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Purpose <p>This study aimed to characterize the <i>Bradyrhizobium</i> strains associated with <i>Arachis pintoi</i> by sequencing and analyzing the genomes of thirteen isolates obtained from this host in two Brazilian biomes (Caatinga and Atlantic Forest), thereby providing the first taxonomic insights into these symbiotic species. Eight of these strains were highly efficient in nitrogen fixation in symbiosis with <i>A. pintoi</i>, while the remaining five were&#xa0;less&#xa0;efficient.</p> Methods <p>We performed comparative genomic analysis using average nucleotide identity (ANI), digital DNA-DNA hybridization (dDDH) and phylogeny based on the&#xa0;16S rRNA, housekeeping, and functional (<i>nodC</i> and <i>nifH</i>) gene sequences to investigate the relationship of these strains to other known <i>Bradyrhizobium</i> species.</p> Results <p>The 16S rRNA gene phylogeny was unable to distinguish these strains, while the MLSA clearly separated them into three distinct lineages, with no members of previously described <i>Bradyrhizobium</i> species. ANI comparisons yielded similar results. The dDDH values between the UFLA type strains and the closest species <i>B. ingae</i> BR 10250<sup>&#xa0;T</sup> and <i>B. iriomotense</i> EK05<sup>T</sup>were lower than 46%, which is well below the cut off value of 70%. Additionally, these strains differed from other <i>Bradyrhizobium</i> species in terms of the phylogeny of <i>nodC</i> and <i>nifH</i> genes.</p> Conclusion <p>Accordingly, we propose the names <i>B. uflense</i> UFLA05-112<sup>&#xa0;T</sup> (= CBAS1221), <i>B. lavrense</i> UFLA05-153<sup>&#xa0;T</sup> (= CBAS1222), and <i>B. bahiense</i> UFLA05-109<sup>&#xa0;T</sup> (= CBAS1081) for these strains.</p> Graphical Abstract <p></p>

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Genome Sequencing of Bacterial Strains Isolated from Arachis pintoi Reveals Three Novel Species Within The Bradyrhizobium Genus

  • 期刊论文

  • 发表日期：

    2026年1月9日

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  • Daniele Cabral Michel,
  • Teotonio Soares de Carvalho,
  • Konstantinos T. Konstantinidis,
  • Fatima Maria de Souza Moreira

摘要

Purpose

This study aimed to characterize the Bradyrhizobium strains associated with Arachis pintoi by sequencing and analyzing the genomes of thirteen isolates obtained from this host in two Brazilian biomes (Caatinga and Atlantic Forest), thereby providing the first taxonomic insights into these symbiotic species. Eight of these strains were highly efficient in nitrogen fixation in symbiosis with A. pintoi, while the remaining five were less efficient.

Methods

We performed comparative genomic analysis using average nucleotide identity (ANI), digital DNA-DNA hybridization (dDDH) and phylogeny based on the 16S rRNA, housekeeping, and functional (nodC and nifH) gene sequences to investigate the relationship of these strains to other known Bradyrhizobium species.

Results

The 16S rRNA gene phylogeny was unable to distinguish these strains, while the MLSA clearly separated them into three distinct lineages, with no members of previously described Bradyrhizobium species. ANI comparisons yielded similar results. The dDDH values between the UFLA type strains and the closest species B. ingae BR 10250 T and B. iriomotense EK05Twere lower than 46%, which is well below the cut off value of 70%. Additionally, these strains differed from other Bradyrhizobium species in terms of the phylogeny of nodC and nifH genes.

Conclusion

Accordingly, we propose the names B. uflense UFLA05-112 T (= CBAS1221), B. lavrense UFLA05-153 T (= CBAS1222), and B. bahiense UFLA05-109 T (= CBAS1081) for these strains.

Graphical Abstract