Prevalence of Deltaproteobacterial sequences in nifH gene pools associated with the rhizosphere of native switchgrass from Tall Grass Prairie (Oklahoma, USA)
The potential nitrogen-fixing bacterial diversity in the rhizospheric soil of the native switchgrass ( Panicum virgatum L.) from Tall Grass Prairies of Northern Oklahoma was studied using a partial region of nitrogenase structural gene— nifH . Eleven clone libraries constructed from nifH amplicons g...
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| creator | Bahulikar, Rahul A. |
| description | The potential nitrogen-fixing bacterial diversity in the rhizospheric soil of the native switchgrass (
Panicum virgatum
L.) from Tall Grass Prairies of Northern Oklahoma was studied using a partial region of nitrogenase structural gene—
nifH
. Eleven clone libraries constructed from
nifH
amplicons gave 407 good-quality sequences. More than 70% of sequences showed similarity of
nifH
with uncultured bacteria ( |
| doi_str_mv | 10.1007/s13205-023-03640-w |
| format | Article |
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Panicum virgatum
L.) from Tall Grass Prairies of Northern Oklahoma was studied using a partial region of nitrogenase structural gene—
nifH
. Eleven clone libraries constructed from
nifH
amplicons gave 407 good-quality sequences. More than 70% of sequences showed similarity of
nifH
with uncultured bacteria (< 98%). The dominance of sequences affiliated with Deltaproteobacterial
nifH
was observed, followed by Betaproteobacterial
nifH
sequences. The
nifH
gene library was dominated by the genera
Geobacter, Rhizobacter, Paenibacillus,
and
Azoarcus
. Sequences affiliated with rhizobia, such as
Bradyrhizobium
,
Methylocystis, Ensifer,
etc., were also in the rhizosphere in small numbers. From Deltaproteobacteria, five genera, namely
Geobacter
,
Pelobacter
,
Geomonas
,
Desulfovibrio
, and
Anaeromyxobacter,
contributed to 48% of the total sequences suggesting the dominance of group Deltaproteobacteria in the rhizosphere of native switchgrass. Considering the percent similarity of the
nifH
sequences with cultivated bacteria, this study demonstrated the presence of novel bacterial species in switchgrass rhizospheric soil from Tall Grass Prairie.</description><identifier>ISSN: 2190-572X</identifier><identifier>ISSN: 2190-5738</identifier><identifier>EISSN: 2190-5738</identifier><identifier>DOI: 10.1007/s13205-023-03640-w</identifier><identifier>PMID: 37251732</identifier><language>eng</language><publisher>Cham: Springer International Publishing</publisher><subject>Agriculture ; Anaeromyxobacter ; Azoarcus ; Bacteria ; Bioinformatics ; Biomaterials ; Biotechnology ; Bradyrhizobium ; Cancer Research ; Chemistry ; Chemistry and Materials Science ; Deltaproteobacteria ; Desulfovibrio ; DNA libraries ; Dominance ; Ensifer ; Gene sequencing ; genes ; Geobacter ; Grasses ; Methylocystis ; NifH gene ; Nitrogen fixation ; Nitrogenase ; Nitrogenation ; Oklahoma ; Original Article ; Paenibacillus ; Panicum virgatum ; Pelobacter ; Prairies ; Rhizobacter ; Rhizosphere ; Similarity ; soil ; Soils ; species ; Stem Cells ; tallgrass prairies</subject><ispartof>3 Biotech, 2023-06, Vol.13 (6), p.210-210, Article 210</ispartof><rights>King Abdulaziz City for Science and Technology 2023. Springer Nature or its licensor (e.g. a society or other partner) holds exclusive rights to this article under a publishing agreement with the author(s) or other rightsholder(s); author self-archiving of the accepted manuscript version of this article is solely governed by the terms of such publishing agreement and applicable law.</rights><rights>King Abdulaziz City for Science and Technology 2023, Springer Nature or its licensor (e.g. a society or other partner) holds exclusive rights to this article under a publishing agreement with the author(s) or other rightsholder(s); author self-archiving of the accepted manuscript version of this article is solely governed by the terms of such publishing agreement and applicable law.</rights><lds50>peer_reviewed</lds50><oa>free_for_read</oa><woscitedreferencessubscribed>false</woscitedreferencessubscribed><cites>FETCH-LOGICAL-c359t-804e83f706966e4301a2549ed8f3c96deb633ea1ab33edd5ea5d3f924ba04a433</cites><orcidid>0000-0002-0442-4607</orcidid></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><linktopdf>$$Uhttps://link.springer.com/content/pdf/10.1007/s13205-023-03640-w$$EPDF$$P50$$Gspringer$$H</linktopdf><linktohtml>$$Uhttps://link.springer.com/10.1007/s13205-023-03640-w$$EHTML$$P50$$Gspringer$$H</linktohtml><link.rule.ids>314,776,780,27901,27902,41464,42533,51294</link.rule.ids><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/37251732$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><creatorcontrib>Bahulikar, Rahul A.</creatorcontrib><title>Prevalence of Deltaproteobacterial sequences in nifH gene pools associated with the rhizosphere of native switchgrass from Tall Grass Prairie (Oklahoma, USA)</title><title>3 Biotech</title><addtitle>3 Biotech</addtitle><addtitle>3 Biotech</addtitle><description>The potential nitrogen-fixing bacterial diversity in the rhizospheric soil of the native switchgrass (
Panicum virgatum
L.) from Tall Grass Prairies of Northern Oklahoma was studied using a partial region of nitrogenase structural gene—
nifH
. Eleven clone libraries constructed from
nifH
amplicons gave 407 good-quality sequences. More than 70% of sequences showed similarity of
nifH
with uncultured bacteria (< 98%). The dominance of sequences affiliated with Deltaproteobacterial
nifH
was observed, followed by Betaproteobacterial
nifH
sequences. The
nifH
gene library was dominated by the genera
Geobacter, Rhizobacter, Paenibacillus,
and
Azoarcus
. Sequences affiliated with rhizobia, such as
Bradyrhizobium
,
Methylocystis, Ensifer,
etc., were also in the rhizosphere in small numbers. From Deltaproteobacteria, five genera, namely
Geobacter
,
Pelobacter
,
Geomonas
,
Desulfovibrio
, and
Anaeromyxobacter,
contributed to 48% of the total sequences suggesting the dominance of group Deltaproteobacteria in the rhizosphere of native switchgrass. Considering the percent similarity of the
nifH
sequences with cultivated bacteria, this study demonstrated the presence of novel bacterial species in switchgrass rhizospheric soil from Tall Grass Prairie.</description><subject>Agriculture</subject><subject>Anaeromyxobacter</subject><subject>Azoarcus</subject><subject>Bacteria</subject><subject>Bioinformatics</subject><subject>Biomaterials</subject><subject>Biotechnology</subject><subject>Bradyrhizobium</subject><subject>Cancer Research</subject><subject>Chemistry</subject><subject>Chemistry and Materials Science</subject><subject>Deltaproteobacteria</subject><subject>Desulfovibrio</subject><subject>DNA libraries</subject><subject>Dominance</subject><subject>Ensifer</subject><subject>Gene sequencing</subject><subject>genes</subject><subject>Geobacter</subject><subject>Grasses</subject><subject>Methylocystis</subject><subject>NifH gene</subject><subject>Nitrogen fixation</subject><subject>Nitrogenase</subject><subject>Nitrogenation</subject><subject>Oklahoma</subject><subject>Original Article</subject><subject>Paenibacillus</subject><subject>Panicum virgatum</subject><subject>Pelobacter</subject><subject>Prairies</subject><subject>Rhizobacter</subject><subject>Rhizosphere</subject><subject>Similarity</subject><subject>soil</subject><subject>Soils</subject><subject>species</subject><subject>Stem Cells</subject><subject>tallgrass prairies</subject><issn>2190-572X</issn><issn>2190-5738</issn><issn>2190-5738</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2023</creationdate><recordtype>article</recordtype><recordid>eNqFkd9qFDEUxoMotqx9AS8k4E2FjubPJJO5LK1thUILtuBdODNzZic1M1mT2S76Lr6r6W6t4IUGwjnh_L4vHD5CXnP2njNWfUhcCqYKJmTBpC5ZsXlG9gWvWaEqaZ4_9eLLHjlI6Y7lo7iqOXtJ9mQlFK-k2Cc_ryPeg8epRRp6eop-hlUMM4YG2hmjA08Tfls_AIm6iU6uv6BLnJCuQvCJQkqhdTBjRzduHug8II2D-xHSasC4NZ1gdvdIU563wzJmBe1jGOkNeE_Pt-_rCC46pIdXXz0MYYQjevv5-N0r8qIHn_DgsS7I7dnHm5OL4vLq_NPJ8WXRSlXPhWElGtlXTNdaYykZB6HKGjvTy7bWHTZaSgQOTS5dpxBUJ_talA2wEkopF-Rw55tXz7um2Y4uteg9TBjWyUqupK6MNv9HhRGsrpgyOqNv_0LvwjpOeZFMcWNKqfNdELGj2hhSitjbVXQjxO-WM_sQtd1FbXPUdhu13WTRm0frdTNi9yT5HWwG5A5IeTQtMf75-x-2vwAYE7XN</recordid><startdate>20230601</startdate><enddate>20230601</enddate><creator>Bahulikar, Rahul A.</creator><general>Springer International Publishing</general><general>Springer Nature B.V</general><scope>NPM</scope><scope>AAYXX</scope><scope>CITATION</scope><scope>7X8</scope><scope>7S9</scope><scope>L.6</scope><orcidid>https://orcid.org/0000-0002-0442-4607</orcidid></search><sort><creationdate>20230601</creationdate><title>Prevalence of Deltaproteobacterial sequences in nifH gene pools associated with the rhizosphere of native switchgrass from Tall Grass Prairie (Oklahoma, USA)</title><author>Bahulikar, Rahul A.</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c359t-804e83f706966e4301a2549ed8f3c96deb633ea1ab33edd5ea5d3f924ba04a433</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2023</creationdate><topic>Agriculture</topic><topic>Anaeromyxobacter</topic><topic>Azoarcus</topic><topic>Bacteria</topic><topic>Bioinformatics</topic><topic>Biomaterials</topic><topic>Biotechnology</topic><topic>Bradyrhizobium</topic><topic>Cancer Research</topic><topic>Chemistry</topic><topic>Chemistry and Materials Science</topic><topic>Deltaproteobacteria</topic><topic>Desulfovibrio</topic><topic>DNA libraries</topic><topic>Dominance</topic><topic>Ensifer</topic><topic>Gene sequencing</topic><topic>genes</topic><topic>Geobacter</topic><topic>Grasses</topic><topic>Methylocystis</topic><topic>NifH gene</topic><topic>Nitrogen fixation</topic><topic>Nitrogenase</topic><topic>Nitrogenation</topic><topic>Oklahoma</topic><topic>Original Article</topic><topic>Paenibacillus</topic><topic>Panicum virgatum</topic><topic>Pelobacter</topic><topic>Prairies</topic><topic>Rhizobacter</topic><topic>Rhizosphere</topic><topic>Similarity</topic><topic>soil</topic><topic>Soils</topic><topic>species</topic><topic>Stem Cells</topic><topic>tallgrass prairies</topic><toplevel>peer_reviewed</toplevel><toplevel>online_resources</toplevel><creatorcontrib>Bahulikar, Rahul A.</creatorcontrib><collection>PubMed</collection><collection>CrossRef</collection><collection>MEDLINE - Academic</collection><collection>AGRICOLA</collection><collection>AGRICOLA - Academic</collection><jtitle>3 Biotech</jtitle></facets><delivery><delcategory>Remote Search Resource</delcategory><fulltext>fulltext</fulltext></delivery><addata><au>Bahulikar, Rahul A.</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>Prevalence of Deltaproteobacterial sequences in nifH gene pools associated with the rhizosphere of native switchgrass from Tall Grass Prairie (Oklahoma, USA)</atitle><jtitle>3 Biotech</jtitle><stitle>3 Biotech</stitle><addtitle>3 Biotech</addtitle><date>2023-06-01</date><risdate>2023</risdate><volume>13</volume><issue>6</issue><spage>210</spage><epage>210</epage><pages>210-210</pages><artnum>210</artnum><issn>2190-572X</issn><issn>2190-5738</issn><eissn>2190-5738</eissn><abstract>The potential nitrogen-fixing bacterial diversity in the rhizospheric soil of the native switchgrass (
Panicum virgatum
L.) from Tall Grass Prairies of Northern Oklahoma was studied using a partial region of nitrogenase structural gene—
nifH
. Eleven clone libraries constructed from
nifH
amplicons gave 407 good-quality sequences. More than 70% of sequences showed similarity of
nifH
with uncultured bacteria (< 98%). The dominance of sequences affiliated with Deltaproteobacterial
nifH
was observed, followed by Betaproteobacterial
nifH
sequences. The
nifH
gene library was dominated by the genera
Geobacter, Rhizobacter, Paenibacillus,
and
Azoarcus
. Sequences affiliated with rhizobia, such as
Bradyrhizobium
,
Methylocystis, Ensifer,
etc., were also in the rhizosphere in small numbers. From Deltaproteobacteria, five genera, namely
Geobacter
,
Pelobacter
,
Geomonas
,
Desulfovibrio
, and
Anaeromyxobacter,
contributed to 48% of the total sequences suggesting the dominance of group Deltaproteobacteria in the rhizosphere of native switchgrass. Considering the percent similarity of the
nifH
sequences with cultivated bacteria, this study demonstrated the presence of novel bacterial species in switchgrass rhizospheric soil from Tall Grass Prairie.</abstract><cop>Cham</cop><pub>Springer International Publishing</pub><pmid>37251732</pmid><doi>10.1007/s13205-023-03640-w</doi><tpages>1</tpages><orcidid>https://orcid.org/0000-0002-0442-4607</orcidid><oa>free_for_read</oa></addata></record> |
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| subjects | Agriculture Anaeromyxobacter Azoarcus Bacteria Bioinformatics Biomaterials Biotechnology Bradyrhizobium Cancer Research Chemistry Chemistry and Materials Science Deltaproteobacteria Desulfovibrio DNA libraries Dominance Ensifer Gene sequencing genes Geobacter Grasses Methylocystis NifH gene Nitrogen fixation Nitrogenase Nitrogenation Oklahoma Original Article Paenibacillus Panicum virgatum Pelobacter Prairies Rhizobacter Rhizosphere Similarity soil Soils species Stem Cells tallgrass prairies |
| title | Prevalence of Deltaproteobacterial sequences in nifH gene pools associated with the rhizosphere of native switchgrass from Tall Grass Prairie (Oklahoma, USA) |
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