Functional Gene Composition, Diversity and Redundancy in Microbial Stream Biofilm Communities

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dc.contributor.authorAndrew Dopheide
dc.contributor.authorGavin Lear
dc.contributor.authorZhili He
dc.contributor.authorJizhong Zhou
dc.contributor.authorGillian D. Lewis
dc.date.accessioned2017-03-05T22:54:51Z
dc.date.available2017-03-05T22:54:51Z
dc.date.issued2015-04-07
dc.descriptionWe thank Yimin Dong (University of Auckland) for carrying out all DNA extractions, and Martin Neale (Auckland Council) for generous assistance with the study including provision of environmental data.en_US
dc.descriptionen_US
dc.description.abstractWe surveyed the functional gene composition and diversity of microbial biofilm communities in 18 New Zealand streams affected by different types of catchment land use, using a comprehensive functional gene array, GeoChip 3.0. A total of 5,371 nutrient cycling and energy metabolism genes within 65 gene families were detected among all samples (342 to 2,666 genes per stream). Carbon cycling genes were most common, followed by nitrogen cycling genes, with smaller proportions of sulphur, phosphorus cycling and energy metabolism genes. Samples from urban and native forest streams had the most similar functional gene composition, while samples from exotic forest and rural streams exhibited the most variation. There were significant differences between nitrogen and sulphur cycling genes detected in native forest and urban samples compared to exotic forest and rural samples, attributed to contrasting proportions of nitrogen fixation, denitrification, and sulphur reduction genes. Most genes were detected only in one or a few samples, with only a small minority occurring in all samples. Nonetheless, 42 of 65 gene families occurred in every sample and overall proportions of gene families were similar among samples from contrasting streams. This suggests the existence of functional gene redundancy among different stream biofilm communities despite contrasting taxonomic composition.en_US
dc.description.peerreviewYesen_US
dc.description.peerreviewnoteshttp://www.plosone.org/static/editorial#peeren_US
dc.identifier.citationDopheide A, Lear G, He Z, Zhou J, Lewis GD (2015) Functional Gene Composition, Diversity and Redundancy in Microbial Stream Biofilm Communities. PLoS ONE 10(4): e0123179. doi:10.1371/journal.pone.0123179en_US
dc.identifier.doi10.1371/journal.pone.0123179en_US
dc.identifier.urihttp://hdl.handle.net/11244/49256
dc.language.isoen_USen_US
dc.publisherPLos One
dc.relation.ispartofseriesPLoS ONE 10(4): e0123179
dc.relation.urihttp://www.plosone.org/article/info%3Adoi%2F10.1371%2Fjournal.pone.0123179
dc.rightsAttribution 3.0 United States
dc.rights.requestablefalseen_US
dc.rights.urihttp://creativecommons.org/licenses/by/3.0/us/
dc.subjectBiofilms,Energy metabolism,Forests,Land use,Community ecology,Bacterial biofilms,Nutrients,Microbial ecologyen_US
dc.titleFunctional Gene Composition, Diversity and Redundancy in Microbial Stream Biofilm Communitiesen_US
dc.typeResearch Articleen_US

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