Ecophysiological diversity of a novel member of the genus Alteromonas, and description of Alteromonas mediterranea sp. nov.
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Nine non-pigmented, motile, Gram-negative bacteria originally designated as Alteromonas macleodii deep-sea ecotypes, were isolated from seawater samples collected from four separate locations; two deep-sea sites in the Mediterranean Sea and surface water of the Aegean Sea and English Channel. The six strains studied in vitro were found to tolerate up to 20 % NaCl. The DNA–DNA relatedness between the deep-sea ecotype strains was found to be between 75 and 89 %, whilst relatedness with the validly named Alteromonas species was found to be between 31 and 69 %. The average nucleotide identity (ANI) amongst the deep-sea ecotype strains was found to be 98–100 %; the in silico genome-to-genome distance (GGD), 85–100 %; the average amino acid identity (AAI) of all conserved protein-coding genes, 95–100 %; and the strains possessed 30–32 of the Karlin’s genomic signature dissimilarity. The ANI between the deep-sea ecotype strains and A. macleodii ATCC 27126T and Alteromonas australica H 17T was found to be 80.6 and 74.6 %, respectively. A significant correlation was observed between the phenotypic data obtained in vitro and data retrieved in silico from whole genome sequences. The results of a phylogenetic study that incorporated a 16S rRNA gene sequence analysis, multilocus phylogenetic analysis (MLPA) and genomic analysis, together with the physiological, biochemical and chemotaxonomic data, clearly indicated that the group of deep-sea ecotype strains represents a distinct species within the genus Alteromonas. Based on these data, a new species, Alteromonas mediterranea, is proposed. The type strain is DET ( = CIP 110805T = LMG 28347T = DSM 17117T).
KeywordsAlteromonas mediterranea Marine bacteria Taxonomy Phylogeny Genomic taxonomy MLPA MALDI-TOF MS New species
This study was partially supported by funds from Australian Research Council (ARC). The authors would like to thank Jun Ng for performing the MALDI-TOF MS analysis and Bio21 Institute for access to the MALDI-TOF MS instrument.
- Azegami K, Nishiyama K, Watanabe Y, Kadota I, Ohuchi A, Fukazawa C (1987) Pseudomonas plantarii sp. nov., the causal agent of rice seeding blight. Int J Syst Evol Microbiol 37:144–152Google Scholar
- Baumann P, Baumann L (1981) The marine Gram-negative eubacteria; genera Photobacterium, Beneckea, Alteromonas, Pseudomonas, and Alcaligenes. In: Starr MP, Starr MP, Stolp HG, Trüper HG, Balows A, Schlegel HG (eds) The prokaryotes a handbook on habitats, isolation, and identification of bacteria. Springer-Verlag, Berlin, pp 1302–1330Google Scholar
- Baumann P, Gauthier MJ, Baumann L (1984) Genus Alteromonas. Baumann, Baumann, Mandel and Allen 1972. In: Krieg NR, Holt JG (eds) Bergey`s Manual of Systematic Bacteriology. Williams & Wilkins Co, Baltimore, pp 243–354Google Scholar
- Gauthier G, Gauthier M, Christen R (1995) Phylogenetic analysis of the genera Alteromonas, Shewanella, and Moritella using genes coding for small-subunit rRNA sequences and division of the genus Alteromonas into two genera, Alteromonas (emended) and Pseudoalteromonas gen. nov., and proposal of twelve new species combinations. Int J Syst Evol Microbiol 45:755–761Google Scholar
- Ivanova EP, Flavier S, Christen R (2004) Phylogenetic relationships among marine Alteromonas-like proteobacteria: emended description of the family Alteromonadaceae and proposal of Pseudoalteromonadaceae fam. nov., Colwelliaceae fam. nov., Shewanellaceae fam. nov., Moritellaceae fam. nov., Ferrimonadaceae fam. nov., Idiomarinaceae fam. nov. and Psychromonadaceae fam. nov. Int J Syst Evol Microbiol 54:1773–1788PubMedCrossRefGoogle Scholar
- Ivars-Martínez E, Martin-Cuadrado AB, D’Auria G, Mira A, Ferriera S, Johnson J, Friedman R, Rodriguez-Valera F (2008b) Comparative genomics of two ecotypes of the marine planktonic copiotroph Alteromonas macleodii suggests alternative lifestyles associated with different kinds of particulate organic matter. ISME J 2:1194–1212PubMedCrossRefGoogle Scholar
- Ng HJ, Webb HK, Crawford RJ, Malherbe F, Butt H, Knight R, Mikhailov VV, Ivanova EP (2013) Updating the taxonomic toolbox: classification of Alteromonas spp. using multilocus phylogenetic analysis and MALDI-TOF mass spectrometry. Antonie van Leeuwenhoek Int J Gen Mol Microbiol 103:877–884CrossRefGoogle Scholar
- Smibert RM, Krieg NR (1994) Phenotypic characterization. In: Gerhardt F (ed) Methods for general and molecular bacteriology. American Society for Microbiology, Washington, pp 607–654Google Scholar
- Van Landschoot A, De Ley J (1983) Intra- and intergeneric similarities of the rRNA cistrons of Alteromonas, Marinomonas (gen. nov.) and some other gram-negative bacteria. J Gen Micorbiol 129:3057–3074Google Scholar
- Vandecandelaere I, Nercessian O, Segaert E, Achouak W, Mollica A, Faimali M, De Vos P, Vandamme P (2008) Alteromonas genovensis sp. nov., isolated from a marine electroactive biofilm and emended description of Alteromonas macleodii Baumann et al. 1972 (Approved Lists 1980). Int J Syst Evol Microbiol 58:2589–2596PubMedCrossRefGoogle Scholar
- Wayne LG, Brenner DJ, Colwell RR, Grimont PAD, Kandler O, Krichevsky MI, Moore LH, Moore WEC, Murray RGE, Stackebrandt E, Starr MP, Truper HG (1987) Report of the Ad-hoc-committee on reconciliation of approaches to bacterial systematics. Int J Syst Evol Microbiol 37:463–464Google Scholar