1887

Abstract

Strains Sr36 and TMT4-23 were isolated from No. 1 glacier in Xinjiang Uygur Autonomous Region and Toumingmengke glacier in Gansu Province, PR China, respectively. They were Gram-stain-positive and rod-shaped micro-organisms. The optimum growth temperature of the two strains was 10–14 °C. Phylogenetic analysis showed that the two strains were related to members of the genus . The average nucleotide identity (ANI) and digital DNA–DNA hybridization (dDDH) values between strain Sr36 and its close relatives Hh15, Hh31, Hh34 and Hh8 were 81.16–87.24 and 28.0–32.5 %, respectively. The ANI and dDDH values between strain TMT4-23 and its close relative 0549 were 81.16 and 22.3 %. The polar lipids of strain Sr36 were diphosphatidylglycerol, phosphatidylglycerol, one unidentified glycolipid and three unidentified lipids. The polar lipids of strain TMT4-23 were diphosphatidylglycerol, phosphatidylglycerol, one unidentified glycolipid, one unidentified phospholipid and six unidentified lipids. The major fatty acids of strain Sr36 were anteiso-C, iso-C, anteiso-C and anteiso-C. The major fatty acids of strain TMT4-23 were anteiso-C, anteiso-C, iso-C, anteiso-C and iso-C. Both strains contained 2,4-diaminobutyric acid and their predominant menaquinone was MK-10. On the basis of the phenotypic, phylogenetic and genotypic data, two novel species sp. nov. (type strain = Sr36=CGMCC 1.9275=NBRC 113797) and sp. nov. (type strain =TMT4-23=CGMCC 1.9556=NBRC 113800) are proposed.

Funding
This study was supported by the:
  • Yu-Hua Xin , National Natural Science Foundation of China , (Award 31670003)
  • Qing Liu , National Natural Science Foundation of China , (Award 31600007)
Loading

Article metrics loading...

/content/journal/ijsem/10.1099/ijsem.0.003994
2020-02-25
2020-06-02
Loading full text...

Full text loading...

/deliver/fulltext/ijsem/70/3/1918.html?itemId=/content/journal/ijsem/10.1099/ijsem.0.003994&mimeType=html&fmt=ahah

References

  1. Suzuki K, Sasaki J, Uramoto M, Nakase T, Komagata K. Cryobacterium psychrophilum gen. nov., sp. nov., nom. rev., comb. nov., an obligately psychrophilic actinomycete to accommodate "Curtobacterium psychrophilum" Inoue and Komagata 1976. Int J Syst Bacteriol 1997; 47:474–478 [CrossRef]
    [Google Scholar]
  2. Liu Q, Zhou YG. Cryobacterium . In Whitman WB, Rainey F. (editors) Bergey's Manual of Systematics of Archaea and Bacteria New York: John Wiley and Sons; 2018
    [Google Scholar]
  3. Liu Q, Liu H-C, Zhou Y-G, Xin Y-H. Genetic diversity of glacier-inhabiting Cryobacterium bacteria in China and description of Cryobacterium zongtaii sp. nov. and Arthrobacter glacialis sp. nov. Syst Appl Microbiol 2019; 42:168–177 [CrossRef]
    [Google Scholar]
  4. 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]
    [Google Scholar]
  5. Liu Q, Xin Y-H, Chen X-L, Liu H-C, Zhou Y-G et al. Cryobacterium aureum sp. nov., a psychrophilic bacterium isolated from glacier ice collected from the ice tongue surface. Int J Syst Evol Microbiol 2018; 68:1173–1176 [CrossRef]
    [Google Scholar]
  6. Liu Q, Liu H, Zhang J, Zhou Y, Xin Y et al. Cryobacterium levicorallinum sp. nov., a psychrophilic bacterium isolated from glacier ice. Int J Syst Evol Microbiol 2013; 63:2819–2822 [CrossRef]
    [Google Scholar]
  7. Lane DJ. 16S/23S rRNA sequencing. In Stackebrandt E, Goodfellow M. (editors) Nucleic Acid Techniques in Bacterial Systematics New York: John Wiley and Sons; 1991 pp 115–175
    [Google Scholar]
  8. 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 [CrossRef]
    [Google Scholar]
  9. 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]
    [Google Scholar]
  10. Saitou N, Nei M. The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 1987; 4:406–425
    [Google Scholar]
  11. Felsenstein J. Evolutionary trees from DNA sequences: a maximum likelihood approach. J Mol Evol 1981; 17:368–376 [CrossRef]
    [Google Scholar]
  12. Fitch WM. Toward defining the course of evolution: minimum change for a specific tree topology. Syst Zool 1971; 20:406–416 [CrossRef]
    [Google Scholar]
  13. 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]
    [Google Scholar]
  14. Felsenstein J. Confidence limits on phylogenies: an approach using the bootstrap. Evolution 1985; 39:783–791 [CrossRef]
    [Google Scholar]
  15. Luo R, Liu B, Xie Y, Li Z, Huang W et al. SOAPdenovo2: an empirically improved memory-efficient short-read de novo assembler. Gigascience 2012; 1:18 [CrossRef]
    [Google Scholar]
  16. SI N, Kim YO, Yoon SH, SM H, Baek I et al. UBCG: up-to-date bacterial core gene set and pipeline for phylogenomic tree reconstruction. J Microbiol 2018; 56:280–285
    [Google Scholar]
  17. Jain C, Rodriguez-R LM, Phillippy AM, Konstantinidis KT, Aluru S. High throughput ani analysis of 90K prokaryotic genomes reveals clear species boundaries. Nat Commun 2018; 9:5114 [CrossRef]
    [Google Scholar]
  18. 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 [CrossRef]
    [Google Scholar]
  19. Brettin T, Davis JJ, Disz T, Edwards RA, Gerdes S et al. RASTtk: a modular and extensible implementation of the RAST algorithm for building custom annotation pipelines and annotating batches of genomes. Sci Rep 2015; 5:8365 [CrossRef]
    [Google Scholar]
  20. Kim M, Oh H-S, Park S-C, 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 [CrossRef]
    [Google Scholar]
  21. Richter M, Rosselló-Móra R. Shifting the genomic gold standard for the prokaryotic species definition. Proc Natl Acad Sci U S A 2009; 106:19126–19131 [CrossRef]
    [Google Scholar]
  22. Wayne LG, Brenner DJ, Colwell RR, Grimont PAD, Kandler O et al. International Committee on systematic bacteriology. Report of the AD hoc Committee on reconciliation of approaches to bacterial Systematics. Int J Syst Bacteriol 1987; 37:463–464
    [Google Scholar]
  23. 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]
  24. Komagata K, Suzuki K. 4 lipid and cell-wall analysis in bacterial Systematics. Methods Microbiol 1988161–207
    [Google Scholar]
  25. Collins MD. Isoprenoid quinone analyses in bacterial classification and identification. In Goodfellow M, Minnikin DE. (editors) Chemical Methods in Bacterial Systematics London: Academic Press; 1985 pp 267–284
    [Google Scholar]
  26. Schumann P. 5 - Peptidoglycan Structure. In Rainey F, Oren A. (editors) Methods in Microbiology Academic Press; 2011 pp 101–129
    [Google Scholar]
  27. Sasser M. Identification of Bacteria by Gas Chromatography of Cellular Fatty Acids, Technical Note 101. Newark, DE: MIDI; 1990
    [Google Scholar]
http://instance.metastore.ingenta.com/content/journal/ijsem/10.1099/ijsem.0.003994
Loading
/content/journal/ijsem/10.1099/ijsem.0.003994
Loading

Data & Media loading...

Supplements

Supplementary material 1

PDF

Most cited this month Most Cited RSS feed

This is a required field
Please enter a valid email address
Approval was a Success
Invalid data
An Error Occurred
Approval was partially successful, following selected items could not be processed due to error