV irradiation, and desiccation result in highly degraded DNA. Consequently, most of the DNA fragments in tropical sediments are too short for PCR amplification. We analyzed sedaDNA in the upper 70 m of the composite sediment core of the HSPDP drill site at Chew Bahir for eukaryotic remnants. We first tested shotgun high throughput sequencing which leads to metagenomes dominated by bacterial DNA of the deep biosphere, while only a small fraction was derived from eukaryotic, and thus probably ancient, DNA. Subsequently, we performed cross-species hybridization capture of sedaDNA to enrich ancient DNA (aDNA) from eukaryotic remnants for paleoenvironmental analysis, using established barcoding genes (cox1 and rbcL for animals and plants, respectively) from 199 species that may have had relatives in the past biosphere at Chew Bahir. Metagenomes yielded after hybridization capture are richer in reads with similarity to cox1 and rbcL in comparison to metagenomes without prior hybridization capture. Taxonomic assignments of the reads from these hybridization capture metagenomes also yielded larger fractions of the eukaryotic domain. For reads assigned to cox1, inferred wet periods were associated with high inferred relative abundances of putative limnic organisms (gastropods, green algae), while inferred dry periods showed increased relative abundances for insects. These findings indicate that cross-species hybridization capture can be an effective approach to enhance the information content of sedaDNA in order to explore biosphere changes associated with past environmental conditions, enabling such analyses even under tropical conditions.
KW  - Chew Bahir
KW  - hybridization capture
KW  - ICDP
KW  - paleoclimate
KW  - past biosphere
KW  - sedaDNA
KW  - sediment core
Y1  - 2021
U6  - https://doi.org/10.3389/feart.2021.683010
SN  - 2296-6463
SP  - 1
EP  - 20
PB  - Frontiers in Earth Science
CY  - Lausanne, Schweiz
ER  - 
TY  - GEN
A1  - Krüger, Johanna
A1  - Foerster, Verena Elisabeth
A1  - Trauth, Martin H.
A1  - Hofreiter, Michael
A1  - Tiedemann, Ralph
T1  - Exploring the Past Biosphere of Chew Bahir/Southern Ethiopia: Cross-Species Hybridization Capture of Ancient Sedimentary DNA from a Deep Drill Core
T2  - Zweitveröffentlichungen der Universität Potsdam : Mathematisch-Naturwissenschaftliche Reihe
N2  - Eastern Africa has been a prime target for scientific drilling because it is rich in key paleoanthropological sites as well as in paleolakes, containing valuable paleoclimatic information on evolutionary time scales. The Hominin Sites and Paleolakes Drilling Project (HSPDP) explores these paleolakes with the aim of reconstructing environmental conditions around critical episodes of hominin evolution. Identification of biological taxa based on their sedimentary ancient DNA (sedaDNA) traces can contribute to understand past ecological and climatological conditions of the living environment of our ancestors. However, sedaDNA recovery from tropical environments is challenging because high temperatures, UV irradiation, and desiccation result in highly degraded DNA. Consequently, most of the DNA fragments in tropical sediments are too short for PCR amplification. We analyzed sedaDNA in the upper 70 m of the composite sediment core of the HSPDP drill site at Chew Bahir for eukaryotic remnants. We first tested shotgun high throughput sequencing which leads to metagenomes dominated by bacterial DNA of the deep biosphere, while only a small fraction was derived from eukaryotic, and thus probably ancient, DNA. Subsequently, we performed cross-species hybridization capture of sedaDNA to enrich ancient DNA (aDNA) from eukaryotic remnants for paleoenvironmental analysis, using established barcoding genes (cox1 and rbcL for animals and plants, respectively) from 199 species that may have had relatives in the past biosphere at Chew Bahir. Metagenomes yielded after hybridization capture are richer in reads with similarity to cox1 and rbcL in comparison to metagenomes without prior hybridization capture. Taxonomic assignments of the reads from these hybridization capture metagenomes also yielded larger fractions of the eukaryotic domain. For reads assigned to cox1, inferred wet periods were associated with high inferred relative abundances of putative limnic organisms (gastropods, green algae), while inferred dry periods showed increased relative abundances for insects. These findings indicate that cross-species hybridization capture can be an effective approach to enhance the information content of sedaDNA in order to explore biosphere changes associated with past environmental conditions, enabling such analyses even under tropical conditions.
T3  - Zweitveröffentlichungen der Universität Potsdam : Mathematisch-Naturwissenschaftliche Reihe - 1244 
KW  - Chew Bahir
KW  - hybridization capture
KW  - ICDP
KW  - paleoclimate
KW  - past biosphere
KW  - sedaDNA
KW  - sediment core
Y1  - 2022
U6  - http://nbn-resolving.de/urn/resolver.pl?urn:nbn:de:kobv:517-opus4-550071
SN  - 1866-8372
SP  - 1
EP  - 20
PB  - Universitätsverlag Potsdam
CY  - Potsdam
ER  - 
TY  - JOUR
A1  - Foerster, Verena
A1  - Asrat, Asfawossen
A1  - Ramsey, Christopher Bronk
A1  - Brown, Erik T.
A1  - Chapot, Melissa S.
A1  - Deino, Alan
A1  - Düsing, Walter
A1  - Grove, Matthew
A1  - Hahn, Annette
A1  - Junginger, Annett
A1  - Kaboth-Bahr, Stefanie
A1  - Lane, Christine S.
A1  - Opitz, Stephan
A1  - Noren, Anders
A1  - Roberts, Helen M.
A1  - Stockhecke, Mona
A1  - Tiedemann, Ralph
A1  - Vidal, Celine M.
A1  - Vogelsang, Ralf
A1  - Cohen, Andrew S.
A1  - Lamb, Henry F.
A1  - Schaebitz, Frank
A1  - Trauth, Martin H.
T1  - Pleistocene climate variability in eastern Africa influenced hominin evolution
JF  - Nature geoscience
N2  - Despite more than half a century of hominin fossil discoveries in eastern Africa, the regional environmental context of hominin evolution and dispersal is not well established due to the lack of continuous palaeoenvironmental records from one of the proven habitats of early human populations, particularly for the Pleistocene epoch. Here we present a 620,000-year environmental record from Chew Bahir, southern Ethiopia, which is proximal to key fossil sites. Our record documents the potential influence of different episodes of climatic variability on hominin biological and cultural transformation. The appearance of high anatomical diversity in hominin groups coincides with long-lasting and relatively stable humid conditions from similar to 620,000 to 275,000 years bp (episodes 1-6), interrupted by several abrupt and extreme hydroclimate perturbations. A pattern of pronounced climatic cyclicity transformed habitats during episodes 7-9 (similar to 275,000-60,000 years bp), a crucial phase encompassing the gradual transition from Acheulean to Middle Stone Age technologies, the emergence of Homo sapiens in eastern Africa and key human social and cultural innovations. Those accumulative innovations plus the alignment of humid pulses between northeastern Africa and the eastern Mediterranean during high-frequency climate oscillations of episodes 10-12 (similar to 60,000-10,000 years bp) could have facilitated the global dispersal of H. sapiens.
KW  - Evolutionary ecology
KW  - Limnology
KW  - Palaeoclimate
Y1  - 2022
U6  - https://doi.org/10.1038/s41561-022-01032-y
SN  - 1752-0894
SN  - 1752-0908
VL  - 15
IS  - 10
SP  - 805
EP  - 811
PB  - Nature Publ. Group
CY  - London
ER  - 
TY  - JOUR
A1  - Epp, Laura Saskia
A1  - Stoof-Leichsenring, Kathleen Rosemarie
A1  - Trauth, Martin H.
A1  - Tiedemann, Ralph
T1  - Molecular profiling of diatom assemblages in tropical lake sediments using taxon-specific PCR and Denaturing High-Performance Liquid Chromatography (PCR-DHPLC)
JF  - Molecular ecology resources
N2  - Here we present a protocol to genetically detect diatoms in sediments of the Kenyan tropical Lake Naivasha, based on taxon-specific PCR amplification of short fragments (approximately 100 bp) of the small subunit ribosomal (SSU) gene and subsequent separation of species-specific PCR products by PCR-based denaturing high-performance liquid chromatography (DHPLC). An evaluation of amplicons differing in primer specificity to diatoms and length of the fragments amplified demonstrated that the number of different diatom sequence types detected after cloning of the PCR products critically depended on the specificity of the primers to diatoms and the length of the amplified fragments whereby shorter fragments yielded more species of diatoms. The DHPLC was able to discriminate between very short amplicons based on the sequence difference, even if the fragments were of identical length and if the amplicons differed only in a small number of nucleotides. Generally, the method identified the dominant sequence types from mixed amplifications. A comparison with microscopic analysis of the sediment samples revealed that the sequence types identified in the molecular assessment corresponded well with the most dominant species. In summary, the PCR-based DHPLC protocol offers a fast, reliable and cost-efficient possibility to study DNA from sediments and other environmental samples with unknown organismic content, even for very short DNA fragments.
KW  - diatoms
KW  - environmental DNA
KW  - lake sediments
KW  - PCR-DHPLC
Y1  - 2011
U6  - https://doi.org/10.1111/j.1755-0998.2011.03022.x
SN  - 1755-098X
VL  - 11
IS  - 5
SP  - 842
EP  - 853
PB  - Wiley-Blackwell
CY  - Hoboken
ER  - 
TY  - JOUR
A1  - Epp, Laura Saskia
A1  - Stoof, Kathleen R.
A1  - Trauth, Martin H.
A1  - Tiedemann, Ralph
T1  - Historical genetics on a sediment core from a Kenyan lake : intraspecific genotype turnover in a tropical rotifer is related to past environmental changes
N2  - Using molecular genetic methods and an ancient DNA approach, we studied population and species succession of rotifers of the genus Brachionus in the Kenyan alkaline-saline crater lake Sonachi since the beginning of the 19th century as well as distribution of Brachionus haplotypes in recent and historic sediments of other lakes of the East African Rift System. The sediment core record of Lake Sonachi displays haplotypes of a distinct evolutionary lineage in all increments. Populations were dominated by a single mitochondrial haplotype for a period of 150 years, and two putatively intraspecific turnovers in dominance occurred. Both changes are concordant with major environmental perturbations documented by a profound visible change in sediment composition of the core. The first change was very abrupt and occurred after the deposition of volcanic ash at the beginning of the 19th century. The second change coincides with a major lake level lowstand during the 1940s. It was preceded by a period of successively declining lake level, in which two other haplotypes appeared in the lake. One of these putatively belongs to another species documented in historical and recent Kenyan lake sediments. The analysis of plankton population dynamics through historical time can reveal patterns of population persistence and turnover in relation to environmental changes.
Y1  - 2010
UR  - http://www.springerlink.com/content/100294
U6  - https://doi.org/10.1007/s10933-009-9379-7
SN  - 0921-2728
ER  -