1887

INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY logo

Volume 67, Issue 5

gen. nov., sp. nov., a novel alphaproteobacterium isolated from seawater Free

Abstract

A Gram-stain-negative, aerobic, non-spore-forming, non-motile, oval to rod-shaped, prosthecate bacterium, designated strain WM6, was isolated from a seawater sample collected from the South China Sea at a depth of 150 m and subjected to a polyphasic taxonomic investigation. Cells of strain WM6 were approximately 0.5–0.6 µm in width and 0.8–1.2 µm in length, and colonies were smooth, circular, convex and whitish yellow. Strain WM6 was found to grow at 10–45 °C (optimum, 30 °C), at pH 6.5–9.0 (optimum, pH 7.5–8.5) and with 1–6 % (w/v) NaCl (optimum, 1–2 %). Chemotaxonomic analysis showed the predominant respiratory quinone and the major fatty acid of strains WM6 were ubiquinone-10 and Cω7, respectively. The polar lipids of strain WM6 were phosphatidylglycerol, glucuronopyranosyldiglyceride, monoglycosyldiglyceride, sulfo-quinovosyl diacylglycerol, seven unknown glycolipids and two unknown lipids. The DNA G+C content of strain WM6 was determined to be 59.8 mol% by HPLC. 16S rRNA gene sequence similarities showed that strain WM6 was related most closely to the genus with a similarity range from 92.3 to 93.8 %. Phylogenetic trees reconstructed with the neighbour-joining and maximum-likelihood methods using and maximum-likelihood methods using showed that strain WM6 constituted a separated branch in the family . Differential phenotypic properties, together with phylogenetic distinctiveness, demonstrated that strain WM6 is clearly distinct from any validly published genus. On the basis of these features, strain WM6 represents a novel species of a new genus with the name gen. nov., sp. nov. The type strain of is WM6 (=MCCC 1K03222=KCTC 52487).

  • Received:
  • Accepted:
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Keyword(s): Hyphobacterium vulgare , Hyphomonadaceae , prosthecate , Taxonomy and the South China Sea
© 2017 IUMS
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2017-05-01
2024-04-23
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References

  1. Lee KB, Liu CT, Anzai Y, Kim H, Aono T et al. The hierarchical system of the 'Alphaproteobacteria': description of Hyphomonadaceae fam. nov., Xanthobacteraceae fam. nov. and Erythrobacteraceae fam. nov. Int J Syst Evol Microbiol 2005; 55:1907–1919 [View Article][PubMed]
     [Google Scholar]
  2. Parte AC. LPSN-list of prokaryotic names with standing in nomenclature. Nucleic Acids Res 2014; 42:D613–D616 [View Article][PubMed]
     [Google Scholar]
  3. Kang HS, Lee SD. Ponticaulis koreensis gen. nov., sp. nov., a new member of the family Hyphomonadaceae isolated from seawater. Int J Syst Evol Microbiol 2009; 59:2951–2955 [View Article][PubMed]
     [Google Scholar]
  4. Pongratz E. [Pedicled bacteria isolated from sinusal pus]. Schweiz Z Pathol Bakteriol 1957; 20:593–608[PubMed]
     [Google Scholar]
  5. Moore RL, Weiner RM, Gebers R. Notes: genus Hyphomonas Pongratz 1957 nom. rev. emend., Hyphomonas polymorpha Pongratz 1957 nom. rev. emend., and Hyphomonas neptunium (Leifson 1964) comb. nov. emend. (Hyphomicrobium neptunium). Int J Syst Bacteriol 1984; 34:71–73 [View Article]
     [Google Scholar]
  6. Weiner RM, Melick M, O'Neill K, Quintero E. Hyphomonas adhaerens sp. nov., Hyphomonas johnsonii sp. nov. and Hyphomonas rosenbergii sp. nov., marine budding and prosthecate bacteria. Int J Syst Evol Microbiol 2000; 50:459–469 [View Article][PubMed]
     [Google Scholar]
  7. Li C, Lai Q, Li G, Sun F, Shao Z. Hyphomonas atlanticus sp. nov., isolated from the Atlantic Ocean and emended description of the genus Hyphomonas. Syst Appl Microbiol 2014; 37:423–428 [View Article][PubMed]
     [Google Scholar]
  8. Abraham WR, Strömpl C, Meyer H, Lindholst S, Moore ER et al. Phylogeny and polyphasic taxonomy of Caulobacter species. Proposal of Maricaulis gen. nov. with Maricaulis maris (Poindexter) comb. nov. as the type species, and emended description of the genera Brevundimonas and Caulobacter. Int J Syst Bacteriol 1999; 49:1053–1073 [View Article][PubMed]
     [Google Scholar]
  9. Poindexter JS. Biological properties and classification of the Caulobacter group. Bacteriol Rev 1964; 28:231–295[PubMed]
     [Google Scholar]
  10. Williams ST, Davies FL. Use of antibiotics for selective isolation and enumeration of actinomycetes in soil. J Gen Microbiol 1965; 38:251–261 [View Article][PubMed]
     [Google Scholar]
  11. Dong X-Z, Cai M-Y. Determinative Manual for Routine Bacteriology Beijing: Scientific Press (English translation); 2001
     [Google Scholar]
  12. Sun C, Huo YY, Liu JJ, Pan J, Qi YZ et al. Thalassomonas eurytherma sp. nov., a marine proteobacterium. Int J Syst Evol Microbiol 2014; 64:2079–2083 [View Article][PubMed]
     [Google Scholar]
  13. Sun C, Pan J, Zhang XQ, Su Y, Wu M. Pseudoroseovarius zhejiangensis gen. nov., sp. nov., a novel alpha-proteobacterium isolated from the chemical wastewater, and reclassification of Roseovarius crassostreae as Pseudoroseovarius crassostreae comb. nov., Roseovarius sediminilitoris as Pseudoroseovarius sediminilitoris comb. nov. and Roseovarius halocynthiae as Pseudoroseovarius halocynthiae comb. nov. Antonie Van Leeuwenhoek 2015; 108:291–299 [View Article][PubMed]
     [Google Scholar]
  14. Wu XY, Zheng G, Zhang WW, Xu XW, Wu M et al. Amphibacillus jilinensis sp. nov., a Facultatively Anaerobic, Alkaliphilic Bacillus from a soda lake. Int J Syst Evol Microbiol 2010; 60:2540–2543 [View Article][PubMed]
     [Google Scholar]
  15. Leifson E. Determination of carbohydrate metabolism of marine bacteria. J Bacteriol 1963; 85:1183–1184[PubMed]
     [Google Scholar]
  16. 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]
  17. Komagata K, Suzuki K. Lipids and cell-wall analysis in bacterial systematics. Methods Microbiol 1987; 19:161–207 [CrossRef]
     [Google Scholar]
  18. Sun C, Fu GY, Zhang CY, Hu J, Xu L et al. Isolation and complete genome sequence of Algibacter alginolytica sp. nov., a novel seaweed-degrading bacteroidetes bacterium with diverse putative polysaccharide utilization loci. Appl Environ Microbiol 2016; 82:2975–2987 [View Article][PubMed]
     [Google Scholar]
  19. Xu XW, Wu YH, Zhou Z, Wang CS, Zhou YG et al. Halomonas saccharevitans sp. nov., Halomonas arcis sp. nov. and Halomonas subterranea sp. nov., halophilic bacteria isolated from hypersaline environments of China. Int J Syst Evol Microbiol 2007; 57:1619–1624 [View Article][PubMed]
     [Google Scholar]
  20. Kim OS, Cho YJ, Lee K, Yoon SH, Kim M et al. Introducing EzTaxon-e: a prokaryotic 16S rRNA gene sequence database with phylotypes that represent uncultured species. Int J Syst Evol Microbiol 2012; 62:716–721 [View Article][PubMed]
     [Google Scholar]
  21. Saitou N, Nei M. The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 1987; 4:406–425[PubMed]
     [Google Scholar]
  22. Felsenstein J. Evolutionary trees from DNA sequences: a maximum likelihood approach. J Mol Evol 1981; 17:368–376 [View Article][PubMed]
     [Google Scholar]
  23. 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 [View Article][PubMed]
     [Google Scholar]
  24. 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 [View Article][PubMed]
     [Google Scholar]
  25. Pruesse E, Peplies J, Glöckner FO. SINA: accurate high-throughput multiple sequence alignment of ribosomal RNA genes. Bioinformatics 2012; 28:1823–1829 [View Article][PubMed]
     [Google Scholar]
  26. Ludwig W, Strunk O, Westram R, Richter L, Meier H et al. ARB: a software environment for sequence data. Nucleic Acids Res 2004; 32:1363–1371 [View Article][PubMed]
     [Google Scholar]
  27. Mesbah M, Whitman WB. Measurement of deoxyguanosine/thymidine ratios in complex mixtures by high-performance liquid chromatography for determination of the mole percentage guanine + cytosine of DNA. J Chromatogr 1989; 479:297–306 [View Article][PubMed]
     [Google Scholar]
  28. Li C, Lai Q, Li G, Dong C, Wang J et al. Hyphomonas beringensis sp. nov. and Hyphomonas chukchiensis sp. nov., isolated from surface seawater of the Bering sea and Chukchi sea. Antonie van Leeuwenhoek 2014; 106:657–665 [View Article][PubMed]
     [Google Scholar]
  29. Weiner RM, Devine RA, Powell DM, Dagasan L, Moore RL. Hyphomonas oceanitis sp. nov., Hyphomonas hirschiana sp. nov., and Hyphomonas jannaschiana sp. nov. Int J Syst Bacteriol 1985; 35:237–243 [View Article]
     [Google Scholar]
  30. Abraham WR, Strömpl C, Bennasar A, Vancanneyt M, Snauwaert C et al. Phylogeny of Maricaulis Abraham et al. 1999 and proposal of Maricaulis virginensis sp. nov., M. parjimensis sp. nov., M. washingtonensis sp. nov. and M. salignorans sp. nov. Int J Syst Evol Microbiol 2002; 52:2191–2201 [View Article][PubMed]
     [Google Scholar]
  31. Fukui Y, Kobayashi M, Saito H, Oikawa H, Yano Y et al. Algimonas ampicilliniresistens sp. nov., isolated from the red alga Porphyra yezoensis, and emended description of the genus Algimonas. Int J Syst Evol Microbiol 2013; 63:4407–4412 [View Article][PubMed]
     [Google Scholar]
  32. Fukui Y, Abe M, Kobayashi M, Saito H, Oikawa H et al. Algimonas porphyrae gen. nov., sp. nov., a member of the family Hyphomonadaceae, isolated from the red alga Porphyra yezoensis. Int J Syst Evol Microbiol 2013; 63:314–320 [View Article][PubMed]
     [Google Scholar]
  33. Liu C, Zhang XY, Song XY, Su HN, Qin QL et al. Algimonas arctica sp. nov., isolated from intertidal sand, and emended description of the genus Algimonas. Int J Syst Evol Microbiol 2015; 65:3256–3261 [View Article][PubMed]
     [Google Scholar]
  34. Abraham WR, Lünsdorf H, Vancanneyt M, Smit J. Cauliform bacteria lacking phospholipids from an abyssal hydrothermal vent: proposal of Glycocaulis abyssi gen. nov., sp. nov., belonging to the family Hyphomonadaceae. Int J Syst Evol Microbiol 2013; 63:2207–2215 [View Article][PubMed]
     [Google Scholar]
  35. Geng S, Pan XC, Mei R, Wang YN, Liu XY et al. Glycocaulis alkaliphilus sp. nov., a dimorphic prosthecate bacterium isolated from crude oil. Int J Syst Evol Microbiol 2015; 65:838–844 [View Article][PubMed]
     [Google Scholar]
  36. Lv XL, Xie BS, Cai M, Geng S, Tang YQ et al. Glycocaulis albus sp. nov., a moderately halophilic dimorphic prosthecate bacterium isolated from petroleum-contaminated saline soil. Int J Syst Evol Microbiol 2014; 64:3181–3187 [View Article][PubMed]
     [Google Scholar]
  37. Alain K, Tindall BJ, Intertaglia L, Catala P, Lebaron P. Hellea balneolensis gen. nov., sp. nov., a prosthecate alphaproteobacterium from the Mediterranean sea. Int J Syst Evol Microbiol 2008; 58:2511–2519 [View Article][PubMed]
     [Google Scholar]
  38. Lai Q, Yuan J, Shao Z. Maribaculum marinum gen. nov., sp. nov., isolated from deep seawater. Int J Syst Evol Microbiol 2009; 59:3083–3087 [View Article][PubMed]
     [Google Scholar]
  39. Lee SH, Shim JK, Kim JM, Choi HK, Jeon CO. Henriciella litoralis sp. nov., isolated from a tidal flat, transfer of Maribaculum marinum Lai et al. 2009 to the genus Henriciella as Henriciella aquimarina nom. nov. and emended description of the genus Henriciella. Int J Syst Evol Microbiol 2011; 61:722–727 [View Article][PubMed]
     [Google Scholar]
  40. Quan ZX, Zeng DN, Xiao YP, Roh SW, Nam YD et al. Henriciella marina gen. nov., sp. nov., a novel member of the family Hyphomonadaceae isolated from the East sea. J Microbiol 2009; 47:156–161 [View Article][PubMed]
     [Google Scholar]
  41. Kang HS, Lee SD. Hirschia maritima sp. nov., isolated from seawater. Int J Syst Evol Microbiol 2009; 59:2264–2268 [View Article][PubMed]
     [Google Scholar]
  42. Park S, Yoon JH. Hirschia litorea sp. nov., isolated from seashore sediment, and emended description of the genus Hirschia. Int J Syst Evol Microbiol 2013; 63:1684–1689 [View Article][PubMed]
     [Google Scholar]
  43. Schlesner H, Bartels C, Sittig M, Dorsch M, Stackebrandt E. Taxonomic and phylogenetic studies on a new taxon of budding, hyphal proteobacteria, Hirschia baltica gen. nov., sp. nov. Int J Syst Bacteriol 1990; 40:443–451 [View Article][PubMed]
     [Google Scholar]
  44. Jung JY, Kim JM, Jin HM, Kim SY, Park W et al. Litorimonas taeanensis gen. nov., sp. nov., isolated from a sandy beach. Int J Syst Evol Microbiol 2011; 61:1534–1538 [View Article][PubMed]
     [Google Scholar]
  45. Nedashkovskaya OI, Kukhlevskiy AD, Zhukova NV, Kim SJ, Rhee SK. Litorimonas cladophorae sp. nov., a new alphaproteobacterium isolated from the pacific green alga Cladophora stimpsoni, and emended descriptions of the genus Litorimonas and Litorimonas taeaensis. Antonie van Leeuwenhoek 2013; 103:1263–1269 [View Article][PubMed]
     [Google Scholar]
  46. Zhang XY, Li GW, Wang CS, Zhang YJ, Xu XW et al. Marinicauda pacifica gen. nov., sp. nov., a prosthecate alphaproteobacterium of the family Hyphomonadaceae isolated from deep seawater. Int J Syst Evol Microbiol 2013; 63:2248–2253 [View Article][PubMed]
     [Google Scholar]
  47. Chen MH, Sheu SY, Chen CA, Wang JT, Chen WM. Oceanicaulis stylophorae sp. nov., isolated from the reef-building coral Stylophora pistillata. Int J Syst Evol Microbiol 2012; 62:2241–2246 [View Article][PubMed]
     [Google Scholar]
  48. Strömpl C, Hold GL, Lünsdorf H, Graham J, Gallacher S et al. Oceanicaulis alexandrii gen. nov., sp. nov., a novel stalked bacterium isolated from a culture of the Dinoflagellate Alexandrium tamarense (Lebour) Balech. Int J Syst Evol Microbiol 2003; 53:1901–1906 [View Article][PubMed]
     [Google Scholar]
  49. Lee K, Lee HK, Choi TH, Cho JC. Robiginitomaculum antarcticum gen. nov., sp. nov., a member of the family Hyphomonadaceae, from Antarctic seawater. Int J Syst Evol Microbiol 2007; 57:2595–2599 [View Article][PubMed]
     [Google Scholar]
  50. Abraham WR, Strömpl C, Vancanneyt M, Bennasar A, Swings J et al. Woodsholea maritima gen. nov., sp. nov., a marine bacterium with a low diversity of polar lipids. Int J Syst Evol Microbiol 2004; 54:1227–1234 [View Article][PubMed]
     [Google Scholar]
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Hyphobacterium vulgare gen. nov., sp. nov., a novel alphaproteobacterium isolated from seawater
Int J Syst Evol Microbiol 67, 1169 (2017); https://doi.org/10.1099/ijsem.0.001780
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