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Pedobacter edaphicus sp. nov. isolated from forest soil in South Korea

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Abstract

A Gram-negative, yellow-colored, rod-shaped, strictly aerobic, motile bacterium was isolated from forest soil in Gyeongsang Province, South Korea. The strain was designated as THG-DA2.1T. Cells of strain THG-DA2.1T grew optimally at pH 7.0, at temperature 28 °C and in the presence of 0.5 % NaCl. Based on 16S rRNA gene sequence, strain THG-DA2.1T was shown to belong to the genus Pedobacter and shares highest sequence similarity with Pedobacter ginsengisoli KCTC 12576T. The DNA G+C content was determined to be 42.3 mol %. The predominant isoprenoid quinone was identified as menaquinone MK-7. The major cellular fatty acids of strain THG-DA2.1T were iso-C15:0 and C16:1 ω6c and/or C16:1 ω7c (summed feature 3*). Strain THG-DA2.1T contains phosphatidylethanolamine as major polar lipid, but an unidentified aminolipid, two unidentified phospholipids and two unidentified lipids were also detected. On the basis of the data obtained from polyphasic taxonomy in this study, strain THG-DA2.1T is considered to represent a novel species of the genus Pedobacter, for which the name Pedobacter edaphicus sp. nov. is proposed. The type strain is THG-DA2.1T (=KCTC 42232T =JCM 30351T).

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Acknowledgments

This work was conducted under the industrial infrastructure program (No. N0000888) for fundamental technologies which is funded by the Ministry of Trade, Industry and Energy (MOTIE, Korea).

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Authors and Affiliations

  1. Department of Oriental Medicine Biotechnology, College of Life Science, Kyung Hee University Global Campus, 1732 Deokyoungdaero, Giheung-gu, Yongin-si, Gyeonggi-do, 446-701, Republic of Korea

    Hina Singh, Juan Du, Hien T. T. Ngo, Kyung Hwa Won & Tae-Hoo Yi

  2. Department of Genetic Engineering, College of Life Science, Kyung Hee University Global Campus, 1732 Deokyoungdaero, Giheung-gu, Yongin-si, Gyeonggi-do, 446-701, Republic of Korea

    Ki-Young Kim

Authors
  1. Hina Singh
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  2. Juan Du
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  3. Hien T. T. Ngo
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  4. Kyung Hwa Won
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  5. Ki-Young Kim
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  6. Tae-Hoo Yi
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Corresponding author

Correspondence to Tae-Hoo Yi.

Additional information

Communicated by Erko Stackebrandt.

The GenBank/EMBL/DDBJ accession number for the 16S rRNA gene sequence of strain THG-DA2.1T is KM035953.

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Supplementary Fig. S1

The maximum likelihood tree based on 16S rRNA gene sequence analysis showing phylogenetic relationships between strain THG-DA2.1T and members of the genus Pedobacter (TIFF 365 kb)

Supplementary Fig. S2

Transmission electron micrograph of Pedobacter edaphicus THG-DA2.1T. After negative staining with uranyl acetate. Bar indicated 0.5 μm (TIFF 246 kb)

Supplementary Fig. S3

Two-dimensional TLC of the total polar lipids of Pedobacter edaphicus THG-DA2.1T (a) and Pedobacter ginsengisoli KCTC 12576T (b), stained with 5 % ethanolic molybdatophosphoric acid. Abbreviations: PE, phosphatidylethanolamine; AL, aminolipid; PL1-2, unidentified polar lipids; L1-2, unidentified polar lipids (TIFF 347 kb)

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Singh, H., Du, J., Ngo, H.T.T. et al. Pedobacter edaphicus sp. nov. isolated from forest soil in South Korea. Arch Microbiol 197, 781–787 (2015). https://doi.org/10.1007/s00203-015-1114-3

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  • DOI: https://doi.org/10.1007/s00203-015-1114-3

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