Relationship between abundance and specific activity of bacterioplankton in open ocean surface waters

Applied and Environmental Microbiology
Dana E HuntZackary I Johnson

Abstract

Marine microbial communities are complex and dynamic, and their ecology impacts biogeochemical cycles in pelagic ecosystems. Yet, little is known about the relative activities of different microbial populations within genetically diverse communities. We used rRNA as a proxy for activity to quantify the relative specific activities (rRNA/ribosomal DNA [rDNA or rRNA genes]) of the eubacterial populations and to identify locations or clades for which there are uncouplings between specific activity and abundance. After analyzing 1.6 million sequences from 16S rDNA and rRNA (cDNA) libraries from two euphotic depths from a representative site in the Pacific Ocean, we show that although there is an overall positive relationship between the abundances (rDNAs) and activities (rRNAs) among populations of the bacterial community, for some populations these measures are uncoupled. Different ecological strategies are exemplified by the two numerically dominant clades at this site: the cyanobacterium Prochlorococcus is abundant but disproportionately more active, while the heterotrophic SAR11 is abundant but less active. Other rare populations, such as Alteromonas, have high specific activities in spite of their low abundances, suggesting in...Continue Reading

References

Oct 19, 1999·FEMS Microbiology Ecology·L Kerkhof, P Kemp
Dec 20, 2002·Nature·Robert M MorrisStephen J Giovannoni
Oct 8, 2003·Systematic Biology·Stéphane Guindon, Olivier Gascuel
Feb 27, 2004·Nucleic Acids Research·Wolfgang LudwigKarl-Heinz Schleifer
Apr 20, 2004·Journal of Bacteriology·Silvia G AcinasMartin F Polz
Jul 30, 2004·Nature·Silvia G AcinasMartin F Polz
Aug 1, 1993·Applied and Environmental Microbiology·P F KempJ Laroche
Jan 5, 2006·Applied and Environmental Microbiology·Erik R ZinserS W Chisholm
Aug 2, 2006·Proceedings of the National Academy of Sciences of the United States of America·Mitchell L SoginGerhard J Herndl
Oct 26, 2006·Philosophical Transactions of the Royal Society of London. Series B, Biological Sciences·Martin F PolzDaniel M Weinreich
Sep 15, 2007·Nature Reviews. Microbiology·Curtis A Suttle
Mar 5, 2008·Proceedings of the National Academy of Sciences of the United States of America·Jorge Frias-LopezEdward F DeLong
May 27, 2008·Applied and Environmental Microbiology·J Jeffrey MorrisErik R Zinser
Sep 5, 2008·The ISME Journal·Sarah M SowellStephen J Giovanonni
Jun 3, 2009·Microbiology and Molecular Biology Reviews : MMBR·David J ScanlanFrédéric Partensky
Jun 26, 2009·Proceedings of the National Academy of Sciences of the United States of America·Zackary I Johnson, Yajuan Lin
Oct 7, 2009·Proceedings of the National Academy of Sciences of the United States of America·Federico M LauroRicardo Cavicchioli
Mar 17, 2010·Proceedings of the National Academy of Sciences of the United States of America·Stuart E Jones, Jay T Lennon
Apr 13, 2010·Nature Methods·J Gregory CaporasoRob Knight
May 14, 2010·The ISME Journal·Rex R MalmstromS W Chisholm
Sep 17, 2010·The ISME Journal·Scott M GiffordMary Ann Moran
Oct 13, 2010·Proceedings of the National Academy of Sciences of the United States of America·Maureen L Coleman, S W Chisholm
Jan 15, 2011·Nature Reviews. Microbiology·Jay T Lennon, Stuart E Jones
Mar 15, 2011·Applied and Environmental Microbiology·Jude K AppleBianca Brahamsha
Jul 20, 2011·Proceedings of the National Academy of Sciences of the United States of America·Barbara J CampbellDavid L Kirchman
Mar 31, 2012·Annual Review of Marine Science·Carlos Pedrós-Alió

Citations

Apr 16, 2014·Proceedings of the National Academy of Sciences of the United States of America·Byron E PedlerFarooq Azam
Apr 11, 2015·Environmental Microbiology·Christopher E LawsonSteven J Hallam
Sep 30, 2015·Proteomics·Joseph A Christie-Oleza, Jean Armengaud
Jul 22, 2015·Annual Review of Marine Science·David L Kirchman
Jun 24, 2015·Research in Microbiology·Cyrielle GascPierre Peyret
Feb 17, 2015·Environmental Microbiology·Laura Alonso-SáezXosé Anxelu G Morán
Sep 24, 2015·The ISME Journal·Thomas S LankiewiczDavid L Kirchman
Nov 19, 2014·Environmental Microbiology·Cheuk-Man YungDana E Hunt
Mar 11, 2015·Environmental Microbiology Reports·Despina TsementziKonstantinos T Konstantinidis
Jun 18, 2015·Frontiers in Microbiology·Cory C PadillaFrank J Stewart
Aug 11, 2015·Journal of Advanced Research·Noha H YoussefMostafa S Elshahed
May 6, 2014·Frontiers in Microbiology·Scott M GiffordMary Ann Moran
Jan 8, 2015·Advances in Wound Care·Benjamin C Kirkup
Sep 25, 2014·Annual Review of Marine Science·Zackary I Johnson, Adam C Martiny
Jun 3, 2016·Frontiers in Microbiology·Ann M KleinJessica L Green
Jan 11, 2014·Annual Review of Marine Science·David M Karl
Oct 1, 2016·Annual Review of Marine Science·Stephen J Giovannoni
Jul 6, 2017·Environmental Microbiology·Jenifer B WalkeLisa K Belden
Feb 8, 2018·Environmental Microbiology Reports·Erik R Zinser
Mar 9, 2018·JCI Insight·Jasmohan S BajajPatrick M Gillevet
Aug 20, 2017·Applied and Environmental Microbiology·Cecilia M ChiriacCristian Coman
Dec 25, 2015·Microbiology and Molecular Biology Reviews : MMBR·Hongyue Dang, Charles R Lovell
Feb 10, 2018·Applied Microbiology and Biotechnology·Magdalena NaglerJudith Ascher-Jenull
Nov 24, 2019·Applied and Environmental Microbiology·Kathleen D CusickRussell T Hill
May 15, 2013·Environmental Microbiology·Yajuan LinZackary I Johnson
Nov 19, 2015·Frontiers in Microbiology·Dana E Hunt, Christopher S Ward
Sep 20, 2018·Microbiome·Keith Arora-WilliamsSarah P Preheim
Feb 15, 2018·Applied and Environmental Microbiology·Katerina PappEgbert Schwartz
Sep 14, 2018·International Journal of Genomics·Luana de Fátima AlvesMaría-Eugenia Guazzaroni
Aug 9, 2020·Frontiers in Microbiology·Rulong LiuZhe Xie
Jul 7, 2017·Frontiers in Plant Science·Jennifer EstendorferMichael Schloter

Related Concepts

Phylogeny
Plankton
RNA, Bacterial
RNA, Ribosomal, 16S
Seawater
Disease Clustering
DNA, Complementary
DNA
DNA, Ribosomal
Down-Regulation

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