Bradyrhizobium forestalis sp. nov., an efficient nitrogen-fixing bacterium isolated from nodules of forest legume species in the Amazon
Three strains of nitrogen-fixing bacteria isolated from nodules of Inga sp. (INPA54B T ) and Swartzia sp. (INPA86A and INPA01-91A) in soils under native forest in the Brazilian Amazon were previously identified as belonging to the Bradyrhizobium genus. In this study, these strains were characterized...
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| Veröffentlicht in: | Archives of microbiology 2018-07, Vol.200 (5), p.743-752 |
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| creator | Martins da Costa, Elaine Azarias Guimarães, Amanda Soares de Carvalho, Teotonio Louzada Rodrigues, Tainara de Almeida Ribeiro, Paula Rose Lebbe, Liesbeth Willems, Anne de Souza Moreira, Fatima M. |
| description | Three strains of nitrogen-fixing bacteria isolated from nodules of
Inga
sp. (INPA54B
T
) and
Swartzia
sp. (INPA86A and INPA01-91A) in soils under native forest in the Brazilian Amazon were previously identified as belonging to the
Bradyrhizobium
genus. In this study, these strains were characterized using a polyphasic approach to establish their taxonomic position. The three strains shared more than 99.5% sequence similarity of the 16S rRNA gene with the type strains of five
Bradyrhizobium
species (
B. japonicum
USDA 6
T
,
B. liaoningense
LMG 18230
T
,
B. ottawaense
OO99
T
,
B. subterraneum
58 2-1
T
and
B. yuanmingense
LMG 21827
T
). However, multilocus sequence analysis of two (
recA
and
glnII
) or three (
atpD, gyrB
, and
recA
) housekeeping genes indicated that these three strains represent a new
Bradyrhizobium
species, which is closely related to
B. subterraneum
58 2-1
T
and
B. yuanmingense
LMG 21827
T
. DNA–DNA hybridization values between INPA54B
T
and
B. subterraneum
58 2-1
T
and
B. yuanmingense
LMG 21827
T
were only 41.5 and 30.9%, respectively. Phenotypic characterization also allowed the differentiation of the novel species from
B. subterraneum
58 2-1
T
and
B. yuanmingense
LMG 21827
T
. In the phylogenetic analysis of the
nodC
and
nifH
genes, the three strains showed similar sequences that were divergent from those of type strains of all
Bradyrhizobium
species. We concluded that these strains represent a novel species, for which the name
Bradyrhizobium forestalis
is proposed, with INPA54B
T
(= LMG 10044
T
) as type strain. The G+C content in the DNA of INPA54B
T
is 63.7 mol%. |
| doi_str_mv | 10.1007/s00203-018-1486-2 |
| format | Article |
| fullrecord | <record><control><sourceid>proquest_cross</sourceid><recordid>TN_cdi_proquest_miscellaneous_1993998384</recordid><sourceformat>XML</sourceformat><sourcesystem>PC</sourcesystem><sourcerecordid>1993656534</sourcerecordid><originalsourceid>FETCH-LOGICAL-c372t-953fd139791798eb42e56272fc867be5b2796c16e5da20982e321fd10d5be56d3</originalsourceid><addsrcrecordid>eNp1kc1u1DAURi1ERYfCA7BBltiwwIN9PXHsZan4kyp1UyR2lpNcT10l9mAniPYFeG08zIBQJVZe3PMdX92PkBeCrwXn7dvCOXDJuNBMbLRi8IisxEYC4y18fUxWXHJg2kh5Sp6Wcsu5AK31E3IKRhqlhF6Rn--yG-7yTbhPXVgm6lPGMrsxFFp2axrT9_Ub6iJF70MfMM40hjmnLUbmw48Qt7Rz_Yx5nw0ljW7GgfqcphodlhELTf4opSNulwmrF6up0BDpfIP0fHL3KT4jJ96NBZ8f3zPy5cP764tP7PLq4-eL80vWyxZmZhrpByFNa0RrNHYbwEZBC77Xqu2w6aA1qhcKm8EBNxpQgqgJPjR1qgZ5Rl4fvLucvi11KzuF0uM4uohpKVaYehqjpd5U9NUD9DYtOdbtflOqUY3cU-JA9TmVktHbXQ6Ty3dWcLtvyR5asrUlu2_JQs28PJqXbsLhb-JPLRWAA1DqKG4x__P1f62_AG0Lnhs</addsrcrecordid><sourcetype>Aggregation Database</sourcetype><iscdi>true</iscdi><recordtype>article</recordtype><pqid>1993656534</pqid></control><display><type>article</type><title>Bradyrhizobium forestalis sp. nov., an efficient nitrogen-fixing bacterium isolated from nodules of forest legume species in the Amazon</title><source>SpringerLink Journals - AutoHoldings</source><creator>Martins da Costa, Elaine ; Azarias Guimarães, Amanda ; Soares de Carvalho, Teotonio ; Louzada Rodrigues, Tainara ; de Almeida Ribeiro, Paula Rose ; Lebbe, Liesbeth ; Willems, Anne ; de Souza Moreira, Fatima M.</creator><creatorcontrib>Martins da Costa, Elaine ; Azarias Guimarães, Amanda ; Soares de Carvalho, Teotonio ; Louzada Rodrigues, Tainara ; de Almeida Ribeiro, Paula Rose ; Lebbe, Liesbeth ; Willems, Anne ; de Souza Moreira, Fatima M.</creatorcontrib><description>Three strains of nitrogen-fixing bacteria isolated from nodules of
Inga
sp. (INPA54B
T
) and
Swartzia
sp. (INPA86A and INPA01-91A) in soils under native forest in the Brazilian Amazon were previously identified as belonging to the
Bradyrhizobium
genus. In this study, these strains were characterized using a polyphasic approach to establish their taxonomic position. The three strains shared more than 99.5% sequence similarity of the 16S rRNA gene with the type strains of five
Bradyrhizobium
species (
B. japonicum
USDA 6
T
,
B. liaoningense
LMG 18230
T
,
B. ottawaense
OO99
T
,
B. subterraneum
58 2-1
T
and
B. yuanmingense
LMG 21827
T
). However, multilocus sequence analysis of two (
recA
and
glnII
) or three (
atpD, gyrB
, and
recA
) housekeeping genes indicated that these three strains represent a new
Bradyrhizobium
species, which is closely related to
B. subterraneum
58 2-1
T
and
B. yuanmingense
LMG 21827
T
. DNA–DNA hybridization values between INPA54B
T
and
B. subterraneum
58 2-1
T
and
B. yuanmingense
LMG 21827
T
were only 41.5 and 30.9%, respectively. Phenotypic characterization also allowed the differentiation of the novel species from
B. subterraneum
58 2-1
T
and
B. yuanmingense
LMG 21827
T
. In the phylogenetic analysis of the
nodC
and
nifH
genes, the three strains showed similar sequences that were divergent from those of type strains of all
Bradyrhizobium
species. We concluded that these strains represent a novel species, for which the name
Bradyrhizobium forestalis
is proposed, with INPA54B
T
(= LMG 10044
T
) as type strain. The G+C content in the DNA of INPA54B
T
is 63.7 mol%.</description><identifier>ISSN: 0302-8933</identifier><identifier>EISSN: 1432-072X</identifier><identifier>DOI: 10.1007/s00203-018-1486-2</identifier><identifier>PMID: 29396618</identifier><language>eng</language><publisher>Berlin/Heidelberg: Springer Berlin Heidelberg</publisher><subject>Bacteria ; Biochemistry ; Biomedical and Life Sciences ; Biotechnology ; Bradyrhizobium ; Cell Biology ; Deoxyribonucleic acid ; DNA ; DNA topoisomerase ; Ecology ; Forests ; Gene sequencing ; Genes ; Hybridization ; Life Sciences ; Microbial Ecology ; Microbiology ; New species ; NifH gene ; Nitrogen fixation ; Nitrogen-fixing bacteria ; Nodules ; Original Paper ; Phylogeny ; RecA protein ; rRNA 16S ; Strains (organisms)</subject><ispartof>Archives of microbiology, 2018-07, Vol.200 (5), p.743-752</ispartof><rights>Springer-Verlag GmbH Germany, part of Springer Nature 2018</rights><rights>Archives of Microbiology is a copyright of Springer, (2018). All Rights Reserved.</rights><lds50>peer_reviewed</lds50><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c372t-953fd139791798eb42e56272fc867be5b2796c16e5da20982e321fd10d5be56d3</citedby><cites>FETCH-LOGICAL-c372t-953fd139791798eb42e56272fc867be5b2796c16e5da20982e321fd10d5be56d3</cites></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><linktopdf>$$Uhttps://link.springer.com/content/pdf/10.1007/s00203-018-1486-2$$EPDF$$P50$$Gspringer$$H</linktopdf><linktohtml>$$Uhttps://link.springer.com/10.1007/s00203-018-1486-2$$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/29396618$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><creatorcontrib>Martins da Costa, Elaine</creatorcontrib><creatorcontrib>Azarias Guimarães, Amanda</creatorcontrib><creatorcontrib>Soares de Carvalho, Teotonio</creatorcontrib><creatorcontrib>Louzada Rodrigues, Tainara</creatorcontrib><creatorcontrib>de Almeida Ribeiro, Paula Rose</creatorcontrib><creatorcontrib>Lebbe, Liesbeth</creatorcontrib><creatorcontrib>Willems, Anne</creatorcontrib><creatorcontrib>de Souza Moreira, Fatima M.</creatorcontrib><title>Bradyrhizobium forestalis sp. nov., an efficient nitrogen-fixing bacterium isolated from nodules of forest legume species in the Amazon</title><title>Archives of microbiology</title><addtitle>Arch Microbiol</addtitle><addtitle>Arch Microbiol</addtitle><description>Three strains of nitrogen-fixing bacteria isolated from nodules of
Inga
sp. (INPA54B
T
) and
Swartzia
sp. (INPA86A and INPA01-91A) in soils under native forest in the Brazilian Amazon were previously identified as belonging to the
Bradyrhizobium
genus. In this study, these strains were characterized using a polyphasic approach to establish their taxonomic position. The three strains shared more than 99.5% sequence similarity of the 16S rRNA gene with the type strains of five
Bradyrhizobium
species (
B. japonicum
USDA 6
T
,
B. liaoningense
LMG 18230
T
,
B. ottawaense
OO99
T
,
B. subterraneum
58 2-1
T
and
B. yuanmingense
LMG 21827
T
). However, multilocus sequence analysis of two (
recA
and
glnII
) or three (
atpD, gyrB
, and
recA
) housekeeping genes indicated that these three strains represent a new
Bradyrhizobium
species, which is closely related to
B. subterraneum
58 2-1
T
and
B. yuanmingense
LMG 21827
T
. DNA–DNA hybridization values between INPA54B
T
and
B. subterraneum
58 2-1
T
and
B. yuanmingense
LMG 21827
T
were only 41.5 and 30.9%, respectively. Phenotypic characterization also allowed the differentiation of the novel species from
B. subterraneum
58 2-1
T
and
B. yuanmingense
LMG 21827
T
. In the phylogenetic analysis of the
nodC
and
nifH
genes, the three strains showed similar sequences that were divergent from those of type strains of all
Bradyrhizobium
species. We concluded that these strains represent a novel species, for which the name
Bradyrhizobium forestalis
is proposed, with INPA54B
T
(= LMG 10044
T
) as type strain. The G+C content in the DNA of INPA54B
T
is 63.7 mol%.</description><subject>Bacteria</subject><subject>Biochemistry</subject><subject>Biomedical and Life Sciences</subject><subject>Biotechnology</subject><subject>Bradyrhizobium</subject><subject>Cell Biology</subject><subject>Deoxyribonucleic acid</subject><subject>DNA</subject><subject>DNA topoisomerase</subject><subject>Ecology</subject><subject>Forests</subject><subject>Gene sequencing</subject><subject>Genes</subject><subject>Hybridization</subject><subject>Life Sciences</subject><subject>Microbial Ecology</subject><subject>Microbiology</subject><subject>New species</subject><subject>NifH gene</subject><subject>Nitrogen fixation</subject><subject>Nitrogen-fixing bacteria</subject><subject>Nodules</subject><subject>Original Paper</subject><subject>Phylogeny</subject><subject>RecA protein</subject><subject>rRNA 16S</subject><subject>Strains (organisms)</subject><issn>0302-8933</issn><issn>1432-072X</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2018</creationdate><recordtype>article</recordtype><sourceid>BENPR</sourceid><recordid>eNp1kc1u1DAURi1ERYfCA7BBltiwwIN9PXHsZan4kyp1UyR2lpNcT10l9mAniPYFeG08zIBQJVZe3PMdX92PkBeCrwXn7dvCOXDJuNBMbLRi8IisxEYC4y18fUxWXHJg2kh5Sp6Wcsu5AK31E3IKRhqlhF6Rn--yG-7yTbhPXVgm6lPGMrsxFFp2axrT9_Ub6iJF70MfMM40hjmnLUbmw48Qt7Rz_Yx5nw0ljW7GgfqcphodlhELTf4opSNulwmrF6up0BDpfIP0fHL3KT4jJ96NBZ8f3zPy5cP764tP7PLq4-eL80vWyxZmZhrpByFNa0RrNHYbwEZBC77Xqu2w6aA1qhcKm8EBNxpQgqgJPjR1qgZ5Rl4fvLucvi11KzuF0uM4uohpKVaYehqjpd5U9NUD9DYtOdbtflOqUY3cU-JA9TmVktHbXQ6Ty3dWcLtvyR5asrUlu2_JQs28PJqXbsLhb-JPLRWAA1DqKG4x__P1f62_AG0Lnhs</recordid><startdate>20180701</startdate><enddate>20180701</enddate><creator>Martins da Costa, Elaine</creator><creator>Azarias Guimarães, Amanda</creator><creator>Soares de Carvalho, Teotonio</creator><creator>Louzada Rodrigues, Tainara</creator><creator>de Almeida Ribeiro, Paula Rose</creator><creator>Lebbe, Liesbeth</creator><creator>Willems, Anne</creator><creator>de Souza Moreira, Fatima M.</creator><general>Springer Berlin Heidelberg</general><general>Springer Nature B.V</general><scope>NPM</scope><scope>AAYXX</scope><scope>CITATION</scope><scope>3V.</scope><scope>7QL</scope><scope>7U9</scope><scope>7X7</scope><scope>7XB</scope><scope>88A</scope><scope>88E</scope><scope>8FD</scope><scope>8FE</scope><scope>8FH</scope><scope>8FI</scope><scope>8FJ</scope><scope>8FK</scope><scope>ABUWG</scope><scope>AEUYN</scope><scope>AFKRA</scope><scope>AZQEC</scope><scope>BBNVY</scope><scope>BENPR</scope><scope>BHPHI</scope><scope>C1K</scope><scope>CCPQU</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>LK8</scope><scope>M0S</scope><scope>M1P</scope><scope>M7N</scope><scope>M7P</scope><scope>P64</scope><scope>PQEST</scope><scope>PQQKQ</scope><scope>PQUKI</scope><scope>RC3</scope><scope>7X8</scope></search><sort><creationdate>20180701</creationdate><title>Bradyrhizobium forestalis sp. nov., an efficient nitrogen-fixing bacterium isolated from nodules of forest legume species in the Amazon</title><author>Martins da Costa, Elaine ; Azarias Guimarães, Amanda ; Soares de Carvalho, Teotonio ; Louzada Rodrigues, Tainara ; de Almeida Ribeiro, Paula Rose ; Lebbe, Liesbeth ; Willems, Anne ; de Souza Moreira, Fatima M.</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c372t-953fd139791798eb42e56272fc867be5b2796c16e5da20982e321fd10d5be56d3</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2018</creationdate><topic>Bacteria</topic><topic>Biochemistry</topic><topic>Biomedical and Life Sciences</topic><topic>Biotechnology</topic><topic>Bradyrhizobium</topic><topic>Cell Biology</topic><topic>Deoxyribonucleic acid</topic><topic>DNA</topic><topic>DNA topoisomerase</topic><topic>Ecology</topic><topic>Forests</topic><topic>Gene sequencing</topic><topic>Genes</topic><topic>Hybridization</topic><topic>Life Sciences</topic><topic>Microbial Ecology</topic><topic>Microbiology</topic><topic>New species</topic><topic>NifH gene</topic><topic>Nitrogen fixation</topic><topic>Nitrogen-fixing bacteria</topic><topic>Nodules</topic><topic>Original Paper</topic><topic>Phylogeny</topic><topic>RecA protein</topic><topic>rRNA 16S</topic><topic>Strains (organisms)</topic><toplevel>peer_reviewed</toplevel><toplevel>online_resources</toplevel><creatorcontrib>Martins da Costa, Elaine</creatorcontrib><creatorcontrib>Azarias Guimarães, Amanda</creatorcontrib><creatorcontrib>Soares de Carvalho, Teotonio</creatorcontrib><creatorcontrib>Louzada Rodrigues, Tainara</creatorcontrib><creatorcontrib>de Almeida Ribeiro, Paula Rose</creatorcontrib><creatorcontrib>Lebbe, Liesbeth</creatorcontrib><creatorcontrib>Willems, Anne</creatorcontrib><creatorcontrib>de Souza Moreira, Fatima M.</creatorcontrib><collection>PubMed</collection><collection>CrossRef</collection><collection>ProQuest Central (Corporate)</collection><collection>Bacteriology Abstracts (Microbiology B)</collection><collection>Virology and AIDS Abstracts</collection><collection>Health & Medical Collection</collection><collection>ProQuest Central (purchase pre-March 2016)</collection><collection>Biology Database (Alumni Edition)</collection><collection>Medical Database (Alumni Edition)</collection><collection>Technology Research Database</collection><collection>ProQuest SciTech Collection</collection><collection>ProQuest Natural Science Collection</collection><collection>Hospital Premium Collection</collection><collection>Hospital Premium Collection (Alumni Edition)</collection><collection>ProQuest Central (Alumni) (purchase pre-March 2016)</collection><collection>ProQuest Central (Alumni Edition)</collection><collection>ProQuest One Sustainability</collection><collection>ProQuest Central UK/Ireland</collection><collection>ProQuest Central Essentials</collection><collection>Biological Science Collection</collection><collection>ProQuest 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BioEngineering Abstracts</collection><collection>ProQuest One Academic Eastern Edition (DO NOT USE)</collection><collection>ProQuest One Academic</collection><collection>ProQuest One Academic UKI Edition</collection><collection>Genetics Abstracts</collection><collection>MEDLINE - Academic</collection><jtitle>Archives of microbiology</jtitle></facets><delivery><delcategory>Remote Search Resource</delcategory><fulltext>fulltext</fulltext></delivery><addata><au>Martins da Costa, Elaine</au><au>Azarias Guimarães, Amanda</au><au>Soares de Carvalho, Teotonio</au><au>Louzada Rodrigues, Tainara</au><au>de Almeida Ribeiro, Paula Rose</au><au>Lebbe, Liesbeth</au><au>Willems, Anne</au><au>de Souza Moreira, Fatima M.</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>Bradyrhizobium forestalis sp. nov., an efficient nitrogen-fixing bacterium isolated from nodules of forest legume species in the Amazon</atitle><jtitle>Archives of microbiology</jtitle><stitle>Arch Microbiol</stitle><addtitle>Arch Microbiol</addtitle><date>2018-07-01</date><risdate>2018</risdate><volume>200</volume><issue>5</issue><spage>743</spage><epage>752</epage><pages>743-752</pages><issn>0302-8933</issn><eissn>1432-072X</eissn><abstract>Three strains of nitrogen-fixing bacteria isolated from nodules of
Inga
sp. (INPA54B
T
) and
Swartzia
sp. (INPA86A and INPA01-91A) in soils under native forest in the Brazilian Amazon were previously identified as belonging to the
Bradyrhizobium
genus. In this study, these strains were characterized using a polyphasic approach to establish their taxonomic position. The three strains shared more than 99.5% sequence similarity of the 16S rRNA gene with the type strains of five
Bradyrhizobium
species (
B. japonicum
USDA 6
T
,
B. liaoningense
LMG 18230
T
,
B. ottawaense
OO99
T
,
B. subterraneum
58 2-1
T
and
B. yuanmingense
LMG 21827
T
). However, multilocus sequence analysis of two (
recA
and
glnII
) or three (
atpD, gyrB
, and
recA
) housekeeping genes indicated that these three strains represent a new
Bradyrhizobium
species, which is closely related to
B. subterraneum
58 2-1
T
and
B. yuanmingense
LMG 21827
T
. DNA–DNA hybridization values between INPA54B
T
and
B. subterraneum
58 2-1
T
and
B. yuanmingense
LMG 21827
T
were only 41.5 and 30.9%, respectively. Phenotypic characterization also allowed the differentiation of the novel species from
B. subterraneum
58 2-1
T
and
B. yuanmingense
LMG 21827
T
. In the phylogenetic analysis of the
nodC
and
nifH
genes, the three strains showed similar sequences that were divergent from those of type strains of all
Bradyrhizobium
species. We concluded that these strains represent a novel species, for which the name
Bradyrhizobium forestalis
is proposed, with INPA54B
T
(= LMG 10044
T
) as type strain. The G+C content in the DNA of INPA54B
T
is 63.7 mol%.</abstract><cop>Berlin/Heidelberg</cop><pub>Springer Berlin Heidelberg</pub><pmid>29396618</pmid><doi>10.1007/s00203-018-1486-2</doi><tpages>10</tpages></addata></record> |
| fulltext | fulltext |
| identifier | ISSN: 0302-8933 |
| ispartof | Archives of microbiology, 2018-07, Vol.200 (5), p.743-752 |
| issn | 0302-8933 1432-072X |
| language | eng |
| recordid | cdi_proquest_miscellaneous_1993998384 |
| source | SpringerLink Journals - AutoHoldings |
| subjects | Bacteria Biochemistry Biomedical and Life Sciences Biotechnology Bradyrhizobium Cell Biology Deoxyribonucleic acid DNA DNA topoisomerase Ecology Forests Gene sequencing Genes Hybridization Life Sciences Microbial Ecology Microbiology New species NifH gene Nitrogen fixation Nitrogen-fixing bacteria Nodules Original Paper Phylogeny RecA protein rRNA 16S Strains (organisms) |
| title | Bradyrhizobium forestalis sp. nov., an efficient nitrogen-fixing bacterium isolated from nodules of forest legume species in the Amazon |
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