Biogeography and Degree of Endemicity of Fluorescent Pseudomonas Strains in Soil
Identifieur interne : 000062 ( Pmc/Curation ); précédent : 000061; suivant : 000063Biogeography and Degree of Endemicity of Fluorescent Pseudomonas Strains in Soil
Auteurs : Jae-Chang Cho ; James M. TiedjeSource :
- Applied and Environmental Microbiology [ 0099-2240 ] ; 2000.
Abstract
Fluorescent
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PubMed: 11097926
PubMed Central: 92480
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<record><TEI><teiHeader><fileDesc><titleStmt><title xml:lang="en">Biogeography and Degree of Endemicity of Fluorescent <italic>Pseudomonas</italic>
Strains in Soil</title>
<author><name sortKey="Cho, Jae Chang" sort="Cho, Jae Chang" uniqKey="Cho J" first="Jae-Chang" last="Cho">Jae-Chang Cho</name>
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<author><name sortKey="Tiedje, James M" sort="Tiedje, James M" uniqKey="Tiedje J" first="James M." last="Tiedje">James M. Tiedje</name>
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<sourceDesc><biblStruct><analytic><title xml:lang="en" level="a" type="main">Biogeography and Degree of Endemicity of Fluorescent <italic>Pseudomonas</italic>
Strains in Soil</title>
<author><name sortKey="Cho, Jae Chang" sort="Cho, Jae Chang" uniqKey="Cho J" first="Jae-Chang" last="Cho">Jae-Chang Cho</name>
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<author><name sortKey="Tiedje, James M" sort="Tiedje, James M" uniqKey="Tiedje J" first="James M." last="Tiedje">James M. Tiedje</name>
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<series><title level="j">Applied and Environmental Microbiology</title>
<idno type="ISSN">0099-2240</idno>
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<front><div type="abstract" xml:lang="en"><p>Fluorescent <italic>Pseudomonas</italic>
strains were isolated from 38 undisturbed pristine soil samples from 10 sites on four continents. A total of 248 isolates were confirmed as <italic>Pseudomonas</italic>
sensu stricto by fluorescent pigment production and group-specific 16S ribosomal DNA (rDNA) primers. These isolates were analyzed by three molecular typing methods with different levels of resolution: 16S rDNA restriction analysis (ARDRA), 16S-23S rDNA intergenic spacer-restriction fragment length polymorphism (ITS-RFLP) analysis, and repetitive extragenic palindromic PCR genomic fingerprinting with a BOX primer set (BOX-PCR). All isolates showed very similar ARDRA patterns, as expected. Some ITS-RFLP types were also found at every geographic scale, although some ITS-RFLP types were unique to the site of origin, indicating weak endemicity at this level of resolution. Using a similarity value of 0.8 or more after cluster analysis of BOX-PCR fingerprinting patterns to define the same genotypes, we identified 85 unique fluorescent <italic>Pseudomonas</italic>
genotypes in our collection. There were no overlapping genotypes between sites as well as continental regions, indicating strict site endemism. The genetic distance between isolates as determined by degree of dissimilarity in BOX-PCR patterns was meaningfully correlated to the geographic distance between the isolates' sites of origin. Also, a significant positive spatial autocorrelation of the distribution of the genotypes was observed among distances of <197 km, and significant negative autocorrelation was observed between regions. Hence, strong endemicity of fluorescent <italic>Pseudomonas</italic>
genotypes was observed, suggesting that these heterotrophic soil bacteria are not globally mixed.</p>
</div>
</front>
</TEI>
<pmc article-type="research-article"><pmc-comment>The publisher of this article does not allow downloading of the full text in XML form.</pmc-comment>
<front><journal-meta><journal-id journal-id-type="nlm-ta">Appl Environ Microbiol</journal-id>
<journal-id journal-id-type="publisher-id">APPL ENVIRON MICROBIOL</journal-id>
<journal-title>Applied and Environmental Microbiology</journal-title>
<issn pub-type="ppub">0099-2240</issn>
<issn pub-type="epub">1098-5336</issn>
<publisher><publisher-name>American Society for Microbiology</publisher-name>
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<article-meta><article-id pub-id-type="pmid">11097926</article-id>
<article-id pub-id-type="pmc">92480</article-id>
<article-id pub-id-type="publisher-id">0647</article-id>
<article-categories><subj-group subj-group-type="heading"><subject>Microbial Ecology</subject>
</subj-group>
</article-categories>
<title-group><article-title>Biogeography and Degree of Endemicity of Fluorescent <italic>Pseudomonas</italic>
Strains in Soil</article-title>
</title-group>
<contrib-group><contrib contrib-type="author"><name><surname>Cho</surname>
<given-names>Jae-Chang</given-names>
</name>
<xref ref-type="aff" rid="N0x8bd4770.0xa009708">1</xref>
</contrib>
<contrib contrib-type="author"><name><surname>Tiedje</surname>
<given-names>James M.</given-names>
</name>
<xref ref-type="aff" rid="N0x8bd4770.0xa009708">1</xref>
<xref ref-type="aff" rid="N0x8bd4770.0xa009708">2</xref>
<xref ref-type="author-notes" rid="FN150">*</xref>
</contrib>
</contrib-group>
<aff id="N0x8bd4770.0xa009708"> Center for Microbial Ecology<sup>1</sup>
and Departments of Crop and Soil Sciences and Microbiology,<sup>2</sup>
Michigan State University, East Lansing, Michigan 48824</aff>
<author-notes><fn id="FN150"><label>*</label>
<p>Corresponding author. Mailing address: Center for Microbial Ecology, Plant and Soil Science Bldg., Michigan State University, East Lansing, MI 48824. Phone: (517) 353-9021. Fax: (517) 353-2917. E-mail: <email>tiedjej@msu.edu</email>
.</p>
</fn>
</author-notes>
<pub-date pub-type="ppub"><month>12</month>
<year>2000</year>
</pub-date>
<volume>66</volume>
<issue>12</issue>
<fpage>5448</fpage>
<lpage>5456</lpage>
<history><date date-type="received"><day>18</day>
<month>4</month>
<year>2000</year>
</date>
<date date-type="accepted"><day>1</day>
<month>9</month>
<year>2000</year>
</date>
</history>
<copyright-statement>Copyright © 2000, American Society for Microbiology</copyright-statement>
<copyright-year>2000</copyright-year>
<abstract><p>Fluorescent <italic>Pseudomonas</italic>
strains were isolated from 38 undisturbed pristine soil samples from 10 sites on four continents. A total of 248 isolates were confirmed as <italic>Pseudomonas</italic>
sensu stricto by fluorescent pigment production and group-specific 16S ribosomal DNA (rDNA) primers. These isolates were analyzed by three molecular typing methods with different levels of resolution: 16S rDNA restriction analysis (ARDRA), 16S-23S rDNA intergenic spacer-restriction fragment length polymorphism (ITS-RFLP) analysis, and repetitive extragenic palindromic PCR genomic fingerprinting with a BOX primer set (BOX-PCR). All isolates showed very similar ARDRA patterns, as expected. Some ITS-RFLP types were also found at every geographic scale, although some ITS-RFLP types were unique to the site of origin, indicating weak endemicity at this level of resolution. Using a similarity value of 0.8 or more after cluster analysis of BOX-PCR fingerprinting patterns to define the same genotypes, we identified 85 unique fluorescent <italic>Pseudomonas</italic>
genotypes in our collection. There were no overlapping genotypes between sites as well as continental regions, indicating strict site endemism. The genetic distance between isolates as determined by degree of dissimilarity in BOX-PCR patterns was meaningfully correlated to the geographic distance between the isolates' sites of origin. Also, a significant positive spatial autocorrelation of the distribution of the genotypes was observed among distances of <197 km, and significant negative autocorrelation was observed between regions. Hence, strong endemicity of fluorescent <italic>Pseudomonas</italic>
genotypes was observed, suggesting that these heterotrophic soil bacteria are not globally mixed.</p>
</abstract>
</article-meta>
</front>
</pmc>
</record>
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