1887

Abstract

A novel Gram-stain-negative bacterial strain designated as MEB193 was isolated from a sediment sample collected from Lonar Lake, India. The cells were motile, non-spore-forming and rod-shaped. The strain was oxidase- and catalase-positive. It grew optimally at pH 9.0 and at 1 % (w/v) NaCl concentration at 30 °C. Based on 16S rRNA gene sequence similarity, MEB193 belongs to genus , with ZV-19 (95.89 %) and 4CA (95.87 %) as its closest neighbours. The major fatty acid was summed feature 8 comprising Cω7c/Cω6c (52 %) followed by C (25 %). Phosphatidylglycerol (PG) and diphosphatidylglycerol (DPG) were present as the major polar lipids. The draft genome obtained in this study was 2 793 747 bp and the G+C content was 50.79 mol%. Average nucleotide identity (71.76 %) and DNA–DNA hybridization (<20 %) values between strain MEB193 and 4CA confirmed the novelty of this new species. Based on phenotypic including chemotaxonomic and genotypic characterization data, strain MEB193 represents a new species of the genus for which the name sp. nov. is proposed. The type strain is MEB193 (=MCC 2863=JCM 31570 =KCTC 52390 ).

Funding
This study was supported by the:
  • Department of Biotechnology, DBT, Govt. of India (Award BT/Coord.II/01/03/2016)
    • Principle Award Recipient: Amaraja Abhay Joshi
Loading

Article metrics loading...

/content/journal/ijsem/10.1099/ijsem.0.003883
2019-11-21
2024-12-07
Loading full text...

Full text loading...

/deliver/fulltext/ijsem/70/2/1106.html?itemId=/content/journal/ijsem/10.1099/ijsem.0.003883&mimeType=html&fmt=ahah

References

  1. Borsodi AK, Korponai K, Schumann P, Spröer C, Felföldi T et al. Nitrincola alkalilacustris ZV-19T sp. nov. and Nitrincola schmidtii R4-8T sp. nov., alkaliphilic bacteria isolated from soda pans, and emended description of the genus Nitrincola . Int J Syst Evol Microbiol 2017; 67:5159–5164 [View Article]
    [Google Scholar]
  2. Dimitriu PA, Shukla SK, Conradt J, Márquez MC, Ventosa A et al. Nitrincola lacisaponensis gen. nov., sp. nov., a novel alkaliphilic bacterium isolated from an alkaline, saline lake. Int J Syst Evol Microbiol 2005; 55:2273–2278 [View Article]
    [Google Scholar]
  3. Joshi A, Thite S, Kulkarni G, Dhotre D, Joseph N et al. Nitrincola alkalisediminis sp. nov., an alkaliphilic bacterium isolated from an alkaline lake. Int J Syst Evol Microbiol 2016; 66:1254–1259 [View Article]
    [Google Scholar]
  4. Phurbu D, Pema Y, Ma C, Lu H, Li H et al. Nitrincola tibetensis xg18T sp. nov., isolated from lake XuguoCo on the tibetan plateau. Int J Syst Evol Microbiol 2019; 69:123–128 [View Article]
    [Google Scholar]
  5. Suzuki M, Nakagawa Y, Harayama S, Yamamoto S. Phylogenetic analysis and taxonomic study of marine Cytophaga-like bacteria: proposal for Tenacibaculum gen. nov. with Tenacibaculum maritimum comb. nov. and Tenacibaculum ovolyticum comb. nov., and description of Tenacibaculum mesophilum sp. nov. and Tenacibaculum amylolyticum sp. nov. Int J Syst Evol Microbiol 2001; 51:1639–1652 [View Article]
    [Google Scholar]
  6. Heimbrook ME, Wang WL, Campbell G. Staining bacterial flagella easily. J Clin Microbiol 1989; 27:2612–2615
    [Google Scholar]
  7. Smibert RM, Krieg NR. Phenotypic characterization. In Gerhardt P, Murray RGE, Wood WA, Krieg NR. (editors) Methods for General and Molecular Bacteriology Washington, DC: American Society for Microbiology; 1994 pp 603–711
    [Google Scholar]
  8. King EO, Ward MK, Raney DE. Two simple media for the demonstration of pyocyanin and fluorescin. J Lab Clin Med 1954; 44:301–307
    [Google Scholar]
  9. Sasser M. Identification of bacteria by gas chromatography of cellular fatty acids. USFCC News l 1990; 20:16
    [Google Scholar]
  10. Brosius J, Palmer ML, Kennedy PJ, Noller HF. Complete nucleotide sequence of a 16S ribosomal RNA gene from Escherichia coli . Proc Natl Acad Sci USA 1978; 75:4801–4805 [View Article]
    [Google Scholar]
  11. Yoon SH, Ha SM, Kwon S, Lim J, Kim Y et al. Introducing EzBioCloud: a taxonomically United database of 16S rRNA gene sequences and whole-genome assemblies. Int J Syst Evol Microbiol 2017; 67:1613–1617 [View Article]
    [Google Scholar]
  12. Dhotre DP, Rajabal V, Sharma A, Kulkarni GJ, Prakash O et al. Reclassification of Phycicola gilvus (Lee et al. 2008) and Leifsonia pindariensis (Reddy et al. 2008) as Microterricola gilva comb. nov. and Microterricola pindariensis comb. nov. and emended description of the genus Microterricola . Int J Syst Evol Microbiol 2017; 67:2766–2772 [View Article]
    [Google Scholar]
  13. Bankevich A, Nurk S, Antipov D, Gurevich AA, Dvorkin M et al. SPAdes: a new genome assembly algorithm and its applications to single-cell sequencing. J Comput Biol 2012; 19:455–477 [View Article]
    [Google Scholar]
  14. Gurevich A, Saveliev V, Vyahhi N, Tesler G. QUAST: quality assessment tool for genome assemblies. Bioinformatics 2013; 29:1072–1075 [View Article]
    [Google Scholar]
  15. Besemer J, Lomsadze A, Borodovsky M. GeneMarkS: a self-training method for prediction of gene starts in microbial genomes. Implications for finding sequence motifs in regulatory regions. Nucleic Acids Res 2001; 29:2607–2618 [View Article]
    [Google Scholar]
  16. Tatusova T, DiCuccio M, Badretdin A, Chetvernin V, Nawrocki EP et al. NCBI prokaryotic genome annotation pipeline. Nucleic Acids Res 2016; 44:6614–6624 [View Article]
    [Google Scholar]
  17. Tatusov RL, Galperin MY, Natale DA, Koonin EV. The COG database: a tool for genome-scale analysis of protein functions and evolution. Nucleic Acids Res 2000; 28:33–36 [View Article]
    [Google Scholar]
  18. Lowe TM, Eddy SR. tRNAscan-SE: a program for improved detection of transfer RNA genes in genomic sequence. Nucleic Acids Res 1997; 25:955–964 [View Article]
    [Google Scholar]
  19. Lagesen K, Hallin P, Rødland EA, Staerfeldt H-H, Rognes T et al. RNAmmer: consistent and rapid annotation of ribosomal RNA genes. Nucleic Acids Res 2007; 35:3100–3108 [View Article]
    [Google Scholar]
  20. Yoon S-H, Ha S-M, Lim J, Kwon S, Chun J. A large-scale evaluation of algorithms to calculate average nucleotide identity. Antonie van Leeuwenhoek 2017; 110:1281–1286 [View Article]
    [Google Scholar]
  21. Meier-Kolthoff JP, Auch AF, Klenk HP, Göker M. Genome sequence-based species delimitation with confidence intervals and improved distance functions. BMC Bioinformatics 2013; 14:60 [View Article]
    [Google Scholar]
/content/journal/ijsem/10.1099/ijsem.0.003883
Loading
/content/journal/ijsem/10.1099/ijsem.0.003883
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