Algoriphagus formosus sp. nov., isolated from coastal sediment

Abstract

A Gram-stain negative, facultative anaerobic, non-motile, strongly orange-pigmented and rod-shaped bacterium, designated XAY3209T, was isolated from a marine sediment sample collected from the coast of Weihai, China. Strain XAY3209T was found to grow optimally at 30 °C, at pH 7.0 and in the presence of 2.0% (w/v) NaCl. Its genomic DNA G+C content was 41.9 mol%. On the basis of 16S rRNA gene sequence similarity, the novel isolate belongs to the family Cyclobacteriaceae and is related to the genus Algoriphagus. It shares 98.1% 16S rRNA sequence identity with Algoriphagus marincola, its close phylogenetic relative, but did not show similarities more than 97% with other members of the genus Algoriphagus with validly published names. It contained menaquinone-7 (MK-7) as the sole respiratory quinone, iso-C15:0, iso-C17:1 ω9c and Summed feature 3 (C16:1 ω7c and/or iso-C15:0 2-OH) as the major fatty acids. The major polar lipids were phosphatidylethanolamine, one unidentified aminolipid, one unidentified phospholipid and five unidentified lipids. Results of physiological experiments, biochemical tests and genome average nucleotide identity value (with A. marincola MCCC 1F01203T) indicate that strain XAY3209T is genetically and phenotypically distinct from the species of the genus Algoriphagus with validly published names. Strain XAY3209T therefore represents a novel species, for which the name Algoriphagus formosus sp. nov. is proposed. The type strain is XAY3209T (= KCTC 52842T = MCCC 1H00189T).

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References

  1. Bowman JP (2000) Description of Cellulophaga algicola sp. nov., isolated from the surfaces of Antarctic algae, and reclassification of Cytophaga uliginosa (ZoBell and Upham 1944) Reichenbach 1989 as Cellulophaga uliginosa comb. nov. Int J Syst Evol Microbiol 50:1861–1868

    CAS  Article  PubMed  Google Scholar 

  2. Bowman JP, Nichols CM, Gibson JA (2003) Algoriphagus ratkowskyi gen. nov., sp. nov., Brumimicrobium glaciale gen. nov., sp. nov., Cryomorpha ignava gen. nov., sp. nov. and Crocinitomix catalasitica gen. nov., sp. nov., novel flavobacteria isolated from various polar habitats. Int J Syst Evol Microbiol 53:1343–1355

    CAS  Article  PubMed  Google Scholar 

  3. CLSI (2012) Performance standards for antimicrobial susceptibility testing; Twenty-Second Informational Supplement

  4. Cowan ST, Steel KJ (1965) Manual for the identification of medical bacteria. Cambridge University Press, London

    Google Scholar 

  5. Dong XZ, Cai MY (eds) (2001) Chapter 14 Determination of biochemical characteristics. Manual for the Systematic Identification of General Bacteria. Science Press, Beijing, pp 370–398 (in Chinese)

    Google Scholar 

  6. Du ZJ, Wang Y, Dunlap C, Rooney AP, Chen GJ (2014) Draconibacterium orientale gen. nov., sp. nov., isolated from two distinct marine environments, and proposal of Draconibacteriaceae fam. nov. Int J Syst Evol Microbiol 64:1690–1696

    CAS  Article  PubMed  Google Scholar 

  7. Felsenstein J (1985) Confidence limits on phylogenies: an approach using the bootstrap. Evolution 39:783

    Article  PubMed  Google Scholar 

  8. Han JR, Zhao JX, Wang ZJ et al (2017) Algoriphagus resistens sp. nov., isolated from marine sediment. Int J Syst Evol Microbiol 67:1275–1280

    Article  PubMed  Google Scholar 

  9. Jia X, Jia B, Kim KH, Jeon CO (2017) Algoriphagus aestuariicola sp. nov., isolated from estuary sediment. Int J Syst Evol Microbiol 67:914–919

    Article  PubMed  Google Scholar 

  10. Kohli P, Nayyar N, Sharma A, Singh AK, Lal R (2016) Algoriphagus roseus sp. nov., isolated from a hexachlorocyclohexane-contaminated dumpsite. Int J Syst Evol Microbiol 66:3558–3565

    Article  PubMed  Google Scholar 

  11. Kumar S, Stecher G, Tamura K (2016) MEGA7: molecular evolutionary genetics analysis version 7.0 for bigger datasets. Mol Biol Evol 33:msw054

    Google Scholar 

  12. Lee D-H, Kahng H-Y, Lee SB (2012) Algoriphagus jejuensis sp. nov., isolated from seawater. Int J Syst Evol Microbiol 62:409–413

    CAS  Article  PubMed  Google Scholar 

  13. Liu Y, Li H, Jiang JT, Liu YH, Song XF, Xu CJ, Liu ZP (2009) Algoriphagus aquatilis sp. nov., isolated from a freshwater lake. Int J Syst Evol Microbiol 59:1759–1763

    CAS  Article  PubMed  Google Scholar 

  14. Liu QQ, Wang Y, Li J et al (2014) Saccharicrinis carchari sp. nov., isolated from a shark, and emended descriptions of the genus Saccharicrinis and Saccharicrinis fermentans. Int J Syst Evol Microbiol 64:2204–2209

    CAS  Article  PubMed  Google Scholar 

  15. Minnikin DE, ODonnell OG, Goodfellow M, Alderson G, Athalye M, Schaal A, Parlett JH (1984) An integrated procedure for the extraction of bacterial isoprenoid quinones and polar lipids. J Microbiol Methods 2:233–241

    CAS  Article  Google Scholar 

  16. Park S, Ha MJ, Yoon SY, Jung Y-T, Yoon J-H (2016) Algoriphagus litorisediminis sp. nov., isolated from a tidal flat. Int J Syst Evol Microbiol 66:5437–5443

    Article  PubMed  Google Scholar 

  17. Qin QL, Xie BB, Zhang XY, Chen XL, Zhou BC, Zhou JZ, Oren A, Zhang YZ (2014) A proposed genus boundary for the prokaryotes based on genomic insights. J Bacteriol 196(12):2210–2215

    Article  PubMed  PubMed Central  Google Scholar 

  18. Richter M, Rosselló-Móra R (2009) Shifting the genomic gold standard for the prokaryotic species definition. Proc Natl Acad Sci USA 106:19126–19131

    CAS  Article  PubMed  PubMed Central  Google Scholar 

  19. Sasser M (1990) Identification of bacteria by gas chromatography of cellular fatty acids, MIDI Technical Note 101. MIDI Inc., Newark

    Google Scholar 

  20. Smibert RM, Krieg NR (1994) Phenotypic characterization. In: Gerhardt P, Murray RGE, Wood WA, Krieg NR (eds) Methods for general, molecular bacteriology. American Society for Microbiology, Washington, DC, pp 607–654

    Google Scholar 

  21. Tindall BJ (1990a) A comparative study of the lipid composition of Halobacterium saccharovorum from various sources. Syst Appl Microbiol 13:128–130

    CAS  Article  Google Scholar 

  22. Tindall BJ (1990b) Lipid composition of Halobacterium lacusprofundi. FEMS Microbiol Lett 66:199–202

    CAS  Article  Google Scholar 

  23. Yang C, Li Y, Guo Q, Lai Q, Zheng T, Tian Y (2013) Algoriphagus zhangzhouensis sp. nov., isolated from mangrove sediment. Int J Syst Evol Microbiol 63:1621–1626

    CAS  Article  PubMed  Google Scholar 

  24. Yoon J-H, Yeo S-H, Oh T-K (2004) Hongiella marincola sp. nov., isolated from sea water of the East Sea in Korea. Int J Syst Evol Microbiol 54:1845–1848

    CAS  Article  PubMed  Google Scholar 

  25. Yoon S-H, Ha S-M, Kwon S, Lim J, Kim Y, Hyungseok Seo H, Chun J (2017) Introducing EzBioCloud: a taxonomically united database of 16S rRNA gene sequences and whole-genome assemblies. Int J Syst Evol Microbiol 67:1613–1617

    Article  PubMed  PubMed Central  Google Scholar 

  26. Young C-C, Lin S-Y, Arun AB, Shen F-T, Chen W-M, Rekha PD, Langer S, Busse H-J, Wu Y-H, Kämpfer P (2009) Algoriphagus olei sp. nov., isolated from oil-contaminated soil. Int J Syst Evol Microbiol 59:2909–2915

    CAS  Article  PubMed  Google Scholar 

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Acknowledgements

This work was supported by the National Natural Science Foundation of China (31370057) and 2013 Shandong Provincial Second Group Projects on Resource Platforms for Marine Economic and Innovative Development Regions: Marine Microorganisms Preservation Platform (2150299).

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Correspondence to Zong-Jun Du.

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Ye, MQ., Wang, XT., Zhang, J. et al. Algoriphagus formosus sp. nov., isolated from coastal sediment. Antonie van Leeuwenhoek 111, 913–920 (2018). https://doi.org/10.1007/s10482-017-0990-8

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Keywords

  • Algoriphagus
  • 16S rRNA gene
  • Polyphasic taxonomy