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Erythrobacter alti sp. nov., a marine alphaproteobacterium isolated from seawater

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Abstract

A polyphasic taxonomic study was performed on strain KMU-34T, which was isolated from seawater in the Republic of Korea. The bacterial cells were Gram-stain-negative, strictly aerobic, chemoheterotrophic, yellow-pigmented and rod-shaped. Phylogenetic analysis based on the 16S rRNA gene sequence indicated that the novel marine strain was affiliated with the family Erythrobacteraceae of the class Alphaproteobacteria and that it showed highest sequence similarity (98.6%) to Erythrobacter atlanticus s21-N3T. The DNA–DNA relatedness values between strains KMU-34T and E. atlanticus KCTC 42697T were 8.6 ± 1.2%. The DNA G + C content of strain KMU-34T was determined to be 60.4 mol%. Ubiquinone 10 (Q-10) was the sole respiratory quinone. The predominant cellular fatty acids were C18:1 ω7c (43.8%) and C16:1 ω7c (16.8%). Strain KMU-34T had phosphatidylethanolamine, phosphatidylglycerol, phosphatidylcholine, a sphingoglycolipid, an unidentified phospholipid and two unidentified lipids as polar lipids. From the distinct phylogenetic position and combination of genotypic and phenotypic characteristics, the strain is considered to represent a novel species of the genus Erythrobacter for which the name Erythrobacter alti sp. nov. is proposed. The type strain of E. alti sp. nov. is KMU-34T (= KCCM 90261T = NBRC 111903T).

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References

  • Collins MD, Jones D (1981) A note on the separation of natural mixtures of bacterial ubiquinones using reverse-phase partition thin-layer chromatography and high performance liquid chromatography. J Appl Bacteriol 51:129–134

    Article  CAS  PubMed  Google Scholar 

  • Denner EBM, Vybiral D, Koblízek M, Kämpfer P, Busse HJ, Velimirov B (2002) Erythrobacter citreus sp. nov., a yellow-pigmented bacterium that lacks bacteriochlorophyll a, isolated from the western Mediterranean Sea. Int J Syst Evol Microbiol 52:1655–1661

    CAS  PubMed  Google Scholar 

  • Felsenstein J (1985) Confidence limits on phylogenies: an approach using the bootstrap. Evolution 39:783–791

    Article  PubMed  Google Scholar 

  • Fitch WM (1971) Towards defining the course of evolution: minimum change for a specific tree topology. Syst Zool 20:406–416

    Article  Google Scholar 

  • Fuerst JA, Hawkins JA, Holmes A, Sly LI, Moore CJ, Stackebrandt E (1993) Porphyrobacter neustonensis gen. nov., sp. nov., an aerobic bacteriochlorophyll-synthesizing budding bacterium from fresh water. Int J Syst Bacteriol 43:125–134

    Article  CAS  PubMed  Google Scholar 

  • Garrity GM, Brenner DJ, Krieg NR, Staley JT (2005) Bergey’s manual of systematic bacteriology, vol 2, 2nd edn. Springer, New York

    Google Scholar 

  • Giovannoni SJ, Rappé M (2000) Evolution, diversity, and molecular ecology of marine procaryotes. In: Kirchman DL (ed) In microbial ecology of the oceans. Wiley, New York, pp 47–84

    Google Scholar 

  • Hansen GH, Sørheim R (1991) Improved method for phenotypical characterization of marine bacteria. J Microbiol Methods 13:231–241

    Article  Google Scholar 

  • Ivanova EP, Bowman JP, Lysenko AM, Zhukova NV, Gorshkova NM, Kuznetsova TA, Kalinovskaya NI, Shevchenko LS, Mikhailov VV (2005) Erythrobacter vulgaris sp. nov., a novel organism isolated from the marine invertebrates. Syst Appl Microbiol 28:123–130

    Article  CAS  PubMed  Google Scholar 

  • Jung YT, Park S, Oh TK, Yoon JH (2012) Erythrobacter marinus sp. nov., isolated from seawater. Int J Syst Evol Microbiol 62:2050–2055

    Article  CAS  PubMed  Google Scholar 

  • Jung YT, Park S, Lee JS, Yoon JH (2014) Erythrobacter lutimaris sp. nov., isolated from a tidal flat sediment. Int J Syst Evol Microbiol 64:4184–4190

    Article  PubMed  Google Scholar 

  • Kimura M (1980) A simple method for estimating evolutionary rates of base substitutions through the comparative studies of sequence evolution. J Mol Evol 16:111–120

    Article  CAS  PubMed  Google Scholar 

  • Komagata K, Suzuki K (1987) Lipid and cell-wall analysis in bacterial systematics. Methods Microbiol 19:161–207

    Article  CAS  Google Scholar 

  • Kwon KK, Woo JH, Yang SH, Kang JH, Kang SG, Kim SJ, Sato T, Kato C et al (2007) Altererythrobacter epoxidivorans gen. nov., sp. nov., an epoxide hydrolase-active, mesophilic marine bacterium isolated from cold-seep sediment, and reclassification of Erythrobacter luteolus Yoon et al. 2005 as Altererythrobacter luteolus comb. nov. Int J Syst Evol Microbiol 57:2207–2211

    Article  CAS  PubMed  Google Scholar 

  • Lee KB, Liu CT, Anzai Y, Kim H, Aono T, Oyaizu H (2005) The hierarchical system of the ‘Alphaproteobacteria’: description of Hyphomonadaceae fam. nov., Xanthobacteraceae fam. nov. and Erythrobacteraceae fam. nov. Int J Syst Evol Microbiol 55:1907–1919

    Article  CAS  PubMed  Google Scholar 

  • Lee YS, Lee DH, Kahng HY, Kim EM, Jung JS (2010) Erythrobacter gangjinensis sp. nov., a marine bacterium isolated from seawater. Int J Syst Evol Microbiol 60:1413–1417

    Article  CAS  PubMed  Google Scholar 

  • Lei X, Zhang H, Chen Y, Li Y, Chen Z, Lai Q, Zhang J, Zheng W, Xu H, Zheng T (2015) Erythrobacter luteus sp. nov., isolated from mangrove sediment. Int J Syst Evol Microbiol 65:2472–2478

    Article  CAS  PubMed  Google Scholar 

  • Lewin RA, Lounsbery DM (1969) Isolation, cultivation and characterization of flexibacteria. J Gen Microbiol 58:145–170

    Article  CAS  PubMed  Google Scholar 

  • Mesbah M, Premachandran U, Whitman WB (1989) Precise measurement of the G + C content of deoxyribonucleic acid by high-performance liquid chromatography. Int J Syst Bacteriol 39:159–167

    Article  CAS  Google Scholar 

  • Minnikin DE, O’Donnell AG, Goodfellow M, Alderson G, Athalye M, Schaal A, Parlett JH (1984) An integrated procedure for the extraction of bacterial isoprenoid quinines and polar lipids. J Microbiol Methods 2:233–241

    Article  CAS  Google Scholar 

  • Power DA, Johnson JA (2009) Difco™ and BBL™ manual: manual of microbiological culture media, 2nd edn. Becton Dickinson and Company, Sparks, pp 359–360

    Google Scholar 

  • Saitou N, Nei M (1987) The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 4:406–425

    CAS  PubMed  Google Scholar 

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

    Google Scholar 

  • Shiba T, Simidu U (1982) Erythrobacter longus gen. nov., sp. nov., an aerobic bacterium which contains bacteriochlorophyll a. Int J Syst Evol Microbiol 32:211–217

    Google Scholar 

  • Stackebrandt E, Goebel BM (1994) Taxonomic note: a place for DNA–DNA reassociation and 16S rRNA sequence analysis in the present species definition in bacteriology. Int J Syst Bacteriol 44:846–849

    Article  CAS  Google Scholar 

  • Stackebrandt E, Murray RGE, Trüper HG (1988) Proteobacteria classis nov., a name for the phylogenetic taxon that includes the ‘‘purple bacteria and their relatives’’. Int J Syst Bacteriol 38:321–325

    Article  Google Scholar 

  • Subhash Y, Tushar L, Sasikala Ch, Ramana CV (2013) Erythrobacter odishensis sp. nov. and Pontibacter odishensis sp. nov. isolated from dry soil of a solar saltern. Int J Syst Evol Microbiol 63:4524–4532

    Article  CAS  PubMed  Google Scholar 

  • Suzuki K, Kaneko T, Komagata K (1981) Deoxyribonucleic acid homologies among coryneform bacteria. Int J Syst Bacteriol 31:131–138

    Article  Google Scholar 

  • Tamura K, Peterson D, Petersen N, Stecher G, Nei M, Kumar S (2011) MEGA5: molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods. Mol Biol Evol 28:2731–2739

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  • Thompson JD, Gibson TJ, Plewniak F, Jeanmougin F, Higgins DG (1997) The CLUSTAL_X windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools. Nucl Acids Res 25:4876–4882

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  • Weisburg WG, Barns SM, Pelletier DA, Lane DJ (1991) 16S ribosomal DNA amplification for phylogenetic study. J Bacteriol 173:697–703

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  • Worliczek HL, Kämpfer P, Rosengarten R, Tindall RBJ, Busse HJ (2007) Polar lipid and fatty acid profiles-re-vitalizing old approaches as a modern tool for the classification of mycoplasmas? Syst Appl Microbiol 30:355–370

    Article  CAS  PubMed  Google Scholar 

  • Xu XW, Wu YH, Wang CS, Wang XG, Oren A, Wu M (2009) Croceicoccus marinus gen. nov., sp. nov., a yellow-pigmented bacterium from deep-sea sediment, and emended description of the family Erythrobacteraceae. Int J Syst Evol Microbiol 59:2247–2253

    Article  CAS  PubMed  Google Scholar 

  • Xu M, Xin Y, Yu Y, Zhang J, Zhou Y, Liu H, Tian J, Li Y (2010) Erythrobacter nanhaisediminis sp. nov., isolated from marine sediment of the South China Sea. Int J Syst Evol Microbiol 60:2215–2220

    Article  CAS  PubMed  Google Scholar 

  • Yoon JH, Kang KH, Oh TK, Park YH (2004) Erythrobacter aquimaris sp. nov., isolated from sea water of a tidal flat of the Yellow Sea in Korea. Int J Syst Evol Microbiol 54:1981–1985

    Article  CAS  PubMed  Google Scholar 

  • Yoon BJ, Lee DH, Oh DC (2013) Erythrobacter jejuensis sp. nov., isolated from seawater. Int J Syst Evol Microbiol 63:1421–1426

    Article  PubMed  Google Scholar 

  • Yoon J, Lee KC, Lee JS (2016) Cribrihabitans pelagius sp. nov., a marine alphaproteobacterium isolated from seawater. Int J Syst Evol Microbiol 66:3195–3200

    Article  PubMed  Google Scholar 

  • Yoon SH, Ha SM, Kwon S, Lim J, Kim Y, Seo H, Chun J (2017) Introducing EzBioCloud: a taxonomically united database of 16S rRNA and whole genome assemblies. Int J Syst Evol Microbiol. doi:10.1099/ijsem.0.001755

    Google Scholar 

  • Yurkov V, Stackebrandt E, Holmes A, Fuerst JA, Hugenholtz P, Golecki J, Gad’on N, Gorlenko VM, Kompantseva EI, Drews G (1994) Phylogenetic positions of novel aerobic, bacteriochlorophyll a-containing bacteria and description of Roseococcus thiosulfatophilus gen. nov., sp. nov., Erythromicrobium ramosum gen. nov., sp. nov., and Erythrobacter litoralis sp. nov. Int J Syst Bacteriol 44:427–434

    Article  CAS  PubMed  Google Scholar 

Download references

Acknowledgments

This research was supported by the Bisa Research Grant of Keimyung University in 2016.

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Correspondence to Jaewoo Yoon.

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Communicated by Erko Stackebrandt.

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203_2017_1384_MOESM1_ESM.pptx

Supplementary Fig. 1. Transmission electron micrograph of a negatively stained cell of strain KMU-34T. Bar, 500 nm (PPTX 1192 kb)

203_2017_1384_MOESM2_ESM.pptx

Supplementary Fig. 2. Thin-layer chromatograms showing the total polar lipid compositions of KMU-34T. Total polar lipids were detected by spraying the plate with molybdatophosphoric acid, molybdenun blue, α-naphthol and ninhydrin. PE: phosphatidylethanolamine, PG: phosphatidylglycerol, PC: phosphatidylcholine, SGL: sphingoglycolipid, UPL: unidentified phospholipid, UL: unidentified lipid (PPTX 401 kb)

Supplementary Fig. 3. Negative results from the commercial test kits (PPTX 43 kb)

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Yoon, J. Erythrobacter alti sp. nov., a marine alphaproteobacterium isolated from seawater. Arch Microbiol 199, 1133–1139 (2017). https://doi.org/10.1007/s00203-017-1384-z

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  • DOI: https://doi.org/10.1007/s00203-017-1384-z

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