Defining seasonal marine microbial community dynamics View Full Text


Ontology type: schema:ScholarlyArticle      Open Access: True


Article Info

DATE

2012-02

AUTHORS

Jack A Gilbert, Joshua A Steele, J Gregory Caporaso, Lars Steinbrück, Jens Reeder, Ben Temperton, Susan Huse, Alice C McHardy, Rob Knight, Ian Joint, Paul Somerfield, Jed A Fuhrman, Dawn Field

ABSTRACT

Here we describe, the longest microbial time-series analyzed to date using high-resolution 16S rRNA tag pyrosequencing of samples taken monthly over 6 years at a temperate marine coastal site off Plymouth, UK. Data treatment effected the estimation of community richness over a 6-year period, whereby 8794 operational taxonomic units (OTUs) were identified using single-linkage preclustering and 21 130 OTUs were identified by denoising the data. The Alphaproteobacteria were the most abundant Class, and the most frequently recorded OTUs were members of the Rickettsiales (SAR 11) and Rhodobacteriales. This near-surface ocean bacterial community showed strong repeatable seasonal patterns, which were defined by winter peaks in diversity across all years. Environmental variables explained far more variation in seasonally predictable bacteria than did data on protists or metazoan biomass. Change in day length alone explains >65% of the variance in community diversity. The results suggested that seasonal changes in environmental variables are more important than trophic interactions. Interestingly, microbial association network analysis showed that correlations in abundance were stronger within bacterial taxa rather than between bacteria and eukaryotes, or between bacteria and environmental variables. More... »

PAGES

298

Identifiers

URI

http://scigraph.springernature.com/pub.10.1038/ismej.2011.107

DOI

http://dx.doi.org/10.1038/ismej.2011.107

DIMENSIONS

https://app.dimensions.ai/details/publication/pub.1049133492

PUBMED

https://www.ncbi.nlm.nih.gov/pubmed/21850055


Indexing Status Check whether this publication has been indexed by Scopus and Web Of Science using the SN Indexing Status Tool
Incoming Citations Browse incoming citations for this publication using opencitations.net

JSON-LD is the canonical representation for SciGraph data.

TIP: You can open this SciGraph record using an external JSON-LD service: JSON-LD Playground Google SDTT

[
  {
    "@context": "https://springernature.github.io/scigraph/jsonld/sgcontext.json", 
    "about": [
      {
        "id": "http://purl.org/au-research/vocabulary/anzsrc-for/2008/0605", 
        "inDefinedTermSet": "http://purl.org/au-research/vocabulary/anzsrc-for/2008/", 
        "name": "Microbiology", 
        "type": "DefinedTerm"
      }, 
      {
        "id": "http://purl.org/au-research/vocabulary/anzsrc-for/2008/06", 
        "inDefinedTermSet": "http://purl.org/au-research/vocabulary/anzsrc-for/2008/", 
        "name": "Biological Sciences", 
        "type": "DefinedTerm"
      }, 
      {
        "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
        "name": "Bacteria", 
        "type": "DefinedTerm"
      }, 
      {
        "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
        "name": "Bacterial Physiological Phenomena", 
        "type": "DefinedTerm"
      }, 
      {
        "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
        "name": "Biodiversity", 
        "type": "DefinedTerm"
      }, 
      {
        "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
        "name": "Environment", 
        "type": "DefinedTerm"
      }, 
      {
        "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
        "name": "Oceans and Seas", 
        "type": "DefinedTerm"
      }, 
      {
        "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
        "name": "Photoperiod", 
        "type": "DefinedTerm"
      }, 
      {
        "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
        "name": "RNA, Ribosomal, 16S", 
        "type": "DefinedTerm"
      }, 
      {
        "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
        "name": "Seasons", 
        "type": "DefinedTerm"
      }, 
      {
        "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
        "name": "United Kingdom", 
        "type": "DefinedTerm"
      }
    ], 
    "author": [
      {
        "affiliation": {
          "alternateName": "University of Chicago", 
          "id": "https://www.grid.ac/institutes/grid.170205.1", 
          "name": [
            "Plymouth Marine Laboratory, Prospect Place, Plymouth, UK", 
            "Institute of Genomics and Systems Biology, Argonne National Laboratory, Argonne, IL, USA", 
            "Department of Ecology and Evolution, University of Chicago, Chicago, IL, USA"
          ], 
          "type": "Organization"
        }, 
        "familyName": "Gilbert", 
        "givenName": "Jack A", 
        "id": "sg:person.0727626545.37", 
        "sameAs": [
          "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.0727626545.37"
        ], 
        "type": "Person"
      }, 
      {
        "affiliation": {
          "alternateName": "University of Southern California", 
          "id": "https://www.grid.ac/institutes/grid.42505.36", 
          "name": [
            "University of Southern California, Department of Biological Sciences, Los Angeles, CA, USA"
          ], 
          "type": "Organization"
        }, 
        "familyName": "Steele", 
        "givenName": "Joshua A", 
        "id": "sg:person.0773174653.18", 
        "sameAs": [
          "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.0773174653.18"
        ], 
        "type": "Person"
      }, 
      {
        "affiliation": {
          "alternateName": "University of Colorado Boulder", 
          "id": "https://www.grid.ac/institutes/grid.266190.a", 
          "name": [
            "Department of Chemistry and Biochemistry, University of Colorado at Boulder, Boulder, CO, USA"
          ], 
          "type": "Organization"
        }, 
        "familyName": "Caporaso", 
        "givenName": "J Gregory", 
        "id": "sg:person.0624224157.70", 
        "sameAs": [
          "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.0624224157.70"
        ], 
        "type": "Person"
      }, 
      {
        "affiliation": {
          "alternateName": "Heinrich Heine University D\u00fcsseldorf", 
          "id": "https://www.grid.ac/institutes/grid.411327.2", 
          "name": [
            "Department of Algorithmic Bioinformatics, Heinrich-Heine University, D\u00fcsseldorf, Germany"
          ], 
          "type": "Organization"
        }, 
        "familyName": "Steinbr\u00fcck", 
        "givenName": "Lars", 
        "id": "sg:person.01055251247.09", 
        "sameAs": [
          "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01055251247.09"
        ], 
        "type": "Person"
      }, 
      {
        "affiliation": {
          "alternateName": "University of Colorado Boulder", 
          "id": "https://www.grid.ac/institutes/grid.266190.a", 
          "name": [
            "Department of Chemistry and Biochemistry, University of Colorado at Boulder, Boulder, CO, USA"
          ], 
          "type": "Organization"
        }, 
        "familyName": "Reeder", 
        "givenName": "Jens", 
        "id": "sg:person.0714463230.04", 
        "sameAs": [
          "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.0714463230.04"
        ], 
        "type": "Person"
      }, 
      {
        "affiliation": {
          "alternateName": "Plymouth Marine Laboratory", 
          "id": "https://www.grid.ac/institutes/grid.22319.3b", 
          "name": [
            "Plymouth Marine Laboratory, Prospect Place, Plymouth, UK"
          ], 
          "type": "Organization"
        }, 
        "familyName": "Temperton", 
        "givenName": "Ben", 
        "id": "sg:person.01112026615.36", 
        "sameAs": [
          "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01112026615.36"
        ], 
        "type": "Person"
      }, 
      {
        "affiliation": {
          "alternateName": "Marine Biological Laboratory", 
          "id": "https://www.grid.ac/institutes/grid.144532.5", 
          "name": [
            "Josephine Bay Paul Centre for Comparative Molecular Biology and Evolution, Marine Biological Laboratory, Woods Hole, MA, USA"
          ], 
          "type": "Organization"
        }, 
        "familyName": "Huse", 
        "givenName": "Susan", 
        "id": "sg:person.010572363047.57", 
        "sameAs": [
          "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.010572363047.57"
        ], 
        "type": "Person"
      }, 
      {
        "affiliation": {
          "alternateName": "Max Planck Institute for Informatics", 
          "id": "https://www.grid.ac/institutes/grid.419528.3", 
          "name": [
            "Department of Algorithmic Bioinformatics, Heinrich-Heine University, D\u00fcsseldorf, Germany", 
            "Max-Planck-Institut fur Informatik, Max-Planck Research Group for Computational Genomics and Epidemiology, Saarbr\u00fccken, Germany"
          ], 
          "type": "Organization"
        }, 
        "familyName": "McHardy", 
        "givenName": "Alice C", 
        "id": "sg:person.01041701425.67", 
        "sameAs": [
          "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01041701425.67"
        ], 
        "type": "Person"
      }, 
      {
        "affiliation": {
          "alternateName": "Howard Hughes Medical Institute", 
          "id": "https://www.grid.ac/institutes/grid.413575.1", 
          "name": [
            "Department of Chemistry and Biochemistry, University of Colorado at Boulder, Boulder, CO, USA", 
            "Howard Hughes Medical Institute, Boulder, CO, USA"
          ], 
          "type": "Organization"
        }, 
        "familyName": "Knight", 
        "givenName": "Rob", 
        "id": "sg:person.016311745377.96", 
        "sameAs": [
          "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.016311745377.96"
        ], 
        "type": "Person"
      }, 
      {
        "affiliation": {
          "alternateName": "Plymouth Marine Laboratory", 
          "id": "https://www.grid.ac/institutes/grid.22319.3b", 
          "name": [
            "Plymouth Marine Laboratory, Prospect Place, Plymouth, UK"
          ], 
          "type": "Organization"
        }, 
        "familyName": "Joint", 
        "givenName": "Ian", 
        "id": "sg:person.01224500057.23", 
        "sameAs": [
          "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01224500057.23"
        ], 
        "type": "Person"
      }, 
      {
        "affiliation": {
          "alternateName": "Plymouth Marine Laboratory", 
          "id": "https://www.grid.ac/institutes/grid.22319.3b", 
          "name": [
            "Plymouth Marine Laboratory, Prospect Place, Plymouth, UK"
          ], 
          "type": "Organization"
        }, 
        "familyName": "Somerfield", 
        "givenName": "Paul", 
        "id": "sg:person.01160563637.18", 
        "sameAs": [
          "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01160563637.18"
        ], 
        "type": "Person"
      }, 
      {
        "affiliation": {
          "alternateName": "University of Southern California", 
          "id": "https://www.grid.ac/institutes/grid.42505.36", 
          "name": [
            "University of Southern California, Department of Biological Sciences, Los Angeles, CA, USA"
          ], 
          "type": "Organization"
        }, 
        "familyName": "Fuhrman", 
        "givenName": "Jed A", 
        "id": "sg:person.0725061453.51", 
        "sameAs": [
          "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.0725061453.51"
        ], 
        "type": "Person"
      }, 
      {
        "affiliation": {
          "alternateName": "Centre for Ecology and Hydrology", 
          "id": "https://www.grid.ac/institutes/grid.494924.6", 
          "name": [
            "NERC Centre for Ecology and Hydrology, Wallingford, UK"
          ], 
          "type": "Organization"
        }, 
        "familyName": "Field", 
        "givenName": "Dawn", 
        "id": "sg:person.01223211445.99", 
        "sameAs": [
          "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01223211445.99"
        ], 
        "type": "Person"
      }
    ], 
    "citation": [
      {
        "id": "https://doi.org/10.4319/lo.2005.50.5.1687", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1001053378"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1016/s0065-2881(04)47001-1", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1002742928"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1073/pnas.0605127103", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1008547462"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1073/pnas.0803070105", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1009649760"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1093/nar/gkm864", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1010797283"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1371/journal.pbio.0050077", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1012896623"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1073/pnas.0507535103", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1014265685"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1016/j.jmarsys.2007.12.013", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1014286573"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "sg:pub.10.1038/nmeth0910-668b", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1017522391", 
          "https://doi.org/10.1038/nmeth0910-668b"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "sg:pub.10.1038/nmeth0910-668b", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1017522391", 
          "https://doi.org/10.1038/nmeth0910-668b"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1073/pnas.0602399103", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1019216988"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1073/pnas.1000080107", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1019627885"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1126/science.1177486", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1019669855"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1111/j.1462-2920.2009.02017.x", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1021785415"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1111/j.1462-2920.2009.02017.x", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1021785415"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1093/nar/29.1.173", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1025077910"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.4319/lo.1991.36.8.1578", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1030987336"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1128/aem.03006-05", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1034568952"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1111/j.1462-2920.2010.02193.x", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1044325968"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1111/j.1462-2920.2010.02193.x", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1044325968"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1371/journal.pone.0015545", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1044682001"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1093/nar/gkn491", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1044732652"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1002/9780470281840.ch10", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1045524315"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1128/aem.00062-07", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1045980007"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1016/0967-0645(95)00021-h", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1046804453"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "sg:pub.10.1038/nature08058", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1048444853", 
          "https://doi.org/10.1038/nature08058"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "sg:pub.10.1038/nature08058", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1048444853", 
          "https://doi.org/10.1038/nature08058"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://app.dimensions.ai/details/publication/pub.1082617979", 
        "type": "CreativeWork"
      }
    ], 
    "datePublished": "2012-02", 
    "datePublishedReg": "2012-02-01", 
    "description": "Here we describe, the longest microbial time-series analyzed to date using high-resolution 16S rRNA tag pyrosequencing of samples taken monthly over 6 years at a temperate marine coastal site off Plymouth, UK. Data treatment effected the estimation of community richness over a 6-year period, whereby 8794 operational taxonomic units (OTUs) were identified using single-linkage preclustering and 21\u2009130 OTUs were identified by denoising the data. The Alphaproteobacteria were the most abundant Class, and the most frequently recorded OTUs were members of the Rickettsiales (SAR 11) and Rhodobacteriales. This near-surface ocean bacterial community showed strong repeatable seasonal patterns, which were defined by winter peaks in diversity across all years. Environmental variables explained far more variation in seasonally predictable bacteria than did data on protists or metazoan biomass. Change in day length alone explains >65% of the variance in community diversity. The results suggested that seasonal changes in environmental variables are more important than trophic interactions. Interestingly, microbial association network analysis showed that correlations in abundance were stronger within bacterial taxa rather than between bacteria and eukaryotes, or between bacteria and environmental variables.", 
    "genre": "research_article", 
    "id": "sg:pub.10.1038/ismej.2011.107", 
    "inLanguage": [
      "en"
    ], 
    "isAccessibleForFree": true, 
    "isFundedItemOf": [
      {
        "id": "sg:grant.2758641", 
        "type": "MonetaryGrant"
      }, 
      {
        "id": "sg:grant.3076694", 
        "type": "MonetaryGrant"
      }, 
      {
        "id": "sg:grant.2769053", 
        "type": "MonetaryGrant"
      }
    ], 
    "isPartOf": [
      {
        "id": "sg:journal.1038436", 
        "issn": [
          "1751-7362", 
          "1751-7370"
        ], 
        "name": "The ISME Journal", 
        "type": "Periodical"
      }, 
      {
        "issueNumber": "2", 
        "type": "PublicationIssue"
      }, 
      {
        "type": "PublicationVolume", 
        "volumeNumber": "6"
      }
    ], 
    "name": "Defining seasonal marine microbial community dynamics", 
    "pagination": "298", 
    "productId": [
      {
        "name": "readcube_id", 
        "type": "PropertyValue", 
        "value": [
          "ea1062162b182513703ccecd5419ea1ee1d245fbabd4705b58f501756528a7c5"
        ]
      }, 
      {
        "name": "pubmed_id", 
        "type": "PropertyValue", 
        "value": [
          "21850055"
        ]
      }, 
      {
        "name": "nlm_unique_id", 
        "type": "PropertyValue", 
        "value": [
          "101301086"
        ]
      }, 
      {
        "name": "doi", 
        "type": "PropertyValue", 
        "value": [
          "10.1038/ismej.2011.107"
        ]
      }, 
      {
        "name": "dimensions_id", 
        "type": "PropertyValue", 
        "value": [
          "pub.1049133492"
        ]
      }
    ], 
    "sameAs": [
      "https://doi.org/10.1038/ismej.2011.107", 
      "https://app.dimensions.ai/details/publication/pub.1049133492"
    ], 
    "sdDataset": "articles", 
    "sdDatePublished": "2019-04-10T23:12", 
    "sdLicense": "https://scigraph.springernature.com/explorer/license/", 
    "sdPublisher": {
      "name": "Springer Nature - SN SciGraph project", 
      "type": "Organization"
    }, 
    "sdSource": "s3://com-uberresearch-data-dimensions-target-20181106-alternative/cleanup/v134/2549eaecd7973599484d7c17b260dba0a4ecb94b/merge/v9/a6c9fde33151104705d4d7ff012ea9563521a3ce/jats-lookup/v90/0000000001_0000000264/records_8693_00000426.jsonl", 
    "type": "ScholarlyArticle", 
    "url": "https://www.nature.com/articles/ismej2011107"
  }
]
 

Download the RDF metadata as:  json-ld nt turtle xml License info

HOW TO GET THIS DATA PROGRAMMATICALLY:

JSON-LD is a popular format for linked data which is fully compatible with JSON.

curl -H 'Accept: application/ld+json' 'https://scigraph.springernature.com/pub.10.1038/ismej.2011.107'

N-Triples is a line-based linked data format ideal for batch operations.

curl -H 'Accept: application/n-triples' 'https://scigraph.springernature.com/pub.10.1038/ismej.2011.107'

Turtle is a human-readable linked data format.

curl -H 'Accept: text/turtle' 'https://scigraph.springernature.com/pub.10.1038/ismej.2011.107'

RDF/XML is a standard XML format for linked data.

curl -H 'Accept: application/rdf+xml' 'https://scigraph.springernature.com/pub.10.1038/ismej.2011.107'


 

This table displays all metadata directly associated to this object as RDF triples.

296 TRIPLES      21 PREDICATES      62 URIs      30 LITERALS      18 BLANK NODES

Subject Predicate Object
1 sg:pub.10.1038/ismej.2011.107 schema:about N0d4d27cfa51e4ad3b309e780a9ec2fc2
2 N4ede7be6f2e446278af949fb51989695
3 N54dc8e3366ae463aad3e393ae9f3cb5d
4 N66c292c4e42d46c28f45afba5d8f31ff
5 N7145b6f954014dabace16b4b66507a28
6 N7e30e845c44047c0815b6677ba89d0af
7 N9c50d82a642b4d5aa71a3518e74dbc53
8 Na35eca5a49f2404ba7772387950fff50
9 Nabf7264e5fb1447bbe527cfc99b276ff
10 anzsrc-for:06
11 anzsrc-for:0605
12 schema:author N0ab106372306449cb6d698009cb1c6a1
13 schema:citation sg:pub.10.1038/nature08058
14 sg:pub.10.1038/nmeth0910-668b
15 https://app.dimensions.ai/details/publication/pub.1082617979
16 https://doi.org/10.1002/9780470281840.ch10
17 https://doi.org/10.1016/0967-0645(95)00021-h
18 https://doi.org/10.1016/j.jmarsys.2007.12.013
19 https://doi.org/10.1016/s0065-2881(04)47001-1
20 https://doi.org/10.1073/pnas.0507535103
21 https://doi.org/10.1073/pnas.0602399103
22 https://doi.org/10.1073/pnas.0605127103
23 https://doi.org/10.1073/pnas.0803070105
24 https://doi.org/10.1073/pnas.1000080107
25 https://doi.org/10.1093/nar/29.1.173
26 https://doi.org/10.1093/nar/gkm864
27 https://doi.org/10.1093/nar/gkn491
28 https://doi.org/10.1111/j.1462-2920.2009.02017.x
29 https://doi.org/10.1111/j.1462-2920.2010.02193.x
30 https://doi.org/10.1126/science.1177486
31 https://doi.org/10.1128/aem.00062-07
32 https://doi.org/10.1128/aem.03006-05
33 https://doi.org/10.1371/journal.pbio.0050077
34 https://doi.org/10.1371/journal.pone.0015545
35 https://doi.org/10.4319/lo.1991.36.8.1578
36 https://doi.org/10.4319/lo.2005.50.5.1687
37 schema:datePublished 2012-02
38 schema:datePublishedReg 2012-02-01
39 schema:description Here we describe, the longest microbial time-series analyzed to date using high-resolution 16S rRNA tag pyrosequencing of samples taken monthly over 6 years at a temperate marine coastal site off Plymouth, UK. Data treatment effected the estimation of community richness over a 6-year period, whereby 8794 operational taxonomic units (OTUs) were identified using single-linkage preclustering and 21 130 OTUs were identified by denoising the data. The Alphaproteobacteria were the most abundant Class, and the most frequently recorded OTUs were members of the Rickettsiales (SAR 11) and Rhodobacteriales. This near-surface ocean bacterial community showed strong repeatable seasonal patterns, which were defined by winter peaks in diversity across all years. Environmental variables explained far more variation in seasonally predictable bacteria than did data on protists or metazoan biomass. Change in day length alone explains >65% of the variance in community diversity. The results suggested that seasonal changes in environmental variables are more important than trophic interactions. Interestingly, microbial association network analysis showed that correlations in abundance were stronger within bacterial taxa rather than between bacteria and eukaryotes, or between bacteria and environmental variables.
40 schema:genre research_article
41 schema:inLanguage en
42 schema:isAccessibleForFree true
43 schema:isPartOf N6e49715cbb264001b36a38302a4ad51a
44 N97d38cdf10a342babbdaec1c1900f042
45 sg:journal.1038436
46 schema:name Defining seasonal marine microbial community dynamics
47 schema:pagination 298
48 schema:productId N0df26de2e57c4c8d897e5d3a749d21f3
49 N527197748d85481f9acb075ce7112ce8
50 N58d7754e2c274612a34d4c7534c62c90
51 Nb2a72f3cdee143beb6dcb8dd25eb4b3d
52 Neceb4b119262486a87f56fa82469edb0
53 schema:sameAs https://app.dimensions.ai/details/publication/pub.1049133492
54 https://doi.org/10.1038/ismej.2011.107
55 schema:sdDatePublished 2019-04-10T23:12
56 schema:sdLicense https://scigraph.springernature.com/explorer/license/
57 schema:sdPublisher N173ebe3978514cff93c03d5f1a1f791a
58 schema:url https://www.nature.com/articles/ismej2011107
59 sgo:license sg:explorer/license/
60 sgo:sdDataset articles
61 rdf:type schema:ScholarlyArticle
62 N0ab106372306449cb6d698009cb1c6a1 rdf:first sg:person.0727626545.37
63 rdf:rest N5869675e18154747bcfe220a093c2a21
64 N0d4d27cfa51e4ad3b309e780a9ec2fc2 schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
65 schema:name Bacteria
66 rdf:type schema:DefinedTerm
67 N0df26de2e57c4c8d897e5d3a749d21f3 schema:name readcube_id
68 schema:value ea1062162b182513703ccecd5419ea1ee1d245fbabd4705b58f501756528a7c5
69 rdf:type schema:PropertyValue
70 N173ebe3978514cff93c03d5f1a1f791a schema:name Springer Nature - SN SciGraph project
71 rdf:type schema:Organization
72 N28df348361cc4403b966fdcc755cf98a rdf:first sg:person.01055251247.09
73 rdf:rest Nd050848a65674266a40fe08d842797dd
74 N2cbf081b2ac94a0f9ebd189b366a504f rdf:first sg:person.0725061453.51
75 rdf:rest Nf1c62c8188ef47ac998923a62bfdf5b0
76 N4ede7be6f2e446278af949fb51989695 schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
77 schema:name Photoperiod
78 rdf:type schema:DefinedTerm
79 N503d568c637e4d2eae4abd61e390fc15 rdf:first sg:person.01160563637.18
80 rdf:rest N2cbf081b2ac94a0f9ebd189b366a504f
81 N527197748d85481f9acb075ce7112ce8 schema:name nlm_unique_id
82 schema:value 101301086
83 rdf:type schema:PropertyValue
84 N54c0d65985564c679d9097cedc9b292b rdf:first sg:person.01041701425.67
85 rdf:rest N839dd5ead69349bcb1726a2c0f65a78a
86 N54dc8e3366ae463aad3e393ae9f3cb5d schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
87 schema:name United Kingdom
88 rdf:type schema:DefinedTerm
89 N5869675e18154747bcfe220a093c2a21 rdf:first sg:person.0773174653.18
90 rdf:rest Nef98e8a216d743288f93f43bce1e3dcd
91 N58d7754e2c274612a34d4c7534c62c90 schema:name dimensions_id
92 schema:value pub.1049133492
93 rdf:type schema:PropertyValue
94 N66c292c4e42d46c28f45afba5d8f31ff schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
95 schema:name Biodiversity
96 rdf:type schema:DefinedTerm
97 N6e49715cbb264001b36a38302a4ad51a schema:issueNumber 2
98 rdf:type schema:PublicationIssue
99 N7145b6f954014dabace16b4b66507a28 schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
100 schema:name Bacterial Physiological Phenomena
101 rdf:type schema:DefinedTerm
102 N79830aa96ce746cd84f0f5ae4a0a8ace rdf:first sg:person.010572363047.57
103 rdf:rest N54c0d65985564c679d9097cedc9b292b
104 N7e30e845c44047c0815b6677ba89d0af schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
105 schema:name Seasons
106 rdf:type schema:DefinedTerm
107 N839dd5ead69349bcb1726a2c0f65a78a rdf:first sg:person.016311745377.96
108 rdf:rest N903e5f770a6c4aff8b2319bea7011ca0
109 N903e5f770a6c4aff8b2319bea7011ca0 rdf:first sg:person.01224500057.23
110 rdf:rest N503d568c637e4d2eae4abd61e390fc15
111 N97d38cdf10a342babbdaec1c1900f042 schema:volumeNumber 6
112 rdf:type schema:PublicationVolume
113 N9c50d82a642b4d5aa71a3518e74dbc53 schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
114 schema:name RNA, Ribosomal, 16S
115 rdf:type schema:DefinedTerm
116 Na35eca5a49f2404ba7772387950fff50 schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
117 schema:name Oceans and Seas
118 rdf:type schema:DefinedTerm
119 Nabf7264e5fb1447bbe527cfc99b276ff schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
120 schema:name Environment
121 rdf:type schema:DefinedTerm
122 Nb2a72f3cdee143beb6dcb8dd25eb4b3d schema:name pubmed_id
123 schema:value 21850055
124 rdf:type schema:PropertyValue
125 Nd050848a65674266a40fe08d842797dd rdf:first sg:person.0714463230.04
126 rdf:rest Nd3c445671296466ca03cf9a2d22cb5c4
127 Nd3c445671296466ca03cf9a2d22cb5c4 rdf:first sg:person.01112026615.36
128 rdf:rest N79830aa96ce746cd84f0f5ae4a0a8ace
129 Neceb4b119262486a87f56fa82469edb0 schema:name doi
130 schema:value 10.1038/ismej.2011.107
131 rdf:type schema:PropertyValue
132 Nef98e8a216d743288f93f43bce1e3dcd rdf:first sg:person.0624224157.70
133 rdf:rest N28df348361cc4403b966fdcc755cf98a
134 Nf1c62c8188ef47ac998923a62bfdf5b0 rdf:first sg:person.01223211445.99
135 rdf:rest rdf:nil
136 anzsrc-for:06 schema:inDefinedTermSet anzsrc-for:
137 schema:name Biological Sciences
138 rdf:type schema:DefinedTerm
139 anzsrc-for:0605 schema:inDefinedTermSet anzsrc-for:
140 schema:name Microbiology
141 rdf:type schema:DefinedTerm
142 sg:grant.2758641 http://pending.schema.org/fundedItem sg:pub.10.1038/ismej.2011.107
143 rdf:type schema:MonetaryGrant
144 sg:grant.2769053 http://pending.schema.org/fundedItem sg:pub.10.1038/ismej.2011.107
145 rdf:type schema:MonetaryGrant
146 sg:grant.3076694 http://pending.schema.org/fundedItem sg:pub.10.1038/ismej.2011.107
147 rdf:type schema:MonetaryGrant
148 sg:journal.1038436 schema:issn 1751-7362
149 1751-7370
150 schema:name The ISME Journal
151 rdf:type schema:Periodical
152 sg:person.01041701425.67 schema:affiliation https://www.grid.ac/institutes/grid.419528.3
153 schema:familyName McHardy
154 schema:givenName Alice C
155 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01041701425.67
156 rdf:type schema:Person
157 sg:person.01055251247.09 schema:affiliation https://www.grid.ac/institutes/grid.411327.2
158 schema:familyName Steinbrück
159 schema:givenName Lars
160 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01055251247.09
161 rdf:type schema:Person
162 sg:person.010572363047.57 schema:affiliation https://www.grid.ac/institutes/grid.144532.5
163 schema:familyName Huse
164 schema:givenName Susan
165 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.010572363047.57
166 rdf:type schema:Person
167 sg:person.01112026615.36 schema:affiliation https://www.grid.ac/institutes/grid.22319.3b
168 schema:familyName Temperton
169 schema:givenName Ben
170 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01112026615.36
171 rdf:type schema:Person
172 sg:person.01160563637.18 schema:affiliation https://www.grid.ac/institutes/grid.22319.3b
173 schema:familyName Somerfield
174 schema:givenName Paul
175 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01160563637.18
176 rdf:type schema:Person
177 sg:person.01223211445.99 schema:affiliation https://www.grid.ac/institutes/grid.494924.6
178 schema:familyName Field
179 schema:givenName Dawn
180 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01223211445.99
181 rdf:type schema:Person
182 sg:person.01224500057.23 schema:affiliation https://www.grid.ac/institutes/grid.22319.3b
183 schema:familyName Joint
184 schema:givenName Ian
185 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01224500057.23
186 rdf:type schema:Person
187 sg:person.016311745377.96 schema:affiliation https://www.grid.ac/institutes/grid.413575.1
188 schema:familyName Knight
189 schema:givenName Rob
190 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.016311745377.96
191 rdf:type schema:Person
192 sg:person.0624224157.70 schema:affiliation https://www.grid.ac/institutes/grid.266190.a
193 schema:familyName Caporaso
194 schema:givenName J Gregory
195 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.0624224157.70
196 rdf:type schema:Person
197 sg:person.0714463230.04 schema:affiliation https://www.grid.ac/institutes/grid.266190.a
198 schema:familyName Reeder
199 schema:givenName Jens
200 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.0714463230.04
201 rdf:type schema:Person
202 sg:person.0725061453.51 schema:affiliation https://www.grid.ac/institutes/grid.42505.36
203 schema:familyName Fuhrman
204 schema:givenName Jed A
205 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.0725061453.51
206 rdf:type schema:Person
207 sg:person.0727626545.37 schema:affiliation https://www.grid.ac/institutes/grid.170205.1
208 schema:familyName Gilbert
209 schema:givenName Jack A
210 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.0727626545.37
211 rdf:type schema:Person
212 sg:person.0773174653.18 schema:affiliation https://www.grid.ac/institutes/grid.42505.36
213 schema:familyName Steele
214 schema:givenName Joshua A
215 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.0773174653.18
216 rdf:type schema:Person
217 sg:pub.10.1038/nature08058 schema:sameAs https://app.dimensions.ai/details/publication/pub.1048444853
218 https://doi.org/10.1038/nature08058
219 rdf:type schema:CreativeWork
220 sg:pub.10.1038/nmeth0910-668b schema:sameAs https://app.dimensions.ai/details/publication/pub.1017522391
221 https://doi.org/10.1038/nmeth0910-668b
222 rdf:type schema:CreativeWork
223 https://app.dimensions.ai/details/publication/pub.1082617979 schema:CreativeWork
224 https://doi.org/10.1002/9780470281840.ch10 schema:sameAs https://app.dimensions.ai/details/publication/pub.1045524315
225 rdf:type schema:CreativeWork
226 https://doi.org/10.1016/0967-0645(95)00021-h schema:sameAs https://app.dimensions.ai/details/publication/pub.1046804453
227 rdf:type schema:CreativeWork
228 https://doi.org/10.1016/j.jmarsys.2007.12.013 schema:sameAs https://app.dimensions.ai/details/publication/pub.1014286573
229 rdf:type schema:CreativeWork
230 https://doi.org/10.1016/s0065-2881(04)47001-1 schema:sameAs https://app.dimensions.ai/details/publication/pub.1002742928
231 rdf:type schema:CreativeWork
232 https://doi.org/10.1073/pnas.0507535103 schema:sameAs https://app.dimensions.ai/details/publication/pub.1014265685
233 rdf:type schema:CreativeWork
234 https://doi.org/10.1073/pnas.0602399103 schema:sameAs https://app.dimensions.ai/details/publication/pub.1019216988
235 rdf:type schema:CreativeWork
236 https://doi.org/10.1073/pnas.0605127103 schema:sameAs https://app.dimensions.ai/details/publication/pub.1008547462
237 rdf:type schema:CreativeWork
238 https://doi.org/10.1073/pnas.0803070105 schema:sameAs https://app.dimensions.ai/details/publication/pub.1009649760
239 rdf:type schema:CreativeWork
240 https://doi.org/10.1073/pnas.1000080107 schema:sameAs https://app.dimensions.ai/details/publication/pub.1019627885
241 rdf:type schema:CreativeWork
242 https://doi.org/10.1093/nar/29.1.173 schema:sameAs https://app.dimensions.ai/details/publication/pub.1025077910
243 rdf:type schema:CreativeWork
244 https://doi.org/10.1093/nar/gkm864 schema:sameAs https://app.dimensions.ai/details/publication/pub.1010797283
245 rdf:type schema:CreativeWork
246 https://doi.org/10.1093/nar/gkn491 schema:sameAs https://app.dimensions.ai/details/publication/pub.1044732652
247 rdf:type schema:CreativeWork
248 https://doi.org/10.1111/j.1462-2920.2009.02017.x schema:sameAs https://app.dimensions.ai/details/publication/pub.1021785415
249 rdf:type schema:CreativeWork
250 https://doi.org/10.1111/j.1462-2920.2010.02193.x schema:sameAs https://app.dimensions.ai/details/publication/pub.1044325968
251 rdf:type schema:CreativeWork
252 https://doi.org/10.1126/science.1177486 schema:sameAs https://app.dimensions.ai/details/publication/pub.1019669855
253 rdf:type schema:CreativeWork
254 https://doi.org/10.1128/aem.00062-07 schema:sameAs https://app.dimensions.ai/details/publication/pub.1045980007
255 rdf:type schema:CreativeWork
256 https://doi.org/10.1128/aem.03006-05 schema:sameAs https://app.dimensions.ai/details/publication/pub.1034568952
257 rdf:type schema:CreativeWork
258 https://doi.org/10.1371/journal.pbio.0050077 schema:sameAs https://app.dimensions.ai/details/publication/pub.1012896623
259 rdf:type schema:CreativeWork
260 https://doi.org/10.1371/journal.pone.0015545 schema:sameAs https://app.dimensions.ai/details/publication/pub.1044682001
261 rdf:type schema:CreativeWork
262 https://doi.org/10.4319/lo.1991.36.8.1578 schema:sameAs https://app.dimensions.ai/details/publication/pub.1030987336
263 rdf:type schema:CreativeWork
264 https://doi.org/10.4319/lo.2005.50.5.1687 schema:sameAs https://app.dimensions.ai/details/publication/pub.1001053378
265 rdf:type schema:CreativeWork
266 https://www.grid.ac/institutes/grid.144532.5 schema:alternateName Marine Biological Laboratory
267 schema:name Josephine Bay Paul Centre for Comparative Molecular Biology and Evolution, Marine Biological Laboratory, Woods Hole, MA, USA
268 rdf:type schema:Organization
269 https://www.grid.ac/institutes/grid.170205.1 schema:alternateName University of Chicago
270 schema:name Department of Ecology and Evolution, University of Chicago, Chicago, IL, USA
271 Institute of Genomics and Systems Biology, Argonne National Laboratory, Argonne, IL, USA
272 Plymouth Marine Laboratory, Prospect Place, Plymouth, UK
273 rdf:type schema:Organization
274 https://www.grid.ac/institutes/grid.22319.3b schema:alternateName Plymouth Marine Laboratory
275 schema:name Plymouth Marine Laboratory, Prospect Place, Plymouth, UK
276 rdf:type schema:Organization
277 https://www.grid.ac/institutes/grid.266190.a schema:alternateName University of Colorado Boulder
278 schema:name Department of Chemistry and Biochemistry, University of Colorado at Boulder, Boulder, CO, USA
279 rdf:type schema:Organization
280 https://www.grid.ac/institutes/grid.411327.2 schema:alternateName Heinrich Heine University Düsseldorf
281 schema:name Department of Algorithmic Bioinformatics, Heinrich-Heine University, Düsseldorf, Germany
282 rdf:type schema:Organization
283 https://www.grid.ac/institutes/grid.413575.1 schema:alternateName Howard Hughes Medical Institute
284 schema:name Department of Chemistry and Biochemistry, University of Colorado at Boulder, Boulder, CO, USA
285 Howard Hughes Medical Institute, Boulder, CO, USA
286 rdf:type schema:Organization
287 https://www.grid.ac/institutes/grid.419528.3 schema:alternateName Max Planck Institute for Informatics
288 schema:name Department of Algorithmic Bioinformatics, Heinrich-Heine University, Düsseldorf, Germany
289 Max-Planck-Institut fur Informatik, Max-Planck Research Group for Computational Genomics and Epidemiology, Saarbrücken, Germany
290 rdf:type schema:Organization
291 https://www.grid.ac/institutes/grid.42505.36 schema:alternateName University of Southern California
292 schema:name University of Southern California, Department of Biological Sciences, Los Angeles, CA, USA
293 rdf:type schema:Organization
294 https://www.grid.ac/institutes/grid.494924.6 schema:alternateName Centre for Ecology and Hydrology
295 schema:name NERC Centre for Ecology and Hydrology, Wallingford, UK
296 rdf:type schema:Organization
 




Preview window. Press ESC to close (or click here)


...