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<p>Two strains were isolated from riverbed soil in Paju-si, Gyeonggi-do, Republic of Korea. The strain designated as MI9<sup>T</sup> was a Gram-stain negative, strictly aerobic, rod-shaped bacterium that was motile by flagella and formed yellow colonies, while the strain designated as GY13<sup>T</sup> was a Gram-stain negative, strictly aerobic, rod-shaped, nonmotile bacterium that formed pink colonies. These two strains were classified as belonging to the genera <i>Hydrogenophaga</i> and <i>Larkinella</i>, respectively, based on phylogenetic analyses of their 16&#xa0;S rRNA gene sequences and draft genomes. The strains MI9<sup>T</sup> and GY13<sup>T</sup> exhibited optimal growth at 30&#xa0;°C and pH 7.0 in the presence of 0% NaCl. Strain MI9<sup>T</sup> grew within a temperature range of 10–30&#xa0;°C and a pH range of 5.0–10.0, tolerating up to 1.0% NaCl. Strain GY13<sup>T</sup> grew within a temperature range of 10–35&#xa0;°C and a pH range of 5.0–10.0, but only in the absence of NaCl. Comparative analysis between the strains revealed that the average nucleotide identity (ANI) values (79.2%–87.8%) and digital DNA–DNA hybridization (dDDH) values (21.6%–29.1%) of strain MI9<sup>T</sup> matched those of the genus <i>Hydrogenophaga</i>, while the ANI values (77.1%–94.7%) and dDDH values (19.2%–54.3%) of strain GY13<sup>T</sup> matched those of the genus <i>Larkinella</i>. Phylogenetic data, ANI and dDDH values, and physiological and biochemical characteristics collectively demonstrated that the strains MI9<sup>T</sup> and GY13<sup>T</sup> exhibited distinct characteristics that could distinguish them from other species within the genera <i>Hydrogenophaga</i> and <i>Larkinella</i>, respectively. We propose the names <i>Hydrogenophaga sedimenti</i> (type strain MI9<sup>T</sup> = KACC 24145<sup>T</sup> = TBRC 21213<sup>T</sup>) and <i>Larkinella fluvii</i> (type strain GY13<sup>T</sup> = KACC 24146<sup>T</sup> = TBRC 21185<sup>T</sup>), respectively.</p>

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Phylogenomic Characterization of Hydrogenophaga sedimenti sp. nov. and Larkinella fluvii sp. nov. Isolated from Riverbed Soil

  • 期刊论文

  • 发表日期：

    2026年5月22日

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  • Sunho Park,
  • Hyunji Lee,
  • Subin Yook,
  • Chunghwan Baek,
  • Jisu Kim,
  • Seunghui Kwak,
  • Taegun Seo

摘要

Two strains were isolated from riverbed soil in Paju-si, Gyeonggi-do, Republic of Korea. The strain designated as MI9T was a Gram-stain negative, strictly aerobic, rod-shaped bacterium that was motile by flagella and formed yellow colonies, while the strain designated as GY13T was a Gram-stain negative, strictly aerobic, rod-shaped, nonmotile bacterium that formed pink colonies. These two strains were classified as belonging to the genera Hydrogenophaga and Larkinella, respectively, based on phylogenetic analyses of their 16 S rRNA gene sequences and draft genomes. The strains MI9T and GY13T exhibited optimal growth at 30 °C and pH 7.0 in the presence of 0% NaCl. Strain MI9T grew within a temperature range of 10–30 °C and a pH range of 5.0–10.0, tolerating up to 1.0% NaCl. Strain GY13T grew within a temperature range of 10–35 °C and a pH range of 5.0–10.0, but only in the absence of NaCl. Comparative analysis between the strains revealed that the average nucleotide identity (ANI) values (79.2%–87.8%) and digital DNA–DNA hybridization (dDDH) values (21.6%–29.1%) of strain MI9T matched those of the genus Hydrogenophaga, while the ANI values (77.1%–94.7%) and dDDH values (19.2%–54.3%) of strain GY13T matched those of the genus Larkinella. Phylogenetic data, ANI and dDDH values, and physiological and biochemical characteristics collectively demonstrated that the strains MI9T and GY13T exhibited distinct characteristics that could distinguish them from other species within the genera Hydrogenophaga and Larkinella, respectively. We propose the names Hydrogenophaga sedimenti (type strain MI9T = KACC 24145T = TBRC 21213T) and Larkinella fluvii (type strain GY13T = KACC 24146T = TBRC 21185T), respectively.