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Complete Genome Sequence of Pedobacter sp. PAMC26386 and Their Low Temperature Application in Arabinose-containing Polysaccharides Degradation

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Abstract

Pedobacter are a representative genus of soil-associated bacteria. Here we have provided the complete genome sequence of Pedobacter sp. PAMC26386 isolated from Antarctic soil, and functionally annotated the genome, describing the unique features of carbohydrate active enzymes (CAZymes) and α-L-arabinofuranosidase (α-L-ABF). The genome of Pedobacter sp. PAMC26386 is circular and comprises 4,796,773 bp, with a 38.2% GC content. The genome encodes 4,175 genes, including 7 rRNA and 44 tRNA genes. We identified 172 genes (8 auxiliary activities, 8 carbohydrate binding modules, 23 carbohydrate esterases, 86 glycoside hydrolases, 42 glycosyl transferases, and 5 polysaccharide lyases) related to CAZymes using the dbCAN2 tool. We checked enzyme activity on 11 substrates using the AZCL assay and obtained strong activity for arabinooligosaccharide and hemicellulose. This includes information regarding α-L-ABF, which is active at low temperatures, based on the annotation results. Our findings on Pedobacter sp. PAMC26386 provide the basis for research in the future. The favorable properties of Pedobacter sp. PAMC26386 make it a good candidate for industrial applications involving low temperatures.

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Acknowledgement

This research was a part of the project titled “Development of potential antibiotic compounds using polar organism resources (15250103, KOPRI Grant PM20030)”, funded by the Ministry of Oceans and Fisheries, Korea.

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Authors and Affiliations

  1. Department of Life Science and Biochemical Engineering, Graduate School, Sunmoon University, 70 Sunmoonro 221, Tangjeong-myeon, Asan-si, Chungnam, 31460, Korea

    Cya-Yong Cho, So-Ra Han & Tae-Jin Oh

  2. Department of BT-Convergent Pharmaceutical Engineering, Sunmoon University, 70 Sunmoonro 221, Tangjeong-myeon, Asan-si, Chungnam, 31460, Korea

    Tae-Jin Oh

  3. Genome-Based BioIT Convergence Institute, Asan, Korea

    Tae-Jin Oh

  4. Department of Pharmaceutical Engineering and Biotechnology, SunMoon University, Asan-si, Chungnam, 31460, Korea

    Tae-Jin Oh

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  1. Cya-Yong Cho
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T.-J.O. designed and supervised the project. C.-Y.C. and S.-R.H. performed the genome analysis. All authors discussed the results, commented on the manuscript, and approved the manuscript.

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Cho, CY., Han, SR. & Oh, TJ. Complete Genome Sequence of Pedobacter sp. PAMC26386 and Their Low Temperature Application in Arabinose-containing Polysaccharides Degradation. Curr Microbiol 78, 944–953 (2021). https://doi.org/10.1007/s00284-021-02364-5

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