Hymenobacter pomorum sp. nov., Isolated from Apple Orchard Soil
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A Gram-stain-negative, non-motile, rod-shaped bacterial strain, designated 9-2-1-1T, was isolated from apple orchard soil in Daegu, Republic of Korea. Comparative 16S rRNA gene sequence analysis showed that the isolate belongs to the family Cytophagaceae, Bacteroidetes and it is most closely related to Hymenobacter metalli A2-91T (97.8% similarity) and Hymenobacter marinus KJ035T (96.6%). Growth of strain 9-2-1-1T was observed at 4–30 °C, pH 6–8, and in the presence of 0–1.0% NaCl. The G+C content of the genomic DNA was 62.0 mol%. The predominant respiratory quinone of the isolate was MK-7; the major fatty acids were C15:0 iso (29.3%), C16:1 ω5c (15.4%), C15:0 anteiso (12.5%), summed feature 3 (C16:1 ω7c/C16:1 ω6c; 12.3%), and C16:0 (10.6%); and the major polar lipid was phosphatidylethanolamine. The phenotypic and chemotaxonomic data supported the affiliation of strain 9-2-1-1T with the genus Hymenobacter. However, the DNA–DNA relatedness between the isolate and H. metalli and H. marinus were 31.3% and 24.7%, respectively. The DNA–DNA hybridization result and the differentiating phenotypic properties clearly indicate that strain 9-2-1-1T is the representative of a novel species in the genus Hymenobacter, for which the name Hymenobacter pomorum sp. nov. is proposed. The type strain is 9-2-1-1T (=KCTC 52740T = JCM 32193T).
This work was supported by the Brain Pool Program (Grant No. 2018H1D3A2065415) through the National Research Foundation (NRF) funded by the Ministry of Science and ICT, Republic of Korea.
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Conflict of interest
No conflict of interest is declared.
- 2.Buczolits SE, Denner BM, Kämpfer P, Busse HJ (2006) Proposal of Hymenobacter norwichensis sp. nov., classification of ‘Taxeobacter ocellatus’, ‘Taxeobacter gelupurpurascens’ and ‘Taxeobacter chitinovorans’ as Hymenobacter ocellatus sp. nov., Hymenobacter gelipurpurascens sp. nov. and Hymenobacter chitinivorans sp. nov., respectively, and emended description of the genus Hymenobacter Hirsch et al. 1999. Int J Syst Evol Microbiol 56:2189–2192CrossRefGoogle Scholar
- 3.Buczolits S, Busse HJ (2010) Genus IX. Hymenobacter. In: Krieg NR, Staley JT, Brown DR, Hedlund BP, Paster BJ, Ward NL, Ludwig W, Whitman WB (eds) Bergey’s manual of systematic bacteriology, vol 4, 2nd edn. Springer, New York, pp 397–404Google Scholar
- 5.Cappuccino JG, Sherman N (2010) Microbiology: a laboratory manual, 9th edn. Benjamin Cummings, San FranciscoGoogle Scholar
- 7.Ezaki T, Hashimoto Y, Yabuuchi E (1989) Fluorometric deoxyribonucleic acid-deoxyribonucleic acid hybridization in microdilution wells as an alternative to membrane filter hybridization in which radioisotopes are used to determine genetic relatedness among bacterial strains. Int J Syst Bacteriol 39:224–229CrossRefGoogle Scholar
- 10.Hall TA (1999) BioEdit: a user-friendly biological sequence alignment editor and analysis program for Windows 95/98/NT. Nucleic Acids Symp Ser 41:95–98Google Scholar
- 13.Hirsch P, Ludwig W, Hethke C, Sittig M, Hoffmann B, Gallikowski CA (1998) Hymenobacter roseosalivarius gen. nov., sp. nov. from continental Antarctic soils and sandstone: bacteria of the cytophaga/flavobacterium/bacteroides line of phylogenetic descent. Syst Appl Microbiol 21:374–383CrossRefGoogle Scholar
- 14.Kang H, Kim H, Joung Y, Kim KJ, Joh K (2016) Hymenobacter marinus sp. nov., isolated from coastal seawater. Int J Syst Evol Microbiol 65:4557–4562Google Scholar
- 27.Saitou N, Nei M (1987) The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 4:406–425Google Scholar
- 28.Sasser M (1990) Identification of bacteria by gas chromatography of cellular fatty acids. MIDI Technical Note 101. MIDI Inc, Newark, p 101Google Scholar
- 29.Smibert RM, Krieg NR (1994) Phenotypic characterization. In: Gerhardt P, Murray RGE, Wood WA, Krieg NR (eds) Methods for general and molecular bacteriology. American Society for Microbiology, Washington, pp 607–654Google Scholar
- 37.Wayne LG, Brenner DJ, Colwell RR, Grimont PAD, Kandler O, Krichevsky MI, Moore LH, Moore WEC, Murray RGE, Stackebrandt E, Starr MP, Trüper HG (1987) International committee on systematic bacteriology. Report of the ad hoc committee on reconciliation of approaches to bacterial systematics. Int J Syst Bacteriol 37:463–464CrossRefGoogle Scholar
- 39.Wilson K (1997) Preparation of genomic DNA from bacteria. In: Ausubel FM et al (eds) Current protocols in molecular biology, no. supplement 27. Wiley, New York, pp 2.4.1–2.4.5Google Scholar