1887

Abstract

A Gram-stain-negative, motile, alkali-tolerant, swollen-rod shaped, reddish brown coloured, phototrophic bacterium designated as strain JA980, was isolated from freshwater sampled at Umiam lake, Shillong, India. Strain JA980 grew well up to pH 9.0. Respiratory quinones were ubiquinone 10 and rhodoquinone 10. The major fatty acid was C ω7/Cω6c with minor amounts of C, C, C 3-OH and C 3-OH. Strain JA980 contained bacteriochlorophyll- and carotenoids of the spirilloxanthin series. The polar lipids of strain JA980 comprised phosphatidylethanolamine, phosphatidylcholine, diphosphatidylglycerol, an unidentified phospholipid, unidentified amino lipids (AL1,3,4,5) and an unidentified lipid (L1). Strain JA980 had the highest (99.57 %) 16S rRNA gene sequence similarity to the type strains of ATCC17100 and JA643. The genome of strain JA980 was 3.88 Mbp with a DNA G+C content of 62.4 mol%. Based on the results of phylogenetic analyses, low DNA–DNA hybridization values (33 %), low (87 %) average nucleotide identity results, chemotaxonomic characteristics and differential physiological properties, strain JA980 could not be classified into either of the two recognized species of the genus , suggesting that it represents a novel species, for which the name sp. nov. is proposed. The type strain is JA980 (=KCTC 15697= MCC 3714= NBRC 113803).

Loading

Article metrics loading...

/content/journal/ijsem/10.1099/ijsem.0.003813
2019-10-29
2019-11-20
Loading full text...

Full text loading...

References

  1. Duchow E, Douglas HC. Rhodomicrobium vannielii, a new photoheterotrophic bacterium. J Bacteriol 1949;58: 409– 416
    [Google Scholar]
  2. Wright GE, Madigan MT. Photocatabolism of aromatic compounds by the phototrophic bacterium Rhodomicrobium vannielii. Appl Environ Microbiol 1991;57: 2069– 2073
    [Google Scholar]
  3. Ramana VV, Raj PS, Tushar L, Sasikala C, Ramana CV. Rhodomicrobium udaipurense sp. nov., a psychrotolerant, phototrophic alphaproteobacterium isolated from a freshwater stream. Int J Syst Evol Microbiol 2013;63: 2684– 2689 [CrossRef]
    [Google Scholar]
  4. Suresh G, Sailaja B, Ashif A, Dave BP, Sasikala C et al. Description of Rhodobacter azollae sp. nov. and Rhodobacter lacus sp. nov. Int J Syst Evol Microbiol 2017;67: 3289– 3295 [CrossRef]
    [Google Scholar]
  5. Hanada S, Takaichi S, Matsuura K, Nakamura K. Roseiflexus castenholzii gen. nov., sp. nov., a thermophilic, filamentous, photosynthetic bacterium that lacks chlorosomes. Int J Syst Evol Microbiol 2002;52: 187– 193 [CrossRef]
    [Google Scholar]
  6. Trüper HG, Pfennig N. Characterization and Identification of the Anoxygenic Phototrophic Bacteria In Starr MP, Stolp H, Trüper HG, Balows A. (editors) The Prokaryotes: A Handbook on Habitats, Isolation, and Identification of Bacteria1 New York: Springer; 1981; pp 298– 312
    [Google Scholar]
  7. Ramaprasad EVV, Sasikala C, Ramana CV, Ch S, ChV R. Neurosporene is the major carotenoid accumulated by Rhodobacter viridis JA737. Biotechnol Lett 2013;35: 1093– 1097 [CrossRef]
    [Google Scholar]
  8. Beumer A, Robinson JB. A broad-host-range, generalized transducing phage (SN-T) acquires 16S rRNA genes from different genera of bacteria. Appl Environ Microbiol 2005;71: 8301– 8304 [CrossRef]
    [Google Scholar]
  9. Yoon SH, Ha SM, Kwon S, Lim J, Kim Y et al. Introducing EzBioCloud: a taxonomically United database of 16S rRNA and whole-genome assemblies. Int J Syst Evol Microbiol 2017;67: 1613– 1617 [CrossRef]
    [Google Scholar]
  10. Tamura K, Stecher G, Peterson D, Filipski A, Kumar S. MEGA6: molecular evolutionary genetics analysis version 6.0. Mol Biol Evol 2013;30: 2725– 2729 [CrossRef]
    [Google Scholar]
  11. 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 [CrossRef]
    [Google Scholar]
  12. Lee I, Ouk Kim Y, Park SC, Chun J. OrthoANI: an improved algorithm and software for calculating average nucleotide identity. Int J Syst Evol Microbiol 2016;66: 1100– 1103 [CrossRef]
    [Google Scholar]
  13. Auch AF, Klenk HP, Göker M. Standard operating procedure for calculating genome-to-genome distances based on high-scoring segment pairs. Stand Genomic Sci 2010;2: 142– 148 [CrossRef]
    [Google Scholar]
  14. Richter M, Rosselló-Móra R. Shifting the genomic gold standard for the prokaryotic species definition. Proc Natl Acad Sci USA 2009;106: 19126– 19131 [CrossRef]
    [Google Scholar]
  15. Rosselló-Móra R, Amann R. Past and future species definitions for bacteria and archaea. Syst Appl Microbiol 2015;38: 209– 216 [CrossRef]
    [Google Scholar]
  16. Sasser M. Identification of bacteria by gas chromatography of cellular fatty acids, MIDI technical note 101. Newark, DE: MIDI Inc; 1990
    [Google Scholar]
  17. Kates M. Techniques in Lipidology Laboratory Techniques in Biochemistry and Molecular Biology American Elsevier Publishing Company 3: part 2; 1972; pp 355– 356
    [Google Scholar]
  18. Kates M. Techniques of Lipidology. Isolation, analysis and identification of lipids In Burdon RH, van Knippenberg PH. (editors) Laboratory Techniques in Biochemistry and Molecular Biology3 Amsterdam: Elsevier; 1986; pp 100– 112
    [Google Scholar]
  19. Oren A, Duker S, Ritter S. The polar lipid composition of Walsby's square bacterium. FEMS Microbiol Lett 1996;138: 135– 140 [CrossRef]
    [Google Scholar]
  20. Tindall BJ. Lipid composition of Halobacterium lacusprofundi. FEMS Microbiol Lett 1990;66: 199– 202 [CrossRef]
    [Google Scholar]
  21. Tindall BJ. A comparative study of the lipid composition of Halobacterium saccharovorum from various sources. Syst Appl Microbiol 1990;13: 128– 130 [CrossRef]
    [Google Scholar]
  22. Imhoff JF. Quinones of phototrophic purple bacteria. FEMS Microbiol Lett 1984;25: 85– 89 [CrossRef]
    [Google Scholar]
  23. Hiraishi A, Hoshino Y. Distribution of rhodoquinone in Rhodospirillaceae and its taxonomic implications. J Gen Appl Microbiol 1984;30: 435– 448 [CrossRef]
    [Google Scholar]
  24. Hiraishi A, Hoshino Y, Kitamura H. Isoprenoid quinone composition in the classification of Rhodospirillaceae. J Gen Appl Microbiol 1984;30: 197– 210 [CrossRef]
    [Google Scholar]
  25. Chun J, Oren A, Ventosa A, Christensen H, Arahal DR et al. Proposed minimal standards for the use of genome data for the taxonomy of prokaryotes. Int J Syst Evol Microbiol 2018;68: 461– 466 [CrossRef]
    [Google Scholar]
  26. Kumar BV, Ramprasad EVV, Sasikala C, Ramana CV, Vinay Kumar B. Rhodopseudomonas pentothenatexigens sp. nov. and Rhodopseudomonas thermotolerans sp. nov., isolated from paddy soils. Int J Syst Evol Microbiol 2013;63: 200– 207 [CrossRef]
    [Google Scholar]
  27. Ramana VV, Chakravarthy SK, Raj PS, Kumar BV, Shobha E et al. Descriptions of Rhodopseudomonas parapalustris sp. nov., Rhodopseudomonas harwoodiae sp. nov. and Rhodopseudomonas pseudopalustris sp. nov., and emended description of Rhodopseudomonas palustris. Int J Syst Evol Microbiol 2012;62: 1790– 1798 [CrossRef]
    [Google Scholar]
  28. Sailaja B, Suresh G, Deepshikha G, Ch S, ChV R. Afifella aestuarii sp. nov., a phototrophic bacterium. Int J Syst Evol Microbiol 2019
    [Google Scholar]
  29. Shivali K, Ramana VV, Ramaprasad EVV, Sasikala C, Ramana CV. Marichromatium litoris sp. nov. and Marichromatium chrysaorae sp. nov. isolated from beach sand and from a jelly fish (Chrysaora colorata). Syst Appl Microbiol 2011;34: 600– 605 [CrossRef]
    [Google Scholar]
  30. Shivali K, Sasikala C, Ramana CV, Ch S, ChV R. Mlsa barcoding of Marichromatium spp. and reclassification of Marichromatium fluminis (Sucharita et al., 2010) as Phaeochromatium fluminis gen. nov. comb. nov. Syst Appl Microbiol 2012;35: 221– 225 [CrossRef]
    [Google Scholar]
http://instance.metastore.ingenta.com/content/journal/ijsem/10.1099/ijsem.0.003813
Loading
/content/journal/ijsem/10.1099/ijsem.0.003813
Loading

Data & Media loading...

Supplements

Supplementary material 1

PDF
This is a required field
Please enter a valid email address
Approval was a Success
Invalid data
An Error Occurred
Approval was partially successful, following selected items could not be processed due to error