1887

Abstract

An aerobic Gram-stain-negative, curved rod-shaped and non-spore-forming bacterial strain (NBU2194) was isolated from seawater collected in an intertidal zone in Ningbo, Zhejiang Province, PR China. It was motile though a single polar flagellum and grew at 20–42 °C (optimum, 30 °C), in 0–2.0 % NaCl (0 %, w/v) and at pH 5.0–9.0 (pH 6.0–7.0). The sole respiratory quinone was ubiquinone-8. The major cellular fatty acids were C, C 7 and/or C 6. The polar lipids contained diphosphatidylglycerol, phosphatidylethanolamine, phosphatidylglycerol, one unidentified phospholipid and two unidentified aminophosphoglycolipids. A phylogenetic analysis based on 16S rRNA gene sequences and 65 genomic core genes showed that strain NBU2194 formed a distinct lineage in the family . The genome of strain NBU2194 was 4 913 533 bp with a DNA G+C content of 43.9 mol% and coded 3895 genes, 12 rRNA genes and 47 tRNA genes. The average nucleotide identity, amino acid identity and digital DNA–DNA hybridization values between strain NBU2194 and related species of were below the threshold limit for prokaryotic species delineation. NBU2194 could be distinguished from other genera in the family based on phenotypic, chemotaxonomic and genomic characteristics. On the basis of the polyphasic taxonomic evidence collected in this study, strain NBU2194 is considered to represent a novel genus and species in the family , for which the name is proposed. The type strain is NBU2194 (=KCTC 82442=GDMCC 1.2217).

Funding
This study was supported by the:
  • the Li Dak Sum Yip Yio Chin Kenneth Li Marine Biopharmaceutical Development Fund of Ningbo University
    • Principle Award Recipient: NotApplicable
  • the National 111 Project of China (Award D16013)
    • Principle Award Recipient: NotApplicable
  • National Natural Science Foundation (Award 41776168)
    • Principle Award Recipient: ShanHe
  • the State Key Laboratory of Natural and Biomimetic Drugs (Award K202006)
    • Principle Award Recipient: LiweiLiu
  • Ningbo University (Award 422010882,422110473)
    • Principle Award Recipient: LiweiLiu
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/content/journal/ijsem/10.1099/ijsem.0.005160
2021-12-16
2022-01-27
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References

  1. Ivanova EP, Mikhailov VV. A new family, Alteromonadaceae fam. nov., including marine Proteobacteria of the genera Alteromonas, Pseudoalteromonas, Idiomarina, and Colwellia. Microbiology 2001; 70:10–17 [View Article]
    [Google Scholar]
  2. Parte AC, Sardà Carbasse J, Meier-Kolthoff JP, Reimer LC, Göker M et al. List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ. Int J Syst Evol Microbiol 2020; 70:5607–5612 [View Article] [PubMed]
    [Google Scholar]
  3. Zhang D, Gui J, Zheng S, Zhu X, Wu S et al. Marisediminitalea mangrovi gen. nov., sp. nov., isolated from marine mangrove sediment, and reclassification of Aestuariibacter aggregatus as Marisediminitalea aggregata comb. nov. Int J Syst Evol Microbiol 2020; 70:457–464 [View Article] [PubMed]
    [Google Scholar]
  4. Jean WD, Hsu CY, Huang S-P, Chen J-S, Lin S et al. Reclassification of [Glaciecola] lipolytica and [Aestuariibacter] litoralis in Aliiglaciecola gen. nov., as Aliiglaciecola lipolytica comb. nov. and Aliiglaciecola litoralis comb. nov., respectively. Int J Syst Evol Microbiol 2013; 63:2859–2864 [View Article] [PubMed]
    [Google Scholar]
  5. Fotedar R, Caldwell ME, Sankaranarayanan K, Al-Zeyara A, Al-Malki A et al. Ningiella ruwaisensis gen. nov., sp. nov., a member of the family Alteromonadaceae isolated from marine water of the Arabian Gulf. Int J Syst Evol Microbiol 2020; 70:4130–4138 [View Article] [PubMed]
    [Google Scholar]
  6. Sheu D-S, Sheu S-Y, Lin K-R, Chen Y-L, Chen W-M. Planctobacterium marinum gen. nov., sp. nov., a new member of the family Alteromonadaceae isolated from seawater. Int J Syst Evol Microbiol 2017; 67:974–980 [View Article] [PubMed]
    [Google Scholar]
  7. Liao H, Li Y, Guo X, Lin X, Lai Q et al. Mangrovitalea sediminis gen. nov., sp. nov., a member of the family Alteromonadaceae isolated from mangrove sediment. Int J Syst Evol Microbiol 2017; 67:5172–5178 [View Article] [PubMed]
    [Google Scholar]
  8. Zhong Z-P, Liu Y, Wang F, Zhou Y-G, Liu H-C et al. Lacimicrobium alkaliphilum gen. nov., sp. nov., a member of the family Alteromonadaceae isolated from a salt lake. Int J Syst Evol Microbiol 2016; 66:422–429 [View Article] [PubMed]
    [Google Scholar]
  9. Zhang R, Zeng Y, Wang T-Q, Wang X-M, Shi Y-Y et al. Anaerophilus nitritogenes gen. nov., sp. nov., isolated from salt lake sediment in Xinjiang Province, China. Antonie van Leeuwenhoek 2020; 113:417–425 [View Article] [PubMed]
    [Google Scholar]
  10. Meng X, Chang Y-Q, Wang H, Du Z-J. Algibacillus agarilyticus gen. nov., sp. nov., isolated from the surface of the red algae Gelidium amansii. Int J Syst Evol Microbiol 2021; 71:004558 [View Article] [PubMed]
    [Google Scholar]
  11. Mizuno CM, Kimes NE, López-Pérez M, Ausó E, Rodriguez-Valera F et al. A hybrid NRPS-PKS gene cluster related to the bleomycin family of antitumor antibiotics in Alteromonas macleodii strains. PLoS One 2013; 8:e76021 [View Article] [PubMed]
    [Google Scholar]
  12. Bollmann A, Lewis K, Epstein SS. Incubation of environmental samples in a diffusion chamber increases the diversity of recovered isolates. Appl Environ Microbiol 2007; 73:6386–6390 [View Article] [PubMed]
    [Google Scholar]
  13. Heuer H, Krsek M, Baker P, Smalla K, Wellington EM. Analysis of actinomycete communities by specific amplification of genes encoding 16S rRNA and gel-electrophoretic separation in denaturing gradients. Appl Environ Microbiol 1997; 63:3233–3241 [View Article] [PubMed]
    [Google Scholar]
  14. Kumar S, Stecher G, Tamura K. MEGA7: Molecular Evolutionary Genetics Analysis version 7.0 for bigger datasets. Mol Biol Evol 2016; 33:1870–1874 [View Article] [PubMed]
    [Google Scholar]
  15. Zhang W, Chen C, Yuan Y, Su D, Ding L et al. Pararhodobacter marinus sp. nov., a bacterium isolated from marine sediment in the East China Sea and emended description of the genus Pararhodobacter. Int J Syst Evol Microbiol 2019; 69:3293–3298 [View Article] [PubMed]
    [Google Scholar]
  16. Na S-I, Kim YO, Yoon S-H, Ha S-M, Baek I et al. UBCG: Up-to-date bacterial core gene set and pipeline for phylogenomic tree reconstruction. J Microbiol 2018; 56:280–285 [View Article] [PubMed]
    [Google Scholar]
  17. Stamatakis A. RAxML version 8: a tool for phylogenetic analysis and post-analysis of large phylogenies. Bioinformatics 2014; 30:1312–1313 [View Article] [PubMed]
    [Google Scholar]
  18. Yarza P, Yilmaz P, Pruesse E, Glöckner FO, Ludwig W et al. Uniting the classification of cultured and uncultured bacteria and archaea using 16S rRNA gene sequences. Nat Rev Microbiol 2014; 12:635–645 [View Article] [PubMed]
    [Google Scholar]
  19. Lee DW, Lee AH, Lee H, Kim J-J, Khim JS et al. Echinicola sediminis sp. nov., a marine bacterium isolated from coastal sediment. Int J Syst Evol Microbiol 2017; 67:3351–3357 [View Article] [PubMed]
    [Google Scholar]
  20. Schlegel HG, Lafferty R, Krauss I. The isolation of mutants not accumulating poly-beta-hydroxybutyric acid. Arch Mikrobiol 1970; 71:283–294 [View Article] [PubMed]
    [Google Scholar]
  21. Zhang W, Yuan Y, Su D, Ding L, Yan X et al. Saccharospirillum mangrovi sp. nov., a bacterium isolated from mangrove sediment. Int J Syst Evol Microbiol 2018; 68:2813–2818 [View Article] [PubMed]
    [Google Scholar]
  22. Sasser M. Identification of bacteria by gas chromatography of cellular fatty acids. USFCC Newsl 1990; 20:1–6
    [Google Scholar]
  23. Collins MD, Green PN. Isolation and characterization of a novel coenzyme Q from some methane-oxidizing bacteria. Biochem Biophys Res Commun 1985; 133:1125–1131 [View Article] [PubMed]
    [Google Scholar]
  24. 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]
  25. Zhang X-Q, Sun C, Wang C-S, Zhang X, Zhou X et al. Sinimarinibacterium flocculans gen. nov., sp. nov., a gammaproteobacterium from offshore surface seawater. Int J Syst Evol Microbiol 2015; 65:3541–3546 [View Article] [PubMed]
    [Google Scholar]
  26. Konstantinidis KT, Tiedje JM. Genomic insights that advance the species definition for prokaryotes. Proc Natl Acad Sci U S A 2005; 102:2567–2572 [View Article] [PubMed]
    [Google Scholar]
  27. Meier-Kolthoff JP, Auch AF, Klenk HP, Göker M. Genome sequence-based species delimitation with confidence intervals and improved distance functions. BMC Bioinformatics 2013; 14:60 [View Article] [PubMed]
    [Google Scholar]
  28. Rodriguez-R LM, Konstantinidis KT. Bypassing cultivation to identify bacterial species. Microbe Magazine 2014; 9:111–118 [View Article]
    [Google Scholar]
  29. Quevillon E, Silventoinen V, Pillai S, Harte N, Mulder N et al. InterProScan: protein domains identifier. Nucleic Acids Res 2005; 33:W116–20 [View Article] [PubMed]
    [Google Scholar]
  30. Kanehisa M, Sato Y, Morishima K. BlastKOALA and GhostKOALA: KEGG tools for functional characterization of genome and metagenome sequences. J Mol Biol 2016; 428:726–731 [View Article] [PubMed]
    [Google Scholar]
  31. Liu X, Lai Q, Du Y, Zhang X, Liu Z et al. Neptunicella marina gen. nov., sp. nov., isolated from surface seawater. Int J Syst Evol Microbiol 2018; 68:1423–1428 [View Article] [PubMed]
    [Google Scholar]
  32. Kim M, Hwang Y-J, Jung H-J, Park H, Ghim S-Y. Bowmanella dokdonensis sp. nov., a novel exoelectrogenic bacterium isolated from the seawater of Dokdo, Korea. Antonie van Leeuwenhoek 2016; 109:907–914 [View Article] [PubMed]
    [Google Scholar]
  33. Park S, Choi SJ, Park J-M, Yoon J-H. Alteromonas aestuariivivens sp. nov., isolated from a tidal flat. Int J Syst Evol Microbiol 2017; 67:2791–2797 [View Article] [PubMed]
    [Google Scholar]
  34. Shi X-L, Wu Y-H, Jin X-B, Wang C-S, Xu X-W. Alteromonas lipolytica sp. nov., a poly-beta-hydroxybutyrate-producing bacterium isolated from surface seawater. Int J Syst Evol Microbiol 2017; 67:237–242 [View Article] [PubMed]
    [Google Scholar]
  35. Sinha RK, Krishnan KP, Singh A, Thomas FA, Jain A et al. Alteromonas pelagimontana sp. nov., a marine exopolysaccharide-producing bacterium isolated from the Southwest Indian Ridge. Int J Syst Evol Microbiol 2017; 67:4032–4038 [View Article] [PubMed]
    [Google Scholar]
  36. Yi H, Bae KS, Chun J. Aestuariibacter salexigens gen. nov., sp. nov. and Aestuariibacter halophilus sp. nov., isolated from tidal flat sediment, and emended description of Alteromonas macleodii. Int J Syst Evol Microbiol 2004; 54:571–576 [View Article] [PubMed]
    [Google Scholar]
  37. Tanaka N, Romanenko LA, Frolova GM, Mikhailov VV. Aestuariibacter litoralis sp. nov., isolated from a sandy sediment of the Sea of Japan. Int J Syst Evol Microbiol 2010; 60:317–320 [View Article] [PubMed]
    [Google Scholar]
  38. Gupta V, Sharma G, Srinivas TNR, Anil Kumar P. Aliiglaciecola coringensis sp. nov., isolated from a water sample collected from mangrove forest in Coringa, Andhra Pradesh, India. Antonie van Leeuwenhoek 2014; 106:1097–1103 [View Article] [PubMed]
    [Google Scholar]
  39. Jin HM, Jeong HI, Jeon CO. Aliiglaciecola aliphaticivorans sp. nov., an aliphatic hydrocarbon-degrading bacterium, isolated from a sea-tidal flat and emended description of the genus Aliiglaciecola Jean et al. 2013. Int J Syst Evol Microbiol 2015; 65:1550–1555 [View Article] [PubMed]
    [Google Scholar]
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