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Bradyrhizobium namibiense sp. nov., a symbiotic nitrogen-fixing bacterium from root nodules of Lablab purpureus, hyacinth bean, in Namibia.

Identifieur interne : 000145 ( Main/Exploration ); précédent : 000144; suivant : 000146

Bradyrhizobium namibiense sp. nov., a symbiotic nitrogen-fixing bacterium from root nodules of Lablab purpureus, hyacinth bean, in Namibia.

Auteurs : Jann Lasse Grönemeyer [Allemagne] ; Wiebke Bünger [Allemagne] ; Barbara Reinhold-Hurek [Allemagne]

Source :

RBID : pubmed:29034855

Descripteurs français

English descriptors

Abstract

Four strains of symbiotic bacteria from root nodules of hyacinth bean (Lablab purpureus (L.) Sweet) from Namibia were previously identified as a novel group within the genus Bradyrhizobium. To confirm their taxonomic status, these strains were further characterized by taking a polyphasic approach. The type strain possessed 16S rRNA gene sequences identical to Bradyrhizobium paxllaeri LMTR 21T and Bradyrhizobiumicense LMTR 13T, the full-length sequences were identical to those retrieved from SAMN05230119 and SAMN05230120, respectively. However, the intergenic spacer sequences of the novel group showed identities of less than 93.1 % to described Bradyrhizobium species and were placed in a well-supported separate lineage in the phylogenetic tree. Phylogenetic analyses of six concatenated housekeeping genes, recA, glnII, gyrB, dnaK, atpD and rpoB, corroborated that the novel strains belonged to a lineage distinct from named species of the genus Bradyrhizobium, with highest sequence identities to Bradyrhizobiumjicamae and B. paxllaeri (below 93 %). The species status was validated by results of DNA-DNA hybridization and average nucleotide identity values of genome sequences. The combination of phenotypic characteristics from several tests, including carbon source utilization and antibiotic resistance, could be used to differentiate representative strains from recognized species of the genus Bradyrhizobium. Phylogenetic analysis of nodC and nifH genes placed the novel strains in a group with B. paxllaeri and B.lablabi. Novel strain 5-10T induces effective nodules on Lablab purpureus, Vigna subterranea, Vigna unguiculata and Arachis hypogaea. Based on our results, we conclude that our strains represent a novel species for which the name Bradyrhizobium namibiense sp. nov. is proposed, with type strain 5-10T[LMG 28789, DSM 100300, NTCCM0017 (Windhoek)].

DOI: 10.1099/ijsem.0.002039
PubMed: 29034855


Affiliations:


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<term>Bacterial Typing Techniques (MeSH)</term>
<term>Bradyrhizobium (classification)</term>
<term>Bradyrhizobium (genetics)</term>
<term>Bradyrhizobium (isolation & purification)</term>
<term>DNA, Bacterial (genetics)</term>
<term>Fabaceae (microbiology)</term>
<term>Genes, Bacterial (MeSH)</term>
<term>Namibia (MeSH)</term>
<term>Nitrogen Fixation (MeSH)</term>
<term>Nucleic Acid Hybridization (MeSH)</term>
<term>Phylogeny (MeSH)</term>
<term>RNA, Ribosomal, 16S (genetics)</term>
<term>Root Nodules, Plant (microbiology)</term>
<term>Sequence Analysis, DNA (MeSH)</term>
<term>Symbiosis (MeSH)</term>
</keywords>
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<term>ADN bactérien (génétique)</term>
<term>ARN ribosomique 16S (génétique)</term>
<term>Analyse de séquence d'ADN (MeSH)</term>
<term>Bradyrhizobium (classification)</term>
<term>Bradyrhizobium (génétique)</term>
<term>Bradyrhizobium (isolement et purification)</term>
<term>Fabaceae (microbiologie)</term>
<term>Fixation de l'azote (MeSH)</term>
<term>Gènes bactériens (MeSH)</term>
<term>Hybridation d'acides nucléiques (MeSH)</term>
<term>Namibie (MeSH)</term>
<term>Nodules racinaires de plante (microbiologie)</term>
<term>Phylogenèse (MeSH)</term>
<term>Symbiose (MeSH)</term>
<term>Techniques de typage bactérien (MeSH)</term>
</keywords>
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<term>DNA, Bacterial</term>
<term>RNA, Ribosomal, 16S</term>
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<term>Bradyrhizobium</term>
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<term>Bradyrhizobium</term>
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<term>ADN bactérien</term>
<term>ARN ribosomique 16S</term>
<term>Bradyrhizobium</term>
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<term>Bradyrhizobium</term>
</keywords>
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<term>Bradyrhizobium</term>
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<term>Fabaceae</term>
<term>Nodules racinaires de plante</term>
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<term>Fabaceae</term>
<term>Root Nodules, Plant</term>
</keywords>
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<term>Bacterial Typing Techniques</term>
<term>Genes, Bacterial</term>
<term>Namibia</term>
<term>Nitrogen Fixation</term>
<term>Nucleic Acid Hybridization</term>
<term>Phylogeny</term>
<term>Sequence Analysis, DNA</term>
<term>Symbiosis</term>
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<term>Analyse de séquence d'ADN</term>
<term>Fixation de l'azote</term>
<term>Gènes bactériens</term>
<term>Hybridation d'acides nucléiques</term>
<term>Namibie</term>
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<front>
<div type="abstract" xml:lang="en">Four strains of symbiotic bacteria from root nodules of hyacinth bean (Lablab purpureus (L.) Sweet) from Namibia were previously identified as a novel group within the genus Bradyrhizobium. To confirm their taxonomic status, these strains were further characterized by taking a polyphasic approach. The type strain possessed 16S rRNA gene sequences identical to Bradyrhizobium paxllaeri LMTR 21
<sup>T</sup>
and Bradyrhizobiumicense LMTR 13
<sup>T</sup>
, the full-length sequences were identical to those retrieved from SAMN05230119 and SAMN05230120, respectively. However, the intergenic spacer sequences of the novel group showed identities of less than 93.1 % to described Bradyrhizobium species and were placed in a well-supported separate lineage in the phylogenetic tree. Phylogenetic analyses of six concatenated housekeeping genes, recA, glnII, gyrB, dnaK, atpD and rpoB, corroborated that the novel strains belonged to a lineage distinct from named species of the genus Bradyrhizobium, with highest sequence identities to Bradyrhizobiumjicamae and B. paxllaeri (below 93 %). The species status was validated by results of DNA-DNA hybridization and average nucleotide identity values of genome sequences. The combination of phenotypic characteristics from several tests, including carbon source utilization and antibiotic resistance, could be used to differentiate representative strains from recognized species of the genus Bradyrhizobium. Phylogenetic analysis of nodC and nifH genes placed the novel strains in a group with B. paxllaeri and B.lablabi. Novel strain 5-10
<sup>T</sup>
induces effective nodules on Lablab purpureus, Vigna subterranea, Vigna unguiculata and Arachis hypogaea. Based on our results, we conclude that our strains represent a novel species for which the name Bradyrhizobium namibiense sp. nov. is proposed, with type strain 5-10
<sup>T</sup>
[LMG 28789, DSM 100300, NTCCM0017 (Windhoek)].</div>
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<sup>T</sup>
and Bradyrhizobiumicense LMTR 13
<sup>T</sup>
, the full-length sequences were identical to those retrieved from SAMN05230119 and SAMN05230120, respectively. However, the intergenic spacer sequences of the novel group showed identities of less than 93.1 % to described Bradyrhizobium species and were placed in a well-supported separate lineage in the phylogenetic tree. Phylogenetic analyses of six concatenated housekeeping genes, recA, glnII, gyrB, dnaK, atpD and rpoB, corroborated that the novel strains belonged to a lineage distinct from named species of the genus Bradyrhizobium, with highest sequence identities to Bradyrhizobiumjicamae and B. paxllaeri (below 93 %). The species status was validated by results of DNA-DNA hybridization and average nucleotide identity values of genome sequences. The combination of phenotypic characteristics from several tests, including carbon source utilization and antibiotic resistance, could be used to differentiate representative strains from recognized species of the genus Bradyrhizobium. Phylogenetic analysis of nodC and nifH genes placed the novel strains in a group with B. paxllaeri and B.lablabi. Novel strain 5-10
<sup>T</sup>
induces effective nodules on Lablab purpureus, Vigna subterranea, Vigna unguiculata and Arachis hypogaea. Based on our results, we conclude that our strains represent a novel species for which the name Bradyrhizobium namibiense sp. nov. is proposed, with type strain 5-10
<sup>T</sup>
[LMG 28789, DSM 100300, NTCCM0017 (Windhoek)].</AbstractText>
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<QualifierName UI="Q000382" MajorTopicYN="Y">microbiology</QualifierName>
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Data generation: Thu Nov 19 16:52:21 2020. Site generation: Thu Nov 19 16:52:50 2020