Mathematical Ecology Analysis of Geographical Distribution of Soybean-Nodulating Bradyrhizobia in Japan
We characterized the relationship between the genetic diversity of indigenous soybean-nodulating bradyrhizobia from weakly acidic soils in Japan and their geographical distribution in an ecological study of indigenous soybean rhizobia. We isolated bradyrhizobia from three kinds of Rj-genotype soybea...
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| Veröffentlicht in: | Microbes and Environments 2013, Vol.28(4), pp.470-478 |
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| creator | Saeki, Yuichi Shiro, Sokichi Tajima, Toshiyuki Yamamoto, Akihiro Sameshima-Saito, Reiko Sato, Takashi Yamakawa, Takeo |
| description | We characterized the relationship between the genetic diversity of indigenous soybean-nodulating bradyrhizobia from weakly acidic soils in Japan and their geographical distribution in an ecological study of indigenous soybean rhizobia. We isolated bradyrhizobia from three kinds of Rj-genotype soybeans. Their genetic diversity and community structure were analyzed by PCR-RFLP analysis of the 16S–23S rRNA gene internal transcribed spacer (ITS) region with 11 Bradyrhizobium USDA strains as references. We used data from the present study and previous studies to carry out mathematical ecological analyses, multidimensional scaling analysis with the Bray-Curtis index, polar ordination analysis, and multiple regression analyses to characterize the relationship between soybean-nodulating bradyrhizobial community structures and their geographical distribution. The mathematical ecological approaches used in this study demonstrated the presence of ecological niches and suggested the geographical distribution of soybean-nodulating bradyrhizobia to be a function of latitude and the related climate, with clusters in the order Bj123, Bj110, Bj6, and Be76 from north to south in Japan. |
| doi_str_mv | 10.1264/jsme2.ME13079 |
| format | Article |
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We isolated bradyrhizobia from three kinds of Rj-genotype soybeans. Their genetic diversity and community structure were analyzed by PCR-RFLP analysis of the 16S–23S rRNA gene internal transcribed spacer (ITS) region with 11 Bradyrhizobium USDA strains as references. We used data from the present study and previous studies to carry out mathematical ecological analyses, multidimensional scaling analysis with the Bray-Curtis index, polar ordination analysis, and multiple regression analyses to characterize the relationship between soybean-nodulating bradyrhizobial community structures and their geographical distribution. The mathematical ecological approaches used in this study demonstrated the presence of ecological niches and suggested the geographical distribution of soybean-nodulating bradyrhizobia to be a function of latitude and the related climate, with clusters in the order Bj123, Bj110, Bj6, and Be76 from north to south in Japan.</description><identifier>ISSN: 1342-6311</identifier><identifier>EISSN: 1347-4405</identifier><identifier>DOI: 10.1264/jsme2.ME13079</identifier><identifier>PMID: 24240318</identifier><language>eng</language><publisher>Japan: Japanese Society of Microbial Ecology / Japanese Society of Soil Microbiology / Taiwan Society of Microbial Ecology / Japanese Society of Plant Microbe Interactions / Japanese Society for Extremophiles</publisher><subject>Bradyrhizobium ; Bradyrhizobium - chemistry ; Bradyrhizobium - classification ; Bradyrhizobium - genetics ; Bradyrhizobium - isolation & purification ; community structure ; Ecology ; Glycine max - microbiology ; Japan ; latitude ; Models, Theoretical ; niche ; Phylogeny ; Rj-genotype soybean ; Root Nodules, Plant - microbiology ; Soil Microbiology</subject><ispartof>Microbes and Environments, 2013, Vol.28(4), pp.470-478</ispartof><rights>2013 Japanese Society of Microbial Ecology / Japanese Society of Soil Microbiology / Taiwan Society of Microbial Ecology</rights><rights>Copyright Japan Science and Technology Agency 2013</rights><rights>Copyright © 2013 by the Japanese Society of Microbial Ecology / the Japanese Society of Soil Microbiology 2013</rights><oa>free_for_read</oa><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c592t-2cd8045b4adef896fbd15ed29c197cb63186b18572425bc9a1c1081e05fb043a3</citedby><cites>FETCH-LOGICAL-c592t-2cd8045b4adef896fbd15ed29c197cb63186b18572425bc9a1c1081e05fb043a3</cites></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><linktopdf>$$Uhttps://www.ncbi.nlm.nih.gov/pmc/articles/PMC4070701/pdf/$$EPDF$$P50$$Gpubmedcentral$$Hfree_for_read</linktopdf><linktohtml>$$Uhttps://www.ncbi.nlm.nih.gov/pmc/articles/PMC4070701/$$EHTML$$P50$$Gpubmedcentral$$Hfree_for_read</linktohtml><link.rule.ids>230,314,724,777,781,882,1877,4010,27904,27905,27906,53772,53774</link.rule.ids><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/24240318$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><creatorcontrib>Saeki, Yuichi</creatorcontrib><creatorcontrib>Shiro, Sokichi</creatorcontrib><creatorcontrib>Tajima, Toshiyuki</creatorcontrib><creatorcontrib>Yamamoto, Akihiro</creatorcontrib><creatorcontrib>Sameshima-Saito, Reiko</creatorcontrib><creatorcontrib>Sato, Takashi</creatorcontrib><creatorcontrib>Yamakawa, Takeo</creatorcontrib><title>Mathematical Ecology Analysis of Geographical Distribution of Soybean-Nodulating Bradyrhizobia in Japan</title><title>Microbes and Environments</title><addtitle>Microbes Environ.</addtitle><description>We characterized the relationship between the genetic diversity of indigenous soybean-nodulating bradyrhizobia from weakly acidic soils in Japan and their geographical distribution in an ecological study of indigenous soybean rhizobia. We isolated bradyrhizobia from three kinds of Rj-genotype soybeans. Their genetic diversity and community structure were analyzed by PCR-RFLP analysis of the 16S–23S rRNA gene internal transcribed spacer (ITS) region with 11 Bradyrhizobium USDA strains as references. We used data from the present study and previous studies to carry out mathematical ecological analyses, multidimensional scaling analysis with the Bray-Curtis index, polar ordination analysis, and multiple regression analyses to characterize the relationship between soybean-nodulating bradyrhizobial community structures and their geographical distribution. The mathematical ecological approaches used in this study demonstrated the presence of ecological niches and suggested the geographical distribution of soybean-nodulating bradyrhizobia to be a function of latitude and the related climate, with clusters in the order Bj123, Bj110, Bj6, and Be76 from north to south in Japan.</description><subject>Bradyrhizobium</subject><subject>Bradyrhizobium - chemistry</subject><subject>Bradyrhizobium - classification</subject><subject>Bradyrhizobium - genetics</subject><subject>Bradyrhizobium - isolation & purification</subject><subject>community structure</subject><subject>Ecology</subject><subject>Glycine max - microbiology</subject><subject>Japan</subject><subject>latitude</subject><subject>Models, Theoretical</subject><subject>niche</subject><subject>Phylogeny</subject><subject>Rj-genotype soybean</subject><subject>Root Nodules, Plant - microbiology</subject><subject>Soil Microbiology</subject><issn>1342-6311</issn><issn>1347-4405</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2013</creationdate><recordtype>article</recordtype><sourceid>EIF</sourceid><recordid>eNpVkU1v1DAQhi1ERT_gyBVF4pzisZ2vC1JZlpaqLQfgbI0dJ_EqGy92ghR-Pd7dsKKyZFuaR894_BLyFug1sFx82IStYdePa-C0qF6QC-CiSIWg2cvDnaU5BzgnlyFsKOU8K9grcs4EE5RDeUHaRxw7s8XRauyTtXa9a-fkZsB-DjYkrklujWs97roD8NmG0Vs1jdYN--J3NyuDQ_rk6qmPkqFNPnmsZ9_ZP05ZTOyQ3OMOh9fkrME-mDfLeUV-fln_WN2lD99uv65uHlKdVWxMma5LKjIlsDZNWeWNqiEzNas0VIVWcZYyV1DGKQTLlK4QNNASDM0aRQVHfkU-Hr27SW1Nrc0weuzlztst-lk6tPJ5ZbCdbN1vKWgRF0TB-0Xg3a_JhFFu3OTjfwQJoigp5JCJSKVHSnsXgjfNqQNQuc9FHnKRSy6Rf_f_s070vyAisDoCmzBia04A-phMbxYdK6XYb4v2VNUdemkG_hfzbaPL</recordid><startdate>2013</startdate><enddate>2013</enddate><creator>Saeki, Yuichi</creator><creator>Shiro, Sokichi</creator><creator>Tajima, Toshiyuki</creator><creator>Yamamoto, Akihiro</creator><creator>Sameshima-Saito, Reiko</creator><creator>Sato, Takashi</creator><creator>Yamakawa, Takeo</creator><general>Japanese Society of Microbial Ecology / Japanese Society of Soil Microbiology / Taiwan Society of Microbial Ecology / Japanese Society of Plant Microbe Interactions / Japanese Society for Extremophiles</general><general>Japan Science and Technology Agency</general><general>Japanese Society of Microbial Ecology/The Japanese Society of Soil Microbiology</general><scope>CGR</scope><scope>CUY</scope><scope>CVF</scope><scope>ECM</scope><scope>EIF</scope><scope>NPM</scope><scope>AAYXX</scope><scope>CITATION</scope><scope>7QL</scope><scope>C1K</scope><scope>F1W</scope><scope>H95</scope><scope>L.G</scope><scope>M7N</scope><scope>5PM</scope></search><sort><creationdate>2013</creationdate><title>Mathematical Ecology Analysis of Geographical Distribution of Soybean-Nodulating Bradyrhizobia in Japan</title><author>Saeki, Yuichi ; 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We isolated bradyrhizobia from three kinds of Rj-genotype soybeans. Their genetic diversity and community structure were analyzed by PCR-RFLP analysis of the 16S–23S rRNA gene internal transcribed spacer (ITS) region with 11 Bradyrhizobium USDA strains as references. We used data from the present study and previous studies to carry out mathematical ecological analyses, multidimensional scaling analysis with the Bray-Curtis index, polar ordination analysis, and multiple regression analyses to characterize the relationship between soybean-nodulating bradyrhizobial community structures and their geographical distribution. 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| subjects | Bradyrhizobium Bradyrhizobium - chemistry Bradyrhizobium - classification Bradyrhizobium - genetics Bradyrhizobium - isolation & purification community structure Ecology Glycine max - microbiology Japan latitude Models, Theoretical niche Phylogeny Rj-genotype soybean Root Nodules, Plant - microbiology Soil Microbiology |
| title | Mathematical Ecology Analysis of Geographical Distribution of Soybean-Nodulating Bradyrhizobia in Japan |
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