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Chitinophaga horti sp. nov., Isolated from Garden Soil

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Abstract

A strictly aerobic Gram-negative bacterium, designated R8T, isolated from garden soil in South Korea was subjected to a taxonomic study. The cells were non-spore-forming, oxidase-positive and catalase-negative, and non-motile rods (without flagella). Growth was observed between 10 °C and 40 °C (optimum, 30 °C) and between pH 6.0 and 9.0 (optimum, pH 7.0) and in the presence of 0%–1.5% (w/v) NaCl (optimum, 0%). The G + C content of the genomic DNA was 49.9% and the major isoprenoid quinone was found to be menaquinone-7. The major fatty acids of strain R8T were iso-C15:0, C16:1 ω5c, and summed feature 3 (comprising iso-C15:0 2-OH and/or C16:1 ω7c/ω6c). Phosphatidylethanolamine was identified as a major polar lipid. Comparative 16S rRNA gene sequence analysis showed that strain R8T had the highest 16S rRNA gene sequence similarity of 98.3% with Chitinophaga sedimenti TFL-3 T. Phylogenetic analyses using 16S rRNA gene sequences and concatenated 92 marker protein sequences revealed that strain R8T formed a robust phylogenetic lineage with C. sedimenti within the genus Chitinophaga. Average nucleotide identity and digital DNA–DNA hybridization values of strain R8T to Chitinophaga species were less than 77.9% and 21.1%, respectively. The phenotypic, phylogenetic, and chemotaxonomic properties support that strain R8T represents a novel species of the genus Chitinophaga, for which the name Chitinophaga horti sp. nov. is proposed. The type strain is R8T (= KACC 19895 T = JCM 33215 T).

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Fig. 1
Fig. 2

Abbreviations

MK:

Menaquinone

PE:

Phosphatidylethanolamine

NJ:

Neighbor joining

MP:

Maximum parsimony

ML:

Maximum likelihood

ANI:

Average nucleotide identity

DDH:

DNA–DNA hybridization

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Acknowledgements

This work was supported by the Chung-Ang University research grant in 2022 and the National Institute of Biological Resources (Grant No. NIBR202203205) funded by the Ministry of Environment, Republic of Korea

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Authors and Affiliations

  1. Department of Life Science, Chung-Ang University, 84, HeukSeok-Ro, Dongjak-Gu, Seoul, 06974, Republic of Korea

    Dong Min Han, Ju Hye Baek, Dae Gyu Choi, Myeong Seo Jin & Che Ok Jeon

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  1. Dong Min Han
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  2. Ju Hye Baek
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  3. Dae Gyu Choi
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  4. Myeong Seo Jin
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  5. Che Ok Jeon
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Contributions

COJ conceived the ideas and supervised all works. DMH collected the samples, isolated the strain, and performed initial cultivation, storage, and deposition. DMH, JHB, and MSJ analyzed the phenotypic, biochemical, and genomic properties. DGC sequenced and analyzed the genome. DMH and COJ wrote the manuscript and the manuscript has been reviewed and edited by all authors.

Corresponding author

Correspondence to Che Ok Jeon.

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The GenBank/EMBL/DDBJ accession numbers for the 16S rRNA gene and the genome sequences of strain R8T are MK397783 and CP107006, respectively, and that of strain KCTC 52590 T is JAKUKA000000000.

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Han, D.M., Baek, J.H., Choi, D.G. et al. Chitinophaga horti sp. nov., Isolated from Garden Soil. Curr Microbiol 80, 116 (2023). https://doi.org/10.1007/s00284-023-03222-2

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