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Volume 72, Issue 6

sp. nov., isolated from seawater of the Yellow Sea No Access

Abstract

A Gram-negative and facultative aerobic strain, designated as strain MA-13, was isolated from seawater in the Yellow Sea Republic of Korea. Cells were oxidase- and catalase-positive and non-motile short rods. Growth of strain MA-13 was observed over a range of 10–37 °C (optimum, 30 °C), pH 6.0–11.0 (optimum, pH 7.0) and in the presence of 0–5.5 % (w/v) sodium chloride (optimum, 1.0–2.0 %). Strain MA-13 contained ubiquinone-8 as the respiratory quinone, phosphatidylethanolamine, an unidentified aminolipid, an unidentified phospholipid and four unidentified lipids as major polar lipids and C, C 3-OH and summed feature 3 (C 7 and/or C 6) as major cellular fatty acids. The G+C content of the genomic DNA was 48.3 mol%. Phylogenetic analyses based on the 16S rRNA gene and whole-genome sequences revealed that strain MA-13 formed a distinct phyletic lineage in the genus . Strain MA-13 was most closely related to YQF-2, SW-353, KMM 1406 and DSM 14885 with 98.10, 98.08, 98.07 and 97.94 % 16S rRNA gene sequence similarities. Average nucleotide identity and DNA–DNA hybridization values between strain MA-13 and KCTC 12840, DSM 17616 and DSM 14885 were 76.3, 78.6 and 76.9 % and 19.5, 21.3 and 20.5 %, respectively. Based on the phenotypic, chemotaxonomic and molecular features, strain MA-13 represents a novel species of the genus , for which the name sp. nov. is proposed. The type strain is MA-13 (=KACC 22113=JCM 34600).

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  • Accepted:
  • Published Online:
Keyword(s): new taxa , Pseudomonadota , Rheinheimera maricola and seawater
Funding
This study was supported by the:
  • National Institute of Biological Resources (Award NIBR202129201)
    • Principle Award Recipient: CheOk Jeon
  • Ocean Science & Technology (KR) (Award KIOST20210469)
    • Principle Award Recipient: CheOk Jeon
© 2022 The Authors
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2022-06-10
2024-05-13
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References

  1. Brettar I, Christen R, Höfle MG. Rheinheimera baltica gen. nov., sp. nov., a blue-coloured bacterium isolated from the central Baltic Sea. Int J Syst Evol Microbiol 2002; 52:1851–1857 [View Article] [PubMed]
     [Google Scholar]
  2. Merchant MM, Welsh AK, McLean RJC. Rheinheimera texasensis sp. nov., a halointolerant freshwater oligotroph. Int J Syst Evol Microbiol 2007; 57:2376–2380 [View Article] [PubMed]
     [Google Scholar]
  3. Chen WM, Yang SH, Young CC, Sheu SY. Rheinheimera tilapiae sp. nov., isolated from a freshwater culture pond. Int J Syst Evol Microbiol 2013; 63:1457–1463 [View Article] [PubMed]
     [Google Scholar]
  4. Liu Y, Jiang J-T, Xu C-J, Liu Y-H, Song X-F et al. Rheinheimera longhuensis sp. nov., isolated from a slightly alkaline lake, and emended description of genus Rheinheimera Brettar et al. 2002. Int J Syst Evol Microbiol 2012; 62:2927–2933 [View Article] [PubMed]
     [Google Scholar]
  5. Li H-J, Zhang X-Y, Zhang Y-J, Zhou M-Y, Gao Z-M et al. Rheinheimera nanhaiensis sp. nov., isolated from marine sediments, and emended description of the genus Rheinheimera Brettar et al. 2002 emend. Merchant et al. 2007. Int J Syst Evol Microbiol 2011; 61:1016–1022 [View Article] [PubMed]
     [Google Scholar]
  6. Sheu SY, Chen WT, Young CC, Chen WM. Rheinheimera coerulea sp. nov., isolated from a freshwater creek, and emended description of genus Rheinheimera Brettar et al. 2002. Int J Syst Evol Microbiol 2018; 68:2340–2347 [View Article]
     [Google Scholar]
  7. Yu Q, Qi Y, Pu J. Rheinheimera lutimaris sp. nov., a marine bacterium isolated from coastal sediment. Int J Syst Evol Microbiol 2021; 71:005143 [View Article] [PubMed]
     [Google Scholar]
  8. Hayashi K, Busse H-J, Golke J, Anderson J, Wan X et al. Rheinheimera salexigens sp. nov., isolated from a fishing hook, and emended description of the genus Rheinheimera. Int J Syst Evol Microbiol 2018; 68:35–41 [View Article] [PubMed]
     [Google Scholar]
  9. Brettar I, Christen R, Höfle MG. Rheinheimera perlucida sp. nov., a marine bacterium of the Gammaproteobacteria isolated from surface water of the central Baltic Sea. Int J Syst Evol Microbiol 2006; 56:2177–2183 [View Article] [PubMed]
     [Google Scholar]
  10. Romanenko LA, Uchino M, Falsen E, Zhukova NV, Mikhailov VV et al. Rheinheimera pacifica sp. nov., a novel halotolerant bacterium isolated from deep sea water of the Pacific. Int J Syst Evol Microbiol 2003; 53:1973–1977 [View Article] [PubMed]
     [Google Scholar]
  11. Yoon J-H, Park SE, Kang S-J, Oh T-K. Rheinheimera aquimaris sp. nov., isolated from seawater of the East Sea in Korea. Int J Syst Evol Microbiol 2007; 57:1386–1390 [View Article] [PubMed]
     [Google Scholar]
  12. Baek K, Jeon CO. Rheinheimera gaetbuli sp. nov., a marine bacterium isolated from a tidal flat. Curr Microbiol 2016; 72:344–350 [View Article] [PubMed]
     [Google Scholar]
  13. Yu Q, Qi Y, Zhang H, Pu J. Rheinheimera sediminis sp. nov., a marine bacterium isolated from coastal sediment. Int J Syst Evol Microbiol 2020; 70:1282–1287 [View Article] [PubMed]
     [Google Scholar]
  14. Zhang W, Zhu S, Cheng Y, Ding L, Li S et al. Rheinheimera mangrovi sp. nov., a bacterium isolated from mangrove sediment. Int J Syst Evol Microbiol 2020; 70:6188–6194 [View Article] [PubMed]
     [Google Scholar]
  15. Kumar A, Bajaj A, Mathan Kumar R, Kaur G, Kaur N et al. Taxonomic description and genome sequence of Rheinheimera mesophila sp. nov., isolated from an industrial waste site. Int J Syst Evol Microbiol 2015; 65:3666–3673 [View Article] [PubMed]
     [Google Scholar]
  16. Halpern M, Senderovich Y, Snir S. Rheinheimera chironomi sp. nov., isolated from a chironomid (Diptera; Chironomidae) egg mass. Int J Syst Evol Microbiol 2007; 57:1872–1875 [View Article] [PubMed]
     [Google Scholar]
  17. Seo YL, Jung J, Song C, Kwon YM, Jung HS et al. Nonlabens ponticola sp. nov., isolated from seawater and reclassification of Nonlabens sediminis as a later heterotypic synonym of Nonlabens tegetincola. Int J Syst Evol Microbiol 2021; 71:004603 [View Article] [PubMed]
     [Google Scholar]
  18. Kim JM, Le NT, Chung BS, Park JH, Bae J-W et al. Influence of soil components on the biodegradation of benzene, toluene, ethylbenzene, and o-, m-, and p-xylenes by the newly isolated bacterium Pseudoxanthomonas spadix BD-a59. Appl Environ Microbiol 2008; 74:7313–7320 [View Article] [PubMed]
     [Google Scholar]
  19. Yoon S-H, Ha S-M, Kwon S, Lim J, Kim Y et al. Introducing EzBioCloud: A taxonomically united database of 16S rRNA gene sequences and whole-genome assemblies. Int J Syst Evol Microbiol 2017; 67:1613–1617 [View Article] [PubMed]
     [Google Scholar]
  20. Nawrocki EP, Eddy SR. Infernal 1.1: 100-fold faster RNA homology searches. Bioinformatics 2013; 29:2933–2935 [View Article] [PubMed]
     [Google Scholar]
  21. Tamura K, Stecher G, Kumar S. MEGA11: Molecular Evolutionary Genetics Analysis version 11. Mol Biol Evol 2021; 38:3022–3027 [View Article]
     [Google Scholar]
  22. Sambrook J, Russell DW. Molecular Cloning: a Laboratory Manual, 3rd edn. Cold Spring Harbour Laboratory Press; 2001
     [Google Scholar]
  23. Wick RR, Judd LM, Gorrie CL, Holt KE. Unicycler: Resolving bacterial genome assemblies from short and long sequencing reads. PLoS Comput Biol 2017; 13:e1005595 [View Article] [PubMed]
     [Google Scholar]
  24. Parks DH, Imelfort M, Skennerton CT, Hugenholtz P, Tyson GW. CheckM: assessing the quality of microbial genomes recovered from isolates, single cells, and metagenomes. Genome Res 2015; 25:1043–1055 [View Article] [PubMed]
     [Google Scholar]
  25. Tatusova T, DiCuccio M, Badretdin A, Chetvernin V, Nawrocki EP et al. NCBI prokaryotic genome annotation pipeline. Nucleic Acids Res 2016; 44:6614–6624 [View Article] [PubMed]
     [Google Scholar]
  26. Kim J, Na S-I, Kim D, Chun J. UBCG2: Up-to-date bacterial core genes and pipeline for phylogenomic analysis. J Microbiol 2021; 59:609–615 [View Article] [PubMed]
     [Google Scholar]
  27. Lee I, Ouk Kim Y, Park S-C, Chun J. OrthoANI: An improved algorithm and software for calculating average nucleotide identity. Int J Syst Evol Microbiol 2016; 66:1100–1103 [View Article] [PubMed]
     [Google Scholar]
  28. Meier-Kolthoff JP, Auch AF, Klenk H-P, Göker M. Genome sequence-based species delimitation with confidence intervals and improved distance functions. BMC Bioinformatics 2013; 14:60 [View Article] [PubMed]
     [Google Scholar]
  29. Stackebrandt E, Ebers J. Taxonomic parameters revisited: tarnished gold standards. Microbiol Today 2006; 33:152–155
     [Google Scholar]
  30. Kim M, Oh HS, Park SC, Chun J. Towards a taxonomic coherence between average nucleotide identity and 16S rRNA gene sequence similarity for species demarcation of prokaryotes. Int J Syst Evol Microbiol 2014; 64:346–351 [View Article] [PubMed]
     [Google Scholar]
  31. Gomori G. Preparation of buffers for use in enzyme studies. Methods Enzymol 1955; 1:138–146
     [Google Scholar]
  32. Smibert RM, Krieg NR. Phenotypic characterization. In Gerhardt P. eds Methods for General and Molecular Bacteriology Washington, DC: American Society for Microbiology; 1994 pp 607–654
     [Google Scholar]
  33. Lányi B. Classical and rapid identification methods for medically important bacteria. Methods Microbiol 1987; 19:1–67
     [Google Scholar]
  34. Minnikin DE, O’Donnell AG, Goodfellow M, Alderson G, Athalye M et al. An integrated procedure for the extraction of bacterial isoprenoid quinones and polar lipids. J Microbiol Methods 1984; 2:233–241 [View Article]
     [Google Scholar]
  35. Komagata K, Suzuki K. Lipid and cell-wall analysis in bacterial systematics. Methods Microbiol 1987; 19:161–208
     [Google Scholar]
  36. Sasser M. Identification of Bacteria by gas chromatography of cellular fatty acids, MIDI Technical Note 101. Newark, DE: MIDI Inc; 1990
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Rheinheimera maricola sp. nov., isolated from seawater of the Yellow Sea
Int J Syst Evol Microbiol 72, 005423 (2022); https://doi.org/10.1099/ijsem.0.005423
/content/journal/ijsem/10.1099/ijsem.0.005423
/content/journal/ijsem/10.1099/ijsem.0.005423
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