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Vibrio madracius sp. nov. Isolated from Madracis decactis (Scleractinia) in St Peter & St Paul Archipelago, Mid-Atlantic Ridge, Brazil

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Abstract

Three novel isolates (A-354T, A-328, and A-384) were retrieved from apparently healthy scleractinian Madracis decactis in the remote St Peter & St Paul Archipelago, Mid-Atlantic Ridge, Brazil. The novel isolates formed a distinct lineage based on the phylogenetic reconstruction using the 16S rRNA and pyrH gene sequences. They fell into the Mediterranei clade and their closest phylogenetic neighbour was V. mediterranei species, sharing upto 98.1 % 16S rRNA gene sequence similarity. Genomic analysis including in silico DDH, MLSA, AAI and genomic signature distinguished A-354T from V. mediterranei LMG 19703 (=AK1) with values of 33.3, 94.2, 92 %, and 11.3, respectively. Phenotypically, the novel isolates can be differentiated from V. mediterranei based on the four following features. They do not grow at 8 % NaCl; use d-gluconic acid but not l-galactonic acid lactone as carbon source; and do not have the fatty acid C18:0. Differentiation from both the other Mediterranei clade species (V. maritimus and V. variabilis) is supported by fifteen features. The novel species show lysine decarboxylase and tryptophan deaminase, but not gelatinase and arginine dihydrolase activity; produce acetoin; use α-d-lactose, N-acetyl-d-galactosamine, myo-Inositol, d-gluconic acid, and β-hydroxy-d,l-butyric acid; and present the fatty acids C14:0 iso, C15:0 anteiso, C16:0 iso, C17:0 anteiso, and C17:1x8c . Whole-cell protein profiles, based on MALDI-TOF, showed that the isolates are not clonal and also distinguished them from the closes phylogenetic neighbors. The name Vibrio madracius sp. nov. is proposed to encompass these novel isolates. The G+C content of the type strain A-354T (=LMG 28124T=CBAS 482T) is 44.5 mol%.

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Abbreviations

SPSPA:

St Peter & St Paul Archipelago

MLSA:

Multilocus sequence analysis

ANI:

Average nucleotide sequence identity

AAI:

Average amino acid identity

DDH:

DNA–DNA hybridization

GGDC:

Genome-to-genome distance calculator

DSMZ:

German collection of microorganisms and cell cultures

FAME:

Fatty acid methyl ester analyses

MALDI-TOF:

Matrix-assisted laser desorption/ionization time-of-flight

References

  1. Auch AF, von Jan M, Klenk H-P, Göker M (2010) Digital DNA–DNA hybridization for microbial species delineation by means of genome-to-genome sequence comparison. Stand Genomic Sci 2(1):117

    Article  PubMed Central  PubMed  Google Scholar 

  2. Auch AF, Klenk H-P, Göker M (2010) Standard operating procedure for calculating genome-to-genome distances based on high-scoring segment pairs. Stand Genomic Sci 2(1):142–148

    Article  PubMed Central  PubMed  Google Scholar 

  3. Aziz RK, Bartels D, Best AA, DeJongh M, Disz T, Edwards RA, Formsma K, Gerdes S, Glass EM, Kubal M, Meyer F, Olsen GJ, Olson R, Osterman AL, Overbeek RA, McNeil LK, Paarmann D, Paczian T, Parrello B, Pusch GD, Reich C, Stevens R, Vassieva O, Vonstein V, Wilke A, Zagnitko O (2008) The RAST Server: Rapid Annotations using Subsystems Technology. BMC Genom 9(1):75

    Article  Google Scholar 

  4. Balcazar JL, Pintado J, Planas M (2010) Vibrio hippocampi sp. nov., a new species isolated from wild seahorses (Hippocampus guttulatus). FEMS Microbiol Lett 307(1):30–34

    Article  CAS  PubMed  Google Scholar 

  5. Castro B, Pires D (2006) Reproductive biology of Madracis decactis (Lyman, 1859) (Cnidaria, Scleractinia) from southern Bahia reefs, Brazil. Arqs MN 64:19–27

    Google Scholar 

  6. Chimetto LA, Cleenwerck I, Moreira APB, Brocchi M, Willems A, De Vos P, Thompson FL (2011) Vibrio variabilis sp. nov. and Vibrio maritimus sp. nov., isolated from Palythoa caribaeorum. Int J Syst Evol Microbiol 61(12):3009–3015

    Article  CAS  PubMed  Google Scholar 

  7. Felsenstein J (1985) Confidence limits on phylogenies: an approach using the bootstrap. Evolution 39(4):783–791

    Article  Google Scholar 

  8. Karlin S, Mrázek J, Campbell AM (1998) Codon usages in different gene classes of the Escherichia coli genome. Mol Microbiol 29(6):1341–1355

    Article  CAS  PubMed  Google Scholar 

  9. Karlin S, Mrazek J, Campbell AM (1997) Compositional biases of bacterial genomes and evolutionary implications. J Bacteriol 179(12):3899–3913

    CAS  PubMed Central  PubMed  Google Scholar 

  10. Konstantinidis KT, Tiedje JM (2005) Towards a genome-based taxonomy for prokaryotes. J Bacteriol 187(18):6258–6264

    Article  CAS  PubMed Central  PubMed  Google Scholar 

  11. Kushmaro A, Banin E, Loya Y, Stackebrandt E, Rosenberg E (2001) Vibrio shiloi sp. nov., the causative agent of bleaching of the coral Oculina patagonica. ISME J 51(4):1383–1388

    CAS  Google Scholar 

  12. Larkin M, Blackshields G, Brown N, Chenna R, McGettigan PA, McWilliam H, Valentin F, Wallace IM, Wilm A, Lopez R (2007) Clustal W and Clustal X version 2.0. Bioinformatics 23(21):2947–2948

    Article  CAS  PubMed  Google Scholar 

  13. Migotto A. (1997) Anthozoan bleaching on the southeastern coast of Brazil in the summer of 1994. In: 6th International Conference of Coelenterate Biology, Leeuwenhorst, 1995 1997. Leeuwenhorst, pp 329–335

  14. Moreira APB, Tonon LAC, Do Valle Cecilia PP, Alves N Jr, Amado-Filho GM, Francini-Filho RB, Paranhos R, Thompson FL (2014) Culturable heterotrophic bacteria associated with healthy and bleached scleractinian Madracis decactis and the fireworm Hermodice carunculata from the Remote St. Peter and St. Paul Archipelago, Brazil. Curr Microbiol 68(1):38–46

    Article  CAS  PubMed  Google Scholar 

  15. Neves E, Johnsson R (2009) Taxonomic revision of the southwestern Atlantic Madracis and the description of Madracis fragilis n. sp. (Scleractinia: Pocilloporidae), a new coral species from Brazil. Sci Mar 73(4):739–746

  16. Nunes FLD, Norris RD, Knowlton N (2011) Long distance dispersal and connectivity in amphi-atlantic corals at regional and basin scales. PLoS One 6(7):e22298

    Article  CAS  PubMed Central  PubMed  Google Scholar 

  17. Ortigosa M, Garay E, Pujalte Ma-Js (1994) Numerical taxonomy of Vibrionaceae isolated from oysters and seawater along an annual cycle. Syst Appl Microbiol 17(2):216–225

    Article  Google Scholar 

  18. Pereira-Filho GH, Amado-Filho GM, de Moura RL, Bastos AC, Guimarães SM, Salgado LT, Francini-Filho RB, Bahia RG, Abrantes DP, Guth AZ (2011) Extensive Rhodolith beds cover the summits of southwestern atlantic ocean seamounts. J Coast Res 28(1):261–269

    Google Scholar 

  19. Pujalte M-J, Garay E (1986) Proposal of Vibrio mediterranei sp. nov.: a new marine member of the genus Vibrio. Int J Syst Evol Microbiol 36(2):278–281

    Google Scholar 

  20. Pujalte MJ, Ortiz-Conde BA, Steven SE, Esteve C, Garay E, Colwell RR (1992) Numerical taxonomy and nucleic acid studies of Vibrio mediterranei. Syst Appl Microbiol 15(1):82–91

    Article  Google Scholar 

  21. Quail MA, Smith M, Coupland P, Otto TD, Harris SR, Connor TR, Bertoni A, Swerdlow HP, Gu Y (2012) A tale of three next generation sequencing platforms: comparison of Ion Torrent, Pacific Biosciences and Illumina MiSeq sequencers. BMC Genom 13(1):341

    Article  CAS  Google Scholar 

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

    CAS  PubMed  Google Scholar 

  23. Sawabe T, Ogura Y, Matsumura Y, Feng G, Amin AR, Mino S, Nakagawa S, Sawabe T, Kumar R, Fukui Y (2013) Updating the Vibrio clades defined by multilocus sequence phylogeny: proposal of eight new clades, and the description of Vibrio tritonius sp. nov. Front Microbiol 4:414

  24. Strohalm M, Kavan D, Novák P, Volný M, Havlíček V (2010) mMass 3: a cross-platform software environment for precise analysis of mass spectrometric data. Anal Chem 82(11):4648–4651

    Article  CAS  PubMed  Google Scholar 

  25. Tamura K, Peterson D, Peterson 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(10):2731–2739

    Article  CAS  PubMed Central  PubMed  Google Scholar 

  26. Thompson CC, Chimetto L, Edwards RA, Swings J, Stackebrandt E, Thompson FL (2013) Microbial genomic taxonomy. BMC Genom 14(1):913

    Article  Google Scholar 

  27. Thompson CC, Vicente AC, Souza RC, Vasconcelos AT, Vesth T, Alves N, Ussery DW, Iida T, Thompson FL (2009) Genomic taxonomy of vibrios. BMC Evol Biol 9(1):258

    Article  PubMed Central  PubMed  Google Scholar 

  28. Thompson F, Gevers D, Thompson C, Dawyndt P, Naser S, Hoste B, Munn C, Swings J (2005) Phylogeny and molecular identification of vibrios on the basis of multilocus sequence analysis. Appl Environ Microbiol 71(9):5107–5115

    Article  CAS  PubMed Central  PubMed  Google Scholar 

  29. Thompson FL, Hoste B, Thompson CC, Huys G, Swings J (2001) The Coral Bleaching Vibrio shiloi Kushmaro et al. 2001 is a Later Synonym of Vibrio mediterranei Pujalte and Garay 1986. Syst Appl Microbiol 24(4):516–519

  30. Waterhouse AM, Procter JB, Martin DM, Clamp Ml, Barton GJ (2009) Jalview Version 2, A multiple sequence alignment editor and analysis workbench. Bioinformatics 25(9):1189–1191

    Article  CAS  PubMed Central  PubMed  Google Scholar 

  31. Wieme A, Cleenwerck I, Van Landschoot A, Vandamme P (2012) Pediococcus lolii DSM 19927T and JCM 15055T are strains of Pediococcus acidilactici. Int J Syst Evol Microbiol 62(Pt 12):3105–3108

    Article  PubMed  Google Scholar 

Download references

Acknowledgments

This work was supported by CNPq, CAPES, and FAPERJ. The BCCM/LMG Bacteria Collection is supported by the Federal Public Service for Science Policy, Belgium. We are grateful to Leilei Li for her assistance with the MALDI-TOF MS data analysis.

Author information

Authors and Affiliations

  1. Institute of Biology, Federal University of Rio de Janeiro (UFRJ), Rio de Janeiro, Brazil

    Ana Paula B. Moreira, Gwen Duytschaever, Luciane A. Chimetto Tonon, Graciela M. Dias, Milene Mesquita, Cristiane C. Thompson & Fabiano L. Thompson

  2. BCCM/LMG Bacteria Collection, Ghent University, K. L. Ledeganckstraat 35, 9000, Ghent, Belgium

    Margo Cnockaert & Paul De Vos

  3. Laboratory of Microbiology, Faculty of Sciences, Ghent University, K. L. Ledeganckstraat 35, 9000, Ghent, Belgium

    Margo Cnockaert & Paul De Vos

  4. Department of Environment and Engineering, Federal University of Paraíba (UFPB), Rio Tinto, Brazil

    Ronaldo B. Francini-Filho

  5. Laboratory of Molecular Genetics of Microrganims, Oswaldo Cruz Institute FIOCRUZ, Rio de Janeiro, Brazil

    Cristiane C. Thompson

  6. Lab. de Sistemas Avançados de Gestão de Produção - SAGE - COPPE, Centro de Gestão Tecnológica - CT2, UFRJ, Rio de Janeiro, Brazil

    Fabiano L. Thompson

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  1. Ana Paula B. Moreira
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Corresponding author

Correspondence to Fabiano L. Thompson.

Additional information

Nucleotide sequence data for Vibrio madracius sp. nov. are available in the DDBJ/EMBL/GenBank databases under the following accession number(s): KC751057, KC751062, KC751087 (16S rRNA); and KC751154, KC751309, KJ154030 (pyrH). ASHK00000000 is the accession number (Version ASHK00000000) for the genome of the type strain A-354T = LMG 28124T = CBAS 482 T (List in Online Resource 1). ASHJ00000000 is the accession number (Version ASHJ00000000) for the genome of V. mediterranei A-203.

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Moreira, A.P.B., Duytschaever, G., Tonon, L.A.C. et al. Vibrio madracius sp. nov. Isolated from Madracis decactis (Scleractinia) in St Peter & St Paul Archipelago, Mid-Atlantic Ridge, Brazil. Curr Microbiol 69, 405–411 (2014). https://doi.org/10.1007/s00284-014-0600-1

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