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Top-down controls on bacterial community structure: microbial network analysis of bacteria, T4-like viruses and protists.

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Title: Top-down controls on bacterial community structure: microbial network analysis of bacteria, T4-like viruses and protists.
Authors: Chow, Cheryl-Emiliane T1, Kim, Diane Y1, Sachdeva, Rohan1, Caron, David A1, Fuhrman, Jed A1
Source: ISME Journal: Multidisciplinary Journal of Microbial Ecology. Apr2014, Vol. 8 Issue 4, p816-829. 14p.
Subjects: Protista, Microbial ecology, Classification of microorganisms, Ribosomes, Bacteriophages, Ribosomal DNA, Genetic polymorphisms, Bacteria
Abstract: Characterizing ecological relationships between viruses, bacteria and protists in the ocean are critical to understanding ecosystem function, yet these relationships are infrequently investigated together. We evaluated these relationships through microbial association network analysis of samples collected approximately monthly from March 2008 to January 2011 in the surface ocean (0-5 m) at the San Pedro Ocean Time series station. Bacterial, T4-like myoviral and protistan communities were described by Automated Ribosomal Intergenic Spacer Analysis and terminal restriction fragment length polymorphism of the gene encoding the major capsid protein (g23) and 18S ribosomal DNA, respectively. Concurrent shifts in community structure suggested similar timing of responses to environmental and biological parameters. We linked T4-like myoviral, bacterial and protistan operational taxonomic units by local similarity correlations, which were then visualized as association networks. Network links (correlations) potentially represent synergistic and antagonistic relationships such as viral lysis, grazing, competition or other interactions. We found that virus-bacteria relationships were more cross-linked than protist-bacteria relationships, suggestive of increased taxonomic specificity in virus-bacteria relationships. We also found that 80% of bacterial-protist and 74% of bacterial-viral correlations were positive, with the latter suggesting that at monthly and seasonal timescales, viruses may be following their hosts more often than controlling host abundance. [ABSTRACT FROM AUTHOR]
Copyright of ISME Journal: Multidisciplinary Journal of Microbial Ecology is the property of Oxford University Press / USA and its content may not be copied or emailed to multiple sites without the copyright holder's express written permission. Additionally, content may not be used with any artificial intelligence tools or machine learning technologies. However, users may print, download, or email articles for individual use. This abstract may be abridged. No warranty is given about the accuracy of the copy. Users should refer to the original published version of the material for the full abstract. (Copyright applies to all Abstracts.)
Database: Engineering Source
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DbLabel: Engineering Source
An: 94971311
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PubTypeId: academicJournal
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  Data: Top-down controls on bacterial community structure: microbial network analysis of bacteria, T4-like viruses and protists.
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  Data: <searchLink fieldCode="AR" term="%22Chow%2C+Cheryl-Emiliane+T%22">Chow, Cheryl-Emiliane T</searchLink><relatesTo>1</relatesTo><br /><searchLink fieldCode="AR" term="%22Kim%2C+Diane+Y%22">Kim, Diane Y</searchLink><relatesTo>1</relatesTo><br /><searchLink fieldCode="AR" term="%22Sachdeva%2C+Rohan%22">Sachdeva, Rohan</searchLink><relatesTo>1</relatesTo><br /><searchLink fieldCode="AR" term="%22Caron%2C+David+A%22">Caron, David A</searchLink><relatesTo>1</relatesTo><br /><searchLink fieldCode="AR" term="%22Fuhrman%2C+Jed+A%22">Fuhrman, Jed A</searchLink><relatesTo>1</relatesTo>
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  Data: <searchLink fieldCode="JN" term="%22ISME+Journal%3A+Multidisciplinary+Journal+of+Microbial+Ecology%22">ISME Journal: Multidisciplinary Journal of Microbial Ecology</searchLink>. Apr2014, Vol. 8 Issue 4, p816-829. 14p.
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  Data: <searchLink fieldCode="DE" term="%22Protista%22">Protista</searchLink><br /><searchLink fieldCode="DE" term="%22Microbial+ecology%22">Microbial ecology</searchLink><br /><searchLink fieldCode="DE" term="%22Classification+of+microorganisms%22">Classification of microorganisms</searchLink><br /><searchLink fieldCode="DE" term="%22Ribosomes%22">Ribosomes</searchLink><br /><searchLink fieldCode="DE" term="%22Bacteriophages%22">Bacteriophages</searchLink><br /><searchLink fieldCode="DE" term="%22Ribosomal+DNA%22">Ribosomal DNA</searchLink><br /><searchLink fieldCode="DE" term="%22Genetic+polymorphisms%22">Genetic polymorphisms</searchLink><br /><searchLink fieldCode="DE" term="%22Bacteria%22">Bacteria</searchLink>
– Name: Abstract
  Label: Abstract
  Group: Ab
  Data: Characterizing ecological relationships between viruses, bacteria and protists in the ocean are critical to understanding ecosystem function, yet these relationships are infrequently investigated together. We evaluated these relationships through microbial association network analysis of samples collected approximately monthly from March 2008 to January 2011 in the surface ocean (0-5 m) at the San Pedro Ocean Time series station. Bacterial, T4-like myoviral and protistan communities were described by Automated Ribosomal Intergenic Spacer Analysis and terminal restriction fragment length polymorphism of the gene encoding the major capsid protein (g23) and 18S ribosomal DNA, respectively. Concurrent shifts in community structure suggested similar timing of responses to environmental and biological parameters. We linked T4-like myoviral, bacterial and protistan operational taxonomic units by local similarity correlations, which were then visualized as association networks. Network links (correlations) potentially represent synergistic and antagonistic relationships such as viral lysis, grazing, competition or other interactions. We found that virus-bacteria relationships were more cross-linked than protist-bacteria relationships, suggestive of increased taxonomic specificity in virus-bacteria relationships. We also found that 80% of bacterial-protist and 74% of bacterial-viral correlations were positive, with the latter suggesting that at monthly and seasonal timescales, viruses may be following their hosts more often than controlling host abundance. [ABSTRACT FROM AUTHOR]
– Name: AbstractSuppliedCopyright
  Label:
  Group: Ab
  Data: <i>Copyright of ISME Journal: Multidisciplinary Journal of Microbial Ecology is the property of Oxford University Press / USA and its content may not be copied or emailed to multiple sites without the copyright holder's express written permission. Additionally, content may not be used with any artificial intelligence tools or machine learning technologies. However, users may print, download, or email articles for individual use. This abstract may be abridged. No warranty is given about the accuracy of the copy. Users should refer to the original published version of the material for the full abstract.</i> (Copyright applies to all Abstracts.)
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        Value: 10.1038/ismej.2013.199
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        Text: English
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      – SubjectFull: Microbial ecology
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      – SubjectFull: Classification of microorganisms
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      – SubjectFull: Genetic polymorphisms
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      – SubjectFull: Bacteria
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      – TitleFull: Top-down controls on bacterial community structure: microbial network analysis of bacteria, T4-like viruses and protists.
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              Text: Apr2014
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