Bacterial diversity in the bottom boundary layer of the inner continental shelf of Oregon, USA

Handle URI:
http://hdl.handle.net/10754/323592
Title:
Bacterial diversity in the bottom boundary layer of the inner continental shelf of Oregon, USA
Authors:
Bertagnolli, AD; Treusch, AH; Mason, OU; Stingl, Ulrich ( 0000-0002-0684-2597 ) ; Vergin, KL; Chan, F; Beszteri, B; Giovannoni, SJ
Abstract:
There have been few studies of the bacterial community within the bottom boundary layer (BBL) the turbulent region of the water column above the benthos in shallow seas. Typically, the BBL has large amounts of particulate organic matter suspended by turbulence, and it is often the first region of the water column to become hypoxic when oxygen declines. Communities at the surface (5 m) and in the BBL (1 to 10 m above the sea floor) were compared by terminal restriction fragment length polymorphism (T-RFLP) analysis and sequencing of the 16S rRNA gene. Multivariate statistical methods (hierarchical clustering, non-metric multidimensional scaling, and analysis of similarity (ANOSIM)) indicated that the microbial community of the BBL is distinct from the surface community. ANOSIM supported the distinction between surface and BBLs (R values 0.427 and 0.463, based on analysis with restriction enzymes BsuR1 and Hin6I, respectively, p < 0.1%). Six terminal restriction fragments showed an increase in abundance with depth. Cloning, screening and sequencing identified these as a novel environmental clade (Eastern North Pacific Chromatiales (ENPC) clade), the ARTIC96BD-19 clade of Gammaproteobacteria, the 6N14 and Agg8 clades of the phylum Planctomycetes, the OM60/NOR5 clade of Gammaproteobacteria, and uncultivated members of the Roseobacter clade in the MB11C09 and ULA23 subgroups. To the best of our knowledge, this analysis is the first to focus on the unique composition of microbial communities of the BBL in shallow, inner-shelf regions off the coast of Oregon, USA, and the first to report that an uncharacterized clade of Chromatiales is indigenous in this habitat.
KAUST Department:
Red Sea Research Center (RSRC)
Citation:
Bertagnolli A, Treusch A, Mason O, Stingl U, Vergin K, et al. (2011) Bacterial diversity in the bottom boundary layer of the inner continental shelf of Oregon, USA. Aquat Microb Ecol 64: 15-25. doi:10.3354/ame01504.
Publisher:
Inter-Research Science Center
Journal:
Aquatic Microbial Ecology
Issue Date:
21-Jun-2011
DOI:
10.3354/ame01504
Type:
Article
ISSN:
0948-3055; 1616-1564
Additional Links:
http://www.int-res.com/abstracts/ame/v64/n1/p15-25/
Appears in Collections:
Articles; Red Sea Research Center (RSRC)

Full metadata record

DC FieldValue Language
dc.contributor.authorBertagnolli, ADen
dc.contributor.authorTreusch, AHen
dc.contributor.authorMason, OUen
dc.contributor.authorStingl, Ulrichen
dc.contributor.authorVergin, KLen
dc.contributor.authorChan, Fen
dc.contributor.authorBeszteri, Ben
dc.contributor.authorGiovannoni, SJen
dc.date.accessioned2014-07-22T12:22:12Z-
dc.date.available2014-07-22T12:22:12Z-
dc.date.issued2011-6-21en
dc.identifier.citationBertagnolli A, Treusch A, Mason O, Stingl U, Vergin K, et al. (2011) Bacterial diversity in the bottom boundary layer of the inner continental shelf of Oregon, USA. Aquat Microb Ecol 64: 15-25. doi:10.3354/ame01504.en
dc.identifier.issn0948-3055en
dc.identifier.issn1616-1564en
dc.identifier.doi10.3354/ame01504en
dc.identifier.urihttp://hdl.handle.net/10754/323592en
dc.description.abstractThere have been few studies of the bacterial community within the bottom boundary layer (BBL) the turbulent region of the water column above the benthos in shallow seas. Typically, the BBL has large amounts of particulate organic matter suspended by turbulence, and it is often the first region of the water column to become hypoxic when oxygen declines. Communities at the surface (5 m) and in the BBL (1 to 10 m above the sea floor) were compared by terminal restriction fragment length polymorphism (T-RFLP) analysis and sequencing of the 16S rRNA gene. Multivariate statistical methods (hierarchical clustering, non-metric multidimensional scaling, and analysis of similarity (ANOSIM)) indicated that the microbial community of the BBL is distinct from the surface community. ANOSIM supported the distinction between surface and BBLs (R values 0.427 and 0.463, based on analysis with restriction enzymes BsuR1 and Hin6I, respectively, p < 0.1%). Six terminal restriction fragments showed an increase in abundance with depth. Cloning, screening and sequencing identified these as a novel environmental clade (Eastern North Pacific Chromatiales (ENPC) clade), the ARTIC96BD-19 clade of Gammaproteobacteria, the 6N14 and Agg8 clades of the phylum Planctomycetes, the OM60/NOR5 clade of Gammaproteobacteria, and uncultivated members of the Roseobacter clade in the MB11C09 and ULA23 subgroups. To the best of our knowledge, this analysis is the first to focus on the unique composition of microbial communities of the BBL in shallow, inner-shelf regions off the coast of Oregon, USA, and the first to report that an uncharacterized clade of Chromatiales is indigenous in this habitat.en
dc.language.isoenen
dc.publisherInter-Research Science Centeren
dc.relation.urlhttp://www.int-res.com/abstracts/ame/v64/n1/p15-25/en
dc.rightsArchived with thanks to Aquatic Microbial Ecologyen
dc.titleBacterial diversity in the bottom boundary layer of the inner continental shelf of Oregon, USAen
dc.typeArticleen
dc.contributor.departmentRed Sea Research Center (RSRC)en
dc.identifier.journalAquatic Microbial Ecologyen
dc.eprint.versionPublisher's Version/PDFen
dc.contributor.institutionDepartment of Microbiology, Oregon State University, Corvallis, OR 97331, United Statesen
dc.contributor.institutionCollege of Oceanic and Atmospheric Sciences, Oregon State University, Corvallis, OR 97331, United Statesen
dc.contributor.institutionPartnership for Interdisciplinary Studies of Coastal Oceans, Oregon State University, Corvallis, OR 97331, United Statesen
dc.contributor.affiliationKing Abdullah University of Science and Technology (KAUST)en
kaust.authorStingl, Ulrichen
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