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Characteristics and adaptability of Flavobacterium panici BSSL-CR3 in tidal flat revealed by comparative genomic and enzymatic analysis

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Abstract

Tidal flat microbes play an important ecological role by removing organic pollutants and providing an energy source. However, bacteria isolated from tidal flats and their genomes have been scarcely reported, making it difficult to elucidate which genes and pathways are potentially involved in the above roles. In this study, strain BSSL-CR3, the third reported species among the tidal flat Flavobacterium was analyzed using whole-genome sequencing to investigate its adaptability and functionality in tidal flats. BSSL-CR3 is comprised of a circular chromosome of 5,972,859 bp with a GC content of 33.84%. Genome annotation and API ZYM results showed that BSSL-CR3 has a variety of secondary metabolic gene clusters and enzyme activities including α-galactosidase. BSSL-CR3 had more proteins with a low isoelectric point (pI) than terrestrial Flavobacterium strains, and several genes related to osmotic regulation were found in the genomic island (GI). Comparative genomic analysis with other tidal flat bacteria also revealed that BSSL-CR3 had the largest number of genes encoding Carbohydrate Active EnZymes (CAZymes) which are related to algae degradation. This study will provide insight into the adaptability of BSSL-CR3 to the tidal flats and contribute to facilitating future comparative analysis of bacteria in tidal flats.

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Data availability

The complete genome sequence of F. panici BSSL-CR3 has been deposited in GenBank under the accession number CP100437.

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Acknowledgements

The authors acknowledge the National Institute of Biological Resources for kindly supporting the project.

Funding

This work was supported by the National Institute of Biological Resources funded by the Ministry of Environment (No. NIBR202134204).

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Authors and Affiliations

  1. Department of Agricultural Biotechnology and Research Institute of Agriculture and Life Sciences, Seoul National University, 1 Gwanak-Ro, Gwanak-Gu, Seoul, 08826, Republic of Korea

    Jina Kim & Donghyeok Seol

  2. Microorganism Resources Division, National Institute of Biological Resources, 42 Hwangyeong-ro, Seo-gu, Incheon, 22689, Republic of Korea

    In-Tae Cha, Ki-Eun Lee & Youn Kyoung Son

  3. eGnome, Inc., 26 Beobwon-ro 9-gil, Songpa-gu, Seoul, 05836, Republic of Korea

    Jaewoong Yu

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JK designed the study, performed formal analysis, and interpreted the results. JK and DS drafted the manuscript. I-TC, K-EL, and YKS provided resources. JY and DS supervised the study. All authors reviewed the results and approved the final version of the manuscript.

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Correspondence to Jaewoong Yu or Donghyeok Seol.

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Kim, J., Cha, IT., Lee, KE. et al. Characteristics and adaptability of Flavobacterium panici BSSL-CR3 in tidal flat revealed by comparative genomic and enzymatic analysis. Arch Microbiol 205, 22 (2023). https://doi.org/10.1007/s00203-022-03359-x

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