TY  - JOUR
A1  - Voss, Björn
A1  - Bolhuis, Henk
A1  - Fewer, David P.
A1  - Kopf, Matthias
A1  - Möke, Fred
A1  - Haas, Fabian
A1  - El-Shehawy, Rehab
A1  - Hayes, Paul
A1  - Bergman, Birgitta
A1  - Sivonen, Kaarina
A1  - Dittmann-Thünemann, Elke
A1  - Scanlan, Dave J.
A1  - Hagemann, Martin
A1  - Stal, Lucas J.
A1  - Hess, Wolfgang R.
T1  - Insights into the physiology and ecology of the brackish-water-adapted cyanobacterium nodularia spumigena CCY9414 based on a genome-transcriptome analysis
JF  - PLoS one
N2  - Nodularia spumigena is a filamentous diazotrophic cyanobacterium that dominates the annual late summer cyanobacterial blooms in the Baltic Sea. But N. spumigena also is common in brackish water bodies worldwide, suggesting special adaptation allowing it to thrive at moderate salinities. A draft genome analysis of N. spumigena sp. CCY9414 yielded a single scaffold of 5,462,271 nucleotides in length on which genes for 5,294 proteins were annotated. A subsequent strand-specific transcriptome analysis identified more than 6,000 putative transcriptional start sites (TSS). Orphan TSSs located in intergenic regions led us to predict 764 non-coding RNAs, among them 70 copies of a possible retrotransposon and several potential RNA regulators, some of which are also present in other N2-fixing cyanobacteria. Approximately 4% of the total coding capacity is devoted to the production of secondary metabolites, among them the potent hepatotoxin nodularin, the linear spumigin and the cyclic nodulapeptin. The transcriptional complexity associated with genes involved in nitrogen fixation and heterocyst differentiation is considerably smaller compared to other Nostocales. In contrast, sophisticated systems exist for the uptake and assimilation of iron and phosphorus compounds, for the synthesis of compatible solutes, and for the formation of gas vesicles, required for the active control of buoyancy. Hence, the annotation and interpretation of this sequence provides a vast array of clues into the genomic underpinnings of the physiology of this cyanobacterium and indicates in particular a competitive edge of N. spumigena in nutrient-limited brackish water ecosystems.
Y1  - 2013
U6  - https://doi.org/10.1371/journal.pone.0060224
SN  - 1932-6203
VL  - 8
IS  - 3
PB  - PLoS
CY  - San Fransisco
ER  - 
TY  - JOUR
A1  - Dittmann-Thünemann, Elke
A1  - Gugger, Muriel
A1  - Sivonen, Kaarina
A1  - Fewer, David P.
T1  - Natural Product Biosynthetic Diversity and Comparative Genomics of the Cyanobacteria
JF  - Trends in microbiology
N2  - Cyanobacteria are an ancient lineage of slow-growing photosynthetic bacteria and a prolific source of natural products with intricate chemical structures and potent biological activities. The bulk of these natural products are known from just a handful of genera. Recent efforts have elucidated the mechanisms underpinning the biosynthesis of a diverse array of natural products from cyanobacteria. Many of the biosynthetic mechanisms are unique to cyanobacteria or rarely described from other organisms. Advances in genome sequence technology have precipitated a deluge of genome sequences for cyanobacteria. This makes it possible to link known natural products to biosynthetic gene clusters but also accelerates the discovery of new natural products through genome mining. These studies demonstrate that cyanobacteria encode a huge variety of cryptic gene clusters for the production of natural products, and the known chemical diversity is likely to be just a fraction of the true biosynthetic capabilities of this fascinating and ancient group of organisms.
Y1  - 2015
U6  - https://doi.org/10.1016/j.tim.2015.07.008
SN  - 0966-842X
SN  - 1878-4380
VL  - 23
IS  - 10
SP  - 642
EP  - 652
PB  - Elsevier
CY  - Oxford
ER  - 
TY  - JOUR
A1  - Arnison, Paul G.
A1  - Bibb, Mervyn J.
A1  - Bierbaum, Gabriele
A1  - Bowers, Albert A.
A1  - Bugni, Tim S.
A1  - Bulaj, Grzegorz
A1  - Camarero, Julio A.
A1  - Campopiano, Dominic J.
A1  - Challis, Gregory L.
A1  - Clardy, Jon
A1  - Cotter, Paul D.
A1  - Craik, David J.
A1  - Dawson, Michael
A1  - Dittmann-Thünemann, Elke
A1  - Donadio, Stefano
A1  - Dorrestein, Pieter C.
A1  - Entian, Karl-Dieter
A1  - Fischbach, Michael A.
A1  - Garavelli, John S.
A1  - Goeransson, Ulf
A1  - Gruber, Christian W.
A1  - Haft, Daniel H.
A1  - Hemscheidt, Thomas K.
A1  - Hertweck, Christian
A1  - Hill, Colin
A1  - Horswill, Alexander R.
A1  - Jaspars, Marcel
A1  - Kelly, Wendy L.
A1  - Klinman, Judith P.
A1  - Kuipers, Oscar P.
A1  - Link, A. James
A1  - Liu, Wen
A1  - Marahiel, Mohamed A.
A1  - Mitchell, Douglas A.
A1  - Moll, Gert N.
A1  - Moore, Bradley S.
A1  - Mueller, Rolf
A1  - Nair, Satish K.
A1  - Nes, Ingolf F.
A1  - Norris, Gillian E.
A1  - Olivera, Baldomero M.
A1  - Onaka, Hiroyasu
A1  - Patchett, Mark L.
A1  - Piel, Jörn
A1  - Reaney, Martin J. T.
A1  - Rebuffat, Sylvie
A1  - Ross, R. Paul
A1  - Sahl, Hans-Georg
A1  - Schmidt, Eric W.
A1  - Selsted, Michael E.
A1  - Severinov, Konstantin
A1  - Shen, Ben
A1  - Sivonen, Kaarina
A1  - Smith, Leif
A1  - Stein, Torsten
A1  - Suessmuth, Roderich D.
A1  - Tagg, John R.
A1  - Tang, Gong-Li
A1  - Truman, Andrew W.
A1  - Vederas, John C.
A1  - Walsh, Christopher T.
A1  - Walton, Jonathan D.
A1  - Wenzel, Silke C.
A1  - Willey, Joanne M.
A1  - van der Donk, Wilfred A.
T1  - Ribosomally synthesized and post-translationally modified peptide natural products overview and recommendations for a universal nomenclature
JF  - Natural product reports : a journal of current developments in bio-organic chemistry
N2  - This review presents recommended nomenclature for the biosynthesis of ribosomally synthesized and post-translationally modified peptides (RiPPs), a rapidly growing class of natural products. The current knowledge regarding the biosynthesis of the >20 distinct compound classes is also reviewed, and commonalities are discussed.
Y1  - 2013
U6  - https://doi.org/10.1039/c2np20085f
SN  - 0265-0568
VL  - 30
IS  - 1
SP  - 108
EP  - 160
PB  - Royal Society of Chemistry
CY  - Cambridge
ER  -