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Abstract

A Gram-stain-negative strain, designated RB1R16, was isolated from ice collected from the ice tongue surface of the Renlongba glacier in Tibet. Strain RB1R16 was catalase-negative, oxidase-negative and grew at 10–22 °C, pH 6.0–8.0 and in the presence of 0–0.5 % NaCl. Phylogenetic analysis based on 16S rRNA gene sequences revealed that the strain RB1R16 belonged to Chitinophagaceae and formed an independent linkage. The highest level of 16S rRNA gene sequence similarities were found to Lacibacter cauensis CGMCC 1.7271 (90.3 %), Flavihumibacter cheonanensis WS16 (90.1 %) and Flavihumibacter solisilvae 3-3 (90.1 %). The major fatty acids were iso-C15 : 1 G, iso-C15 : 0, summed feature 4 (comprising iso-C17 : 1 I and/or anteiso-C17 : 1 B) and iso-C17 : 0 3OH. The polar lipids contained phosphatidylethanolamine, one unidentified aminolipid and four unidentified lipids. The quinone system contained menaquinone MK-7 as the only component. The DNA G+C content was 43.1 mol%. On the basis of a polyphasic approach, a novel species of a new genus Flavipsychrobacter stenotrophus gen. nov., sp. nov. within the family Chitinophagaceae is proposed, with RB1R16 (=CGMCC 1.16126=NBRC 113112) as the type strain.

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2018-08-31
2020-11-27
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References

  1. Boetius A, Anesio AM, Deming JW, Mikucki JA, Rapp JZ. Microbial ecology of the cryosphere: sea ice and glacial habitats. Nat Rev Microbiol 2015;13:677–690 [CrossRef][PubMed]
    [Google Scholar]
  2. Liu ZX, Su Z, Yao TD, Wang WT, Shao WZ. Resource and distribution of glaciers on the Tibet plateau. Resource Science 2000;22:49–52
    [Google Scholar]
  3. Liu Q, Zhou YG, Xin YH. High diversity and distinctive community structure of bacteria on glaciers in China revealed by 454 pyrosequencing. Syst Appl Microbiol 2015;38:578–585 [CrossRef][PubMed]
    [Google Scholar]
  4. Liu Y, Vick-Majors TJ, Priscu JC, Yao T, Kang S et al. Biogeography of cryoconite bacterial communities on glaciers of the Tibetan Plateau. FEMS Microbiol Ecol 2017;93: [CrossRef][PubMed]
    [Google Scholar]
  5. Liu Q, Liu H, Wen Y, Zhou Y, Xin Y. Cryobacterium flavum sp. nov. and Cryobacterium luteum sp. nov., isolated from glacier ice. Int J Syst Evol Microbiol 2012;62:1296–1299 [CrossRef][PubMed]
    [Google Scholar]
  6. Liu Q, Liu H, Zhang J, Zhou Y, Xin Y. Cryobacterium levicorallinum sp. nov., a psychrophilic bacterium isolated from glacier ice. Int J Syst Evol Microbiol 2013;63:2819–2822 [CrossRef][PubMed]
    [Google Scholar]
  7. Liu Q, Kim SG, Liu HC, Xin YH, Zhou YG. Arcticibacter pallidicorallinus sp. nov. isolated from glacier ice. Int J Syst Evol Microbiol 2014;64:2229–2232 [CrossRef][PubMed]
    [Google Scholar]
  8. Liu Q, Liu HC, Zhang JL, Zhou YG, Xin YH. Sphingomonas psychrolutea sp. nov., a psychrotolerant bacterium isolated from glacier ice. Int J Syst Evol Microbiol 2015;65:2955–2959 [CrossRef][PubMed]
    [Google Scholar]
  9. Liu Q, Liu HC, Zhang JL, Zhou YG, Xin YH. Nocardioides glacieisoli sp. nov., isolated from a glacier. Int J Syst Evol Microbiol 2015;65:4845–4849 [CrossRef][PubMed]
    [Google Scholar]
  10. Liu Q, Liu HC, Zhang JL, Zhou YG, Xin YH. Rufibacter glacialis sp. nov., a psychrotolerant bacterium isolated from glacier soil. Int J Syst Evol Microbiol 2016;66:315–318 [CrossRef][PubMed]
    [Google Scholar]
  11. Kämpfer P, Lodders N, Falsen E. Hydrotalea flava gen. nov., sp. nov., a new member of the phylum Bacteroidetes and allocation of the genera Chitinophaga, Sediminibacterium, Lacibacter, Flavihumibacter, Flavisolibacter, Niabella, Niastella, Segetibacter, Parasegetibacter, Terrimonas, Ferruginibacter, Filimonas and Hydrotalea to the family Chitinophagaceae fam. nov. Int J Syst Evol Microbiol 2011;61:518–523 [CrossRef][PubMed]
    [Google Scholar]
  12. Parte AC. LPSN - List of prokaryotic names with standing in nomenclature (bacterio.net), 20 years on. Int J Syst Evol Microbiol 2018;68:1825–1829 [CrossRef][PubMed]
    [Google Scholar]
  13. Lane DJ. 16S/23S rRNA sequencing. In Stackebrandt E, Goodfellow M. (editors) Nucleic Acid Techniques in Bacterial Systematics Chichester: Wiley; 1991; pp.115
    [Google Scholar]
  14. Whitman WB. Genome sequences as the type material for taxonomic descriptions of prokaryotes. Syst Appl Microbiol 2015;38:217–222 [CrossRef][PubMed]
    [Google Scholar]
  15. Bankevich A, Nurk S, Antipov D, Gurevich AA, Dvorkin M et al. SPAdes: a new genome assembly algorithm and its applications to single-cell sequencing. J Comput Biol 2012;19:455–477 [CrossRef][PubMed]
    [Google Scholar]
  16. Thompson JD, Higgins DG, Gibson TJ. CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice. Nucleic Acids Res 1994;22:4673–4680 [CrossRef][PubMed]
    [Google Scholar]
  17. Tamura K, Peterson D, Peterson N, Stecher G, Nei M et al. MEGA5: molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods. Mol Biol Evol 2011;28:2731–2739 [CrossRef][PubMed]
    [Google Scholar]
  18. Kimura M. A simple method for estimating evolutionary rates of base substitutions through comparative studies of nucleotide sequences. J Mol Evol 1980;16:111–120 [CrossRef][PubMed]
    [Google Scholar]
  19. Lagesen K, Hallin P, Rødland EA, Staerfeldt HH, Rognes T et al. RNAmmer: consistent and rapid annotation of ribosomal RNA genes. Nucleic Acids Res 2007;35:3100–3108 [CrossRef][PubMed]
    [Google Scholar]
  20. Yoon SH, Ha SM, 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 [CrossRef][PubMed]
    [Google Scholar]
  21. Smibert RM, Krieg NR. Phenotypic characterization. In Gerhardt P, Murray RGE, Wood WA, Krieg NR. (editors) Methods for General and Molecular Bacteriology Washington, DC: American Society for Microbiology; 1994; pp.607–654
    [Google Scholar]
  22. Gordon RE, Barnett DA, Handerhan JE, Pang CHN. Nocardia coeliaca, Nocardia autotrophica, and the Nocardin strain. Int J Syst Bacteriol 1974;24:54–63 [CrossRef]
    [Google Scholar]
  23. Collins MD, Pirouz T, Goodfellow M, Minnikin DE. Distribution of menaquinones in actinomycetes and corynebacteria. J Gen Microbiol 1977;100:221–230 [CrossRef][PubMed]
    [Google Scholar]
  24. Minnikin DE, Patel PV, Alshamaony L, Goodfellow M. Polar lipid composition in the classification of Nocardia and related bacteria. Int J Syst Bacteriol 1977;27:104–117 [CrossRef]
    [Google Scholar]
  25. Sasser M. Identification of Bacteria by Gas Chromatography of Cellular Fatty Acids, Technical Note 101. Newark, DE: MIDI; 1990
    [Google Scholar]
  26. Zhao R, Chen XY, Li XD, Tian Y, Kong BH et al. Cnuella takakiae gen. nov., sp. nov., a member of the phylum Bacteroidetes isolated from Takakia lepidozioides. Int J Syst Evol Microbiol 2014;64:607–612 [CrossRef][PubMed]
    [Google Scholar]
  27. Qu JH, Yuan HL, Yang JS, Li HF, Chen N. Lacibacter cauensis gen. nov., sp. nov., a novel member of the phylum Bacteroidetes isolated from sediment of a eutrophic lake. Int J Syst Evol Microbiol 2009;59:1153–1157 [CrossRef][PubMed]
    [Google Scholar]
  28. Zhang NN, Qu JH, Yuan HL, Sun YM, Yang JS. Flavihumibacter petaseus gen. nov., sp. nov., isolated from soil of a subtropical rainforest. Int J Syst Evol Microbiol 2010;60:1609–1612 [CrossRef][PubMed]
    [Google Scholar]
  29. Weon HY, Yoo SH, Kim YJ, Son JA, Kim BY et al. Chitinophaga niabensis sp. nov. and Chitinophaga niastensis sp. nov., isolated from soil. Int J Syst Evol Microbiol 2009;59:1267–1271 [CrossRef][PubMed]
    [Google Scholar]
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