1887

Abstract

A Gram-stain-negative, aerobic, non-motile and rod-shaped marine bacterium, CW2-9, was isolated from algae collected from Fujian Province in PR China. 16S rRNA gene sequence analysis showed that this strain was affiliated with the genus in the family of the class and was very similar to the type strain MCCC 1A10799 (96.3 % sequence similarity). The whole genome of strain CW2-9 comprised 3 997 513 bp with a G+C content of 34.3 mol%. The average nucleotide identity value between strain CW2-9 and MCCC 1A10799 was 73.8 %. Growth was observed from 15 to 40 °C (optimum, 30 °C), at pH from pH 5.0 to 10.0 (pH 8.0) and in the presence of 0–4 % (w/v) NaCl (0–1 %). The major fatty acids (>10 % of the total) were iso-C, iso G-C, iso-C 3-OH and anteiso-C. The predominant menaquinone was MK-6. The combined phylogenetic, physiological and chemotaxonomic data indicate that strain CW2-9 represents a novel species in the genus , for which the name sp. nov. is proposed. The type strain is CW2-9 (=CICC 24749=KCTC 72389).

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2019-11-21
2019-12-11
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References

  1. Lee SD. Tamlana crocina gen. nov., sp. nov., a marine bacterium of the family Flavobacteriaceae, isolated from beach sediment in Korea. Int J Syst Evol Microbiol 2007;57: 764– 769 [CrossRef]
    [Google Scholar]
  2. Yoon JH, Kang SJ, Lee MH, Oh TK. Tamlana agarivorans sp. nov., isolated from seawater off Jeju Island in Korea. Int J Syst Evol Microbiol 2008;58: 1892– 1895 [CrossRef]
    [Google Scholar]
  3. Romanenko LA, Tanaka N, Kurilenko VV, Svetashev VI. Tamlana sedimentorum sp. nov., isolated from shallow sand sediments of the Sea of Japan. Int J Syst Evol Microbiol 2014;64: 2891– 2896 [CrossRef]
    [Google Scholar]
  4. Jung J, Bae SS, Chung D, Baek K. Tamlana carrageenivorans sp. nov., a carrageenan-degrading bacterium isolated from seawater. Int J Syst Evol Microbiol 2019;69: 1355– 1360 [CrossRef]
    [Google Scholar]
  5. Patrick FM. The use of membrane filtration and marine agar 2216E to enumerate marine heterotrophic bacteria. Aquaculture 1978;13: 369– 372 [CrossRef]
    [Google Scholar]
  6. Halebian S, Harris B, Finegold SM, Rolfe RD. Rapid method that AIDS in distinguishing gram-positive from gram-negative anaerobic bacteria. J Clin Microbiol 1981;13: 444
    [Google Scholar]
  7. Bernardet JF, Nakagawa Y, Holmes B. Proposed minimal standards for describing new taxa of the family Flavobacteriaceae and emended description of the family. Int J Syst Evol Microbiol 2002;52: 1049– 1070 [CrossRef]
    [Google Scholar]
  8. Kates M. Radioisotopic techniques in lipidology Techniques of Lipidology, 2nd ed. 1986; pp 106– 107
    [Google Scholar]
  9. Nakagawa Y, Yamasato K. Phylogenetic diversity of the genus Cytophaga revealed by 16S rRNA sequencing and menaquinone analysis. J Gen Microbiol 1993;139: 1155– 1161 [CrossRef]
    [Google Scholar]
  10. Shieh WY. Vibrio ruber sp. nov., a red, facultatively anaerobic, marine bacterium isolated from sea water. Int J Syst Evol Microbiol 2003;53: 479– 484 [CrossRef]
    [Google Scholar]
  11. 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]
    [Google Scholar]
  12. Seemann T. Prokka: rapid prokaryotic genome annotation. Bioinformatics 2014;30: 2068– 2069 [CrossRef]
    [Google Scholar]
  13. Lee I, Chalita M, Ha SM, Na SI, Yoon SH et al. ContEst16S: an algorithm that identifies contaminated prokaryotic genomes using 16S RNA gene sequences. Int J Syst Evol Microbiol 2017;67: 2053– 2057 [CrossRef]
    [Google Scholar]
  14. Chun J, Oren A, Ventosa A, Christensen H, Arahal DR et al. Proposed minimal standards for the use of genome data for the taxonomy of prokaryotes. Int J Syst Evol Microbiol 2018;68: 461– 466 [CrossRef]
    [Google Scholar]
  15. Yin Y, Mao X, Yang J, Chen X, Mao F et al. dbCAN: a web resource for automated carbohydrate-active enzyme annotation. Nucleic Acids Res 2012;40: W445– W451 [CrossRef]
    [Google Scholar]
  16. Rodriguez-R LM, Konstantinidis KT. The enveomics collection: a toolbox for specialized analyses of microbial genomes and metagenomes. PeerJ Preprints 2016;4: e1900v1
    [Google Scholar]
  17. Lin B, Lu G, Zheng Y, Xie W, Li S et al. Aquimarina agarilytica sp. nov., an agarolytic species isolated from a red alga. Int J Syst Evol Microbiol 2012;62: 869– 873 [CrossRef]
    [Google Scholar]
  18. Yoon SH, SM H, 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
    [Google Scholar]
  19. Nei M, Saitou N. The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 1987;4: 406– 425
    [Google Scholar]
  20. Felsenstein J. Evolutionary trees from DNA sequences: a maximum likelihood approach. J Mol Evol 1981;17: 368– 376 [CrossRef]
    [Google Scholar]
  21. Rzhetsky A, Nei M. Theoretical Foundation of the minimum-evolution method of phylogenetic inference. Mol Biol and Evol 1993;10: 1073– 1095
    [Google Scholar]
  22. Stecher G, Kumar S, Tamura K. MEGA7: molecular evolutionary genetics analysis version 7.0 for bigger datasets. Mol Biol Evol 2016;33: 1870– 1874
    [Google Scholar]
  23. 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]
  24. Emms DM, Kelly S. OrthoFinder2: fast and accurate phylogenomic orthology analysis from gene sequences. bioRxiv 2018; 466201
    [Google Scholar]
  25. Katoh K, Misawa K, Kuma K, Miyata T. MAFFT: a novel method for rapid multiple sequence alignment based on fast Fourier transform. Nucleic Acids Res 2002;30: 3059– 3066 [CrossRef]
    [Google Scholar]
  26. Price MN, Dehal PS, Arkin AP. FastTree: computing large minimum evolution trees with profiles instead of a distance matrix. Mol Biol Evol 2009;26: 1641– 1650 [CrossRef]
    [Google Scholar]
  27. Stackebrandt E, Ebers J. Taxonomic parameters revisited: tarnished gold standards. Microbiol Today 2006;33: 152– 155
    [Google Scholar]
  28. Stackebrandt E, Goebel BM. Taxonomic note: a place for DNA-DNA reassociation and 16S rRNA sequence analysis in the present species definition in bacteriology. Int J Syst Evol Microbiol 1994;44: 846– 849 [CrossRef]
    [Google Scholar]
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