Isolation and molecular identification of endophytic diazotrophs from seeds and stems of three cereal crops
Ten strains of endophytic diazotroph were isolated and identified from the plants collected from three different agricultural crop species, wheat, rice and maize, using the nitrogen-free selective isolation conditions. The nitrogen-fixing ability of endophytic diazotroph was verified by the nifH-PCR...
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| creator | Liu, Huawei Zhang, Lei Meng, Aihua Zhang, Junbiao Xie, Miaomiao Qin, Yaohong Faulk, Dylan Chase Zhang, Baohong Yang, Shushen Qiu, Li |
| description | Ten strains of endophytic diazotroph were isolated and identified from the plants collected from three different agricultural crop species, wheat, rice and maize, using the nitrogen-free selective isolation conditions. The nitrogen-fixing ability of endophytic diazotroph was verified by the nifH-PCR assay that showed positive nitrogen fixation ability. These identified strains were classified by 879F-RAPD and 16S rRNA sequence analysis. RAPD analyses revealed that the 10 strains were clustered into seven 879F-RAPD groups, suggesting a clonal origin. 16S rRNA sequencing analyses allowed the assignment of the 10 strains to known groups of nitrogen-fixing bacteria, including organisms from the genera Paenibacillus, Enterobacter, Klebsiella and Pantoea. These representative genus are not endophytic diazotrophs in the conventional sense. They may have obtained nitrogen fixation ability through lateral gene transfer, however, the evolutionary forces of lateral gene transfer are not well known. Molecular identification results from 16S rRNA analyses were also confirmed by morphological and biochemical data. The test strains SH6A and MZB showed positive effect on the growth of plants. |
| doi_str_mv | 10.1371/journal.pone.0187383 |
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The nitrogen-fixing ability of endophytic diazotroph was verified by the nifH-PCR assay that showed positive nitrogen fixation ability. These identified strains were classified by 879F-RAPD and 16S rRNA sequence analysis. RAPD analyses revealed that the 10 strains were clustered into seven 879F-RAPD groups, suggesting a clonal origin. 16S rRNA sequencing analyses allowed the assignment of the 10 strains to known groups of nitrogen-fixing bacteria, including organisms from the genera Paenibacillus, Enterobacter, Klebsiella and Pantoea. These representative genus are not endophytic diazotrophs in the conventional sense. They may have obtained nitrogen fixation ability through lateral gene transfer, however, the evolutionary forces of lateral gene transfer are not well known. Molecular identification results from 16S rRNA analyses were also confirmed by morphological and biochemical data. The test strains SH6A and MZB showed positive effect on the growth of plants.</description><identifier>ISSN: 1932-6203</identifier><identifier>EISSN: 1932-6203</identifier><identifier>DOI: 10.1371/journal.pone.0187383</identifier><identifier>PMID: 29084254</identifier><language>eng</language><publisher>United States: Public Library of Science</publisher><subject>Bacteria ; Cereal crops ; Corn ; Crops ; Crops (Plants) ; Crops, Agricultural - microbiology ; Deoxyribonucleic acid ; DNA ; Edible Grain - microbiology ; Endophytes ; Endophytes - genetics ; Endophytes - isolation & purification ; Gene transfer ; Genera ; Genes ; Genes, Plant ; Genetic aspects ; Identification and classification ; Klebsiella ; Life sciences ; Maize ; Methods ; Mitochondrial DNA ; Molecular biology ; NifH gene ; Nitrogen ; Nitrogen fixation ; Nitrogen-fixing bacteria ; Nitrogen-fixing microorganisms ; Oryza ; Phylogenetics ; Phylogeny ; Physiological aspects ; Plant growth ; Plant Stems - microbiology ; Plants (botany) ; Polymerase chain reaction ; Pyruvic acid ; Random amplified polymorphic DNA ; Random Amplified Polymorphic DNA Technique ; Rice ; RNA, Ribosomal, 16S - genetics ; rRNA 16S ; Seeds ; Seeds - microbiology ; Strains (organisms) ; Veterinary colleges ; Veterinary medicine ; Wheat</subject><ispartof>PloS one, 2017-10, Vol.12 (10), p.e0187383-e0187383</ispartof><rights>COPYRIGHT 2017 Public Library of Science</rights><rights>2017 Liu et al. This is an open access article distributed under the terms of the Creative Commons Attribution License: http://creativecommons.org/licenses/by/4.0/ (the “License”), which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited. Notwithstanding the ProQuest Terms and Conditions, you may use this content in accordance with the terms of the License.</rights><rights>2017 Liu et al 2017 Liu et al</rights><lds50>peer_reviewed</lds50><oa>free_for_read</oa><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c743t-2403f5f682a21524aad14691ceb4978b7344426411613f65aafeea74def12d473</citedby><cites>FETCH-LOGICAL-c743t-2403f5f682a21524aad14691ceb4978b7344426411613f65aafeea74def12d473</cites><orcidid>0000-0002-9308-4340</orcidid></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><linktopdf>$$Uhttps://www.ncbi.nlm.nih.gov/pmc/articles/PMC5662235/pdf/$$EPDF$$P50$$Gpubmedcentral$$Hfree_for_read</linktopdf><linktohtml>$$Uhttps://www.ncbi.nlm.nih.gov/pmc/articles/PMC5662235/$$EHTML$$P50$$Gpubmedcentral$$Hfree_for_read</linktohtml><link.rule.ids>230,314,723,776,780,860,881,2096,2915,23845,27901,27902,53766,53768,79342,79343</link.rule.ids><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/29084254$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><creatorcontrib>Liu, Huawei</creatorcontrib><creatorcontrib>Zhang, Lei</creatorcontrib><creatorcontrib>Meng, Aihua</creatorcontrib><creatorcontrib>Zhang, Junbiao</creatorcontrib><creatorcontrib>Xie, Miaomiao</creatorcontrib><creatorcontrib>Qin, Yaohong</creatorcontrib><creatorcontrib>Faulk, Dylan Chase</creatorcontrib><creatorcontrib>Zhang, Baohong</creatorcontrib><creatorcontrib>Yang, Shushen</creatorcontrib><creatorcontrib>Qiu, Li</creatorcontrib><title>Isolation and molecular identification of endophytic diazotrophs from seeds and stems of three cereal crops</title><title>PloS one</title><addtitle>PLoS One</addtitle><description>Ten strains of endophytic diazotroph were isolated and identified from the plants collected from three different agricultural crop species, wheat, rice and maize, using the nitrogen-free selective isolation conditions. The nitrogen-fixing ability of endophytic diazotroph was verified by the nifH-PCR assay that showed positive nitrogen fixation ability. These identified strains were classified by 879F-RAPD and 16S rRNA sequence analysis. RAPD analyses revealed that the 10 strains were clustered into seven 879F-RAPD groups, suggesting a clonal origin. 16S rRNA sequencing analyses allowed the assignment of the 10 strains to known groups of nitrogen-fixing bacteria, including organisms from the genera Paenibacillus, Enterobacter, Klebsiella and Pantoea. These representative genus are not endophytic diazotrophs in the conventional sense. They may have obtained nitrogen fixation ability through lateral gene transfer, however, the evolutionary forces of lateral gene transfer are not well known. Molecular identification results from 16S rRNA analyses were also confirmed by morphological and biochemical data. The test strains SH6A and MZB showed positive effect on the growth of plants.</description><subject>Bacteria</subject><subject>Cereal crops</subject><subject>Corn</subject><subject>Crops</subject><subject>Crops (Plants)</subject><subject>Crops, Agricultural - microbiology</subject><subject>Deoxyribonucleic acid</subject><subject>DNA</subject><subject>Edible Grain - microbiology</subject><subject>Endophytes</subject><subject>Endophytes - genetics</subject><subject>Endophytes - isolation & purification</subject><subject>Gene transfer</subject><subject>Genera</subject><subject>Genes</subject><subject>Genes, Plant</subject><subject>Genetic aspects</subject><subject>Identification and classification</subject><subject>Klebsiella</subject><subject>Life sciences</subject><subject>Maize</subject><subject>Methods</subject><subject>Mitochondrial DNA</subject><subject>Molecular biology</subject><subject>NifH gene</subject><subject>Nitrogen</subject><subject>Nitrogen fixation</subject><subject>Nitrogen-fixing bacteria</subject><subject>Nitrogen-fixing microorganisms</subject><subject>Oryza</subject><subject>Phylogenetics</subject><subject>Phylogeny</subject><subject>Physiological aspects</subject><subject>Plant growth</subject><subject>Plant Stems - microbiology</subject><subject>Plants (botany)</subject><subject>Polymerase chain reaction</subject><subject>Pyruvic acid</subject><subject>Random amplified polymorphic DNA</subject><subject>Random Amplified Polymorphic DNA Technique</subject><subject>Rice</subject><subject>RNA, Ribosomal, 16S - genetics</subject><subject>rRNA 16S</subject><subject>Seeds</subject><subject>Seeds - microbiology</subject><subject>Strains (organisms)</subject><subject>Veterinary colleges</subject><subject>Veterinary medicine</subject><subject>Wheat</subject><issn>1932-6203</issn><issn>1932-6203</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2017</creationdate><recordtype>article</recordtype><sourceid>EIF</sourceid><sourceid>BENPR</sourceid><sourceid>DOA</sourceid><recordid>eNqNk11v0zAUhiMEYmPwDxBEQkJw0eJvJzdI08RHpUmT-Lq1XPu4dUnizk4Q49fjtN3UoF2gXDixn_PG55z3FMVzjOaYSvxuE4bY6Wa-DR3MEa4kreiD4hTXlMwEQfTh0ftJ8SSlDUKcVkI8Lk5IjSpGODstfi5SaHTvQ1fqzpZtaMAMjY6lt9D13nmzPwyuhM6G7fqm96a0Xv8JfcyfqXQxtGUCsGmnkHpo04j36whQGoigm9JkNj0tHjndJHh2WM-K7x8_fLv4PLu8-rS4OL-cGcloPyMMUcedqIgmmBOmtcVM1NjAktWyWkrKGCOCYSwwdYJr7QC0ZBYcJpZJela83Otum5DUoU5J4ZpLyamscSYWe8IGvVHb6Fsdb1TQXu02QlwpHXOiDShikMFsqWsBmIGlFeOc14QIVBsLxmWt94e_DcsWrMlli7qZiE5POr9Wq_BLcSEIoTwLvDkIxHA9QOpV65OBptEdhGF372psnBQZffUPen92B2qlcwK-c7lV2oyi6pxjQpHENcrU_B4qPxZab7KpnM_7k4C3k4DM9PC7X-khJbX4-uX_2asfU_b1EbvOdunX2ZTD6Ls0BdkezG5KKYK7KzJGapyJ22qocSbUYSZy2IvjBt0F3Q4B_QuJoAcS</recordid><startdate>20171030</startdate><enddate>20171030</enddate><creator>Liu, Huawei</creator><creator>Zhang, Lei</creator><creator>Meng, Aihua</creator><creator>Zhang, Junbiao</creator><creator>Xie, Miaomiao</creator><creator>Qin, Yaohong</creator><creator>Faulk, Dylan Chase</creator><creator>Zhang, Baohong</creator><creator>Yang, Shushen</creator><creator>Qiu, Li</creator><general>Public Library of Science</general><general>Public Library of Science (PLoS)</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>IOV</scope><scope>ISR</scope><scope>3V.</scope><scope>7QG</scope><scope>7QL</scope><scope>7QO</scope><scope>7RV</scope><scope>7SN</scope><scope>7SS</scope><scope>7T5</scope><scope>7TG</scope><scope>7TM</scope><scope>7U9</scope><scope>7X2</scope><scope>7X7</scope><scope>7XB</scope><scope>88E</scope><scope>8AO</scope><scope>8C1</scope><scope>8FD</scope><scope>8FE</scope><scope>8FG</scope><scope>8FH</scope><scope>8FI</scope><scope>8FJ</scope><scope>8FK</scope><scope>ABJCF</scope><scope>ABUWG</scope><scope>AEUYN</scope><scope>AFKRA</scope><scope>ARAPS</scope><scope>ATCPS</scope><scope>AZQEC</scope><scope>BBNVY</scope><scope>BENPR</scope><scope>BGLVJ</scope><scope>BHPHI</scope><scope>C1K</scope><scope>CCPQU</scope><scope>D1I</scope><scope>DWQXO</scope><scope>FR3</scope><scope>FYUFA</scope><scope>GHDGH</scope><scope>GNUQQ</scope><scope>H94</scope><scope>HCIFZ</scope><scope>K9.</scope><scope>KB.</scope><scope>KB0</scope><scope>KL.</scope><scope>L6V</scope><scope>LK8</scope><scope>M0K</scope><scope>M0S</scope><scope>M1P</scope><scope>M7N</scope><scope>M7P</scope><scope>M7S</scope><scope>NAPCQ</scope><scope>P5Z</scope><scope>P62</scope><scope>P64</scope><scope>PATMY</scope><scope>PDBOC</scope><scope>PIMPY</scope><scope>PQEST</scope><scope>PQQKQ</scope><scope>PQUKI</scope><scope>PRINS</scope><scope>PTHSS</scope><scope>PYCSY</scope><scope>RC3</scope><scope>7X8</scope><scope>5PM</scope><scope>DOA</scope><orcidid>https://orcid.org/0000-0002-9308-4340</orcidid></search><sort><creationdate>20171030</creationdate><title>Isolation and molecular identification of endophytic diazotrophs from seeds and stems of three cereal crops</title><author>Liu, Huawei ; Zhang, Lei ; Meng, Aihua ; Zhang, Junbiao ; Xie, Miaomiao ; Qin, Yaohong ; Faulk, Dylan Chase ; Zhang, Baohong ; Yang, Shushen ; Qiu, Li</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c743t-2403f5f682a21524aad14691ceb4978b7344426411613f65aafeea74def12d473</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2017</creationdate><topic>Bacteria</topic><topic>Cereal crops</topic><topic>Corn</topic><topic>Crops</topic><topic>Crops (Plants)</topic><topic>Crops, Agricultural - microbiology</topic><topic>Deoxyribonucleic acid</topic><topic>DNA</topic><topic>Edible Grain - microbiology</topic><topic>Endophytes</topic><topic>Endophytes - genetics</topic><topic>Endophytes - isolation & purification</topic><topic>Gene transfer</topic><topic>Genera</topic><topic>Genes</topic><topic>Genes, Plant</topic><topic>Genetic aspects</topic><topic>Identification and classification</topic><topic>Klebsiella</topic><topic>Life sciences</topic><topic>Maize</topic><topic>Methods</topic><topic>Mitochondrial DNA</topic><topic>Molecular biology</topic><topic>NifH gene</topic><topic>Nitrogen</topic><topic>Nitrogen fixation</topic><topic>Nitrogen-fixing bacteria</topic><topic>Nitrogen-fixing microorganisms</topic><topic>Oryza</topic><topic>Phylogenetics</topic><topic>Phylogeny</topic><topic>Physiological aspects</topic><topic>Plant growth</topic><topic>Plant Stems - microbiology</topic><topic>Plants (botany)</topic><topic>Polymerase chain reaction</topic><topic>Pyruvic acid</topic><topic>Random amplified polymorphic DNA</topic><topic>Random Amplified Polymorphic DNA Technique</topic><topic>Rice</topic><topic>RNA, Ribosomal, 16S - 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The nitrogen-fixing ability of endophytic diazotroph was verified by the nifH-PCR assay that showed positive nitrogen fixation ability. These identified strains were classified by 879F-RAPD and 16S rRNA sequence analysis. RAPD analyses revealed that the 10 strains were clustered into seven 879F-RAPD groups, suggesting a clonal origin. 16S rRNA sequencing analyses allowed the assignment of the 10 strains to known groups of nitrogen-fixing bacteria, including organisms from the genera Paenibacillus, Enterobacter, Klebsiella and Pantoea. These representative genus are not endophytic diazotrophs in the conventional sense. They may have obtained nitrogen fixation ability through lateral gene transfer, however, the evolutionary forces of lateral gene transfer are not well known. Molecular identification results from 16S rRNA analyses were also confirmed by morphological and biochemical data. The test strains SH6A and MZB showed positive effect on the growth of plants.</abstract><cop>United States</cop><pub>Public Library of Science</pub><pmid>29084254</pmid><doi>10.1371/journal.pone.0187383</doi><tpages>e0187383</tpages><orcidid>https://orcid.org/0000-0002-9308-4340</orcidid><oa>free_for_read</oa></addata></record> |
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| subjects | Bacteria Cereal crops Corn Crops Crops (Plants) Crops, Agricultural - microbiology Deoxyribonucleic acid DNA Edible Grain - microbiology Endophytes Endophytes - genetics Endophytes - isolation & purification Gene transfer Genera Genes Genes, Plant Genetic aspects Identification and classification Klebsiella Life sciences Maize Methods Mitochondrial DNA Molecular biology NifH gene Nitrogen Nitrogen fixation Nitrogen-fixing bacteria Nitrogen-fixing microorganisms Oryza Phylogenetics Phylogeny Physiological aspects Plant growth Plant Stems - microbiology Plants (botany) Polymerase chain reaction Pyruvic acid Random amplified polymorphic DNA Random Amplified Polymorphic DNA Technique Rice RNA, Ribosomal, 16S - genetics rRNA 16S Seeds Seeds - microbiology Strains (organisms) Veterinary colleges Veterinary medicine Wheat |
| title | Isolation and molecular identification of endophytic diazotrophs from seeds and stems of three cereal crops |
| url | https://sfx.bib-bvb.de/sfx_tum?ctx_ver=Z39.88-2004&ctx_enc=info:ofi/enc:UTF-8&ctx_tim=2025-02-04T15%3A43%3A47IST&url_ver=Z39.88-2004&url_ctx_fmt=infofi/fmt:kev:mtx:ctx&rfr_id=info:sid/primo.exlibrisgroup.com:primo3-Article-gale_plos_&rft_val_fmt=info:ofi/fmt:kev:mtx:journal&rft.genre=article&rft.atitle=Isolation%20and%20molecular%20identification%20of%20endophytic%20diazotrophs%20from%20seeds%20and%20stems%20of%20three%20cereal%20crops&rft.jtitle=PloS%20one&rft.au=Liu,%20Huawei&rft.date=2017-10-30&rft.volume=12&rft.issue=10&rft.spage=e0187383&rft.epage=e0187383&rft.pages=e0187383-e0187383&rft.issn=1932-6203&rft.eissn=1932-6203&rft_id=info:doi/10.1371/journal.pone.0187383&rft_dat=%3Cgale_plos_%3EA512307190%3C/gale_plos_%3E%3Curl%3E%3C/url%3E&disable_directlink=true&sfx.directlink=off&sfx.report_link=0&rft_id=info:oai/&rft_pqid=1957753791&rft_id=info:pmid/29084254&rft_galeid=A512307190&rft_doaj_id=oai_doaj_org_article_2c0c14ba96e14ed384555922609cdecf&rfr_iscdi=true |