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Abstract

A novel slightly halophilic Gram-stain-negative bacterial strain (MKS20) was isolated from a brine sample collected from one of the Anderton brine springs in the Cheshire salt district, located in Northern England. Phylogenetic analysis of the 16S rRNA gene sequence revealed a close proximity to (98.30 %), followed by (96.62 %), the two currently described species within the genus . Strain MKS20 forms white-beige-pigmented colonies and grows optimally at 28–30 °C, in 1–3 % (w/v) NaCl and at pH 7–7.5. The strain was facultatively anaerobic and showed a broader range of carbohydrate use than other species in the genus . Q-8 was the sole respiratory quinone and the major fatty acids (>10 %) were summed feature 3 (C ω6 and/or C ω7) and C. The polar lipid profile included diphosphatidylglycerol, phosphatidylethanolamine, phosphatidyglycerol and several unidentified lipids. The G+C content of the genomic DNA was 44.2 mol%. Average nucleotide identity and DNA–DNA hybridization data were consistent with assignment to a separate species. Based on the phylogenetic and genomic-based analyses, as well as physiological and biochemical characteristics, we propose that strain MKS20 (=DSM 109936, MCCC 1K04071) represents a new species of the genus , with the name sp. nov.

Funding
This study was supported by the:
  • Fundo para o Desenvolvimento das Ciências e da Tecnologia
    • Principle Award Recipient: AndréAntunes
  • Horizon 2020 Framework Programme (Award grant agreement No 654008; access to DSMZ was funded by the European Marine Biological Research Infrastructure Cluster (EMBRIC) Transnational Access Program (EMBRIC TNA Project 5667))
    • Principle Award Recipient: AndréAntunes
  • Society for Applied Microbiology (Award Society for Applied Microbiology’s Student Placement Scholarship)
    • Principle Award Recipient: MatthewKelbrick
  • Edge Hill University (Award RIF Project 1ANTUN16- EDEN)
    • Principle Award Recipient: AndréAntunes
  • This is an open-access article distributed under the terms of the Creative Commons Attribution License.
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2021-03-19
2022-05-27
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References

  1. Lageard JGA, Drew IB. Evaporating legacies: industrial heritage and salt in Cheshire, UK. Ind Archaeol Rev 2015; 37:48–61 [View Article]
    [Google Scholar]
  2. Antunes A, Simões MF, Grötzinger SW, Eppinger J, Bragança J et al. Bioprospecting archaea: focus on extreme halophiles. In Paterson R, Lima N. (editors) Bioprospecting: Success, Potential and Constraints 16 Cham: Springer; 2017 pp 81–112
    [Google Scholar]
  3. McGenity TJ, Gemmell RT, Grant WD, Stan-Lotter H. Origins of halophilic microorganisms in ancient salt deposits. Environ Microbiol 2000; 2:243–250 [View Article][PubMed]
    [Google Scholar]
  4. Norton CF, McGenity TJ, Grant WD. Archaeal halophiles (halobacteria) from two British salt mines. J Gen Microbiol 1993; 139:1077–1081 [View Article]
    [Google Scholar]
  5. Kelbrick M, Oliver J, Ramkissoon NK, Dugdale A, Stephens BP. Viability of microbes from analogue environments under simulated Martian chemical conditions. Int J Astrobiol 2021 (submitted)
    [Google Scholar]
  6. Bowman JP, McMeekin TA, Order X. Alteromonadales ord. nov. In Brenner DJ, Krieg NR, Staley JT, Garrity GM. (editors) Bergey’s Manual of Systematic Bacteriology, 2nd ed. New York: Springer; 2005 p 443
    [Google Scholar]
  7. Ling S-K, Guo L-Y, Chen G-J, Du Z-J. Motilimonas eburnea gen. nov., sp. nov., isolated from coastal sediment. Int J Syst Evol Microbiol 2017; 67:306–310 [View Article][PubMed]
    [Google Scholar]
  8. Wang F-Q, Ren L-H, Lin Y-W, Sun G-H, Du Z-J et al. Motilimonas pumila sp. nov., isolated from the gut of sea cucumber Apostichopus japonicus . Int J Syst Evol Microbiol 2019; 69:811–815 [View Article][PubMed]
    [Google Scholar]
  9. Griffiths RI, Whiteley AS, O'Donnell AG, Bailey MJ. Rapid method for coextraction of DNA and RNA from natural environments for analysis of ribosomal DNA- and rRNA-based microbial community composition. Appl Environ Microbiol 2000; 66:5488–5491 [View Article][PubMed]
    [Google Scholar]
  10. Lane DJ. 16S/23S rRNA sequencing. Nucleic acid Tech Bact Syst 1991115–175
    [Google Scholar]
  11. Yoon S-H, Ha S-M, 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][PubMed]
    [Google Scholar]
  12. Bolger AM, Lohse M, Usadel B. Trimmomatic: a flexible trimmer for illumina sequence data. Bioinformatics 2014; 30:2114–2120 [View Article][PubMed]
    [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][PubMed]
    [Google Scholar]
  14. Seemann T. Prokka: rapid prokaryotic genome annotation. Bioinformatics 2014; 30:2068–2069 [View Article][PubMed]
    [Google Scholar]
  15. Lee I, Chalita M, Ha S-M, Na S-I, Yoon S-H et al. ContEst16S: an algorithm that identifies contaminated prokaryotic genomes using 16S RNA gene sequences. Int J Syst Evol Microbiol 2017; 67:2053–2057 [View Article][PubMed]
    [Google Scholar]
  16. Diepenbroek M, Glöckner FO. Towards an Integrated Biodiversity and Ecological Research Data Management and Archiving Platform : The German federation for the curation of biological data (GFBio.. Lecture Notes in Informatics 20141711–1721
    [Google Scholar]
  17. Meier-Kolthoff JP, Auch AF, Klenk H-P, Göker M. Genome sequence-based species delimitation with confidence intervals and improved distance functions. BMC Bioinformatics 2013; 14:60 [View Article][PubMed]
    [Google Scholar]
  18. Meier-Kolthoff JP, Klenk H-P, Göker M. Taxonomic use of DNA G+C content and DNA-DNA hybridization in the genomic age. Int J Syst Evol Microbiol 2014; 64:352–356 [View Article][PubMed]
    [Google Scholar]
  19. Rodriguez-R L, Konstantinidis K. The enveomics collection: a toolbox for specialized analyses of microbial genomes and metagenomes; 2016e1900v1
  20. Yilmaz P, Parfrey LW, Yarza P, Gerken J, Pruesse E et al. The SILVA and “All-species Living Tree Project (LTP)” taxonomic frameworks. Nucleic Acids Res 2014; 42:D643–D648 [View Article]
    [Google Scholar]
  21. Posada D, Crandall KA. Selecting the best-fit model of nucleotide substitution. Syst Biol 2001; 50:580–601 [View Article][PubMed]
    [Google Scholar]
  22. Darriba D, Posada D, Kozlov AM, Stamatakis A, Morel B et al. ModelTest-NG: a new and scalable tool for the selection of DNA and protein evolutionary models. Mol Biol Evol 2020; 37:291–294 [View Article][PubMed]
    [Google Scholar]
  23. Guindon S, Dufayard J-F, Lefort V, Anisimova M, Hordijk W et al. New algorithms and methods to estimate maximum-likelihood phylogenies: assessing the performance of PhyML 3.0. Syst Biol 2010; 59:307–321 [View Article][PubMed]
    [Google Scholar]
  24. Stackebrandt E, Ebers J. Taxonomic parameters revisited: tarnished gold standards. Microbiol Today 2006; 33:152–155
    [Google Scholar]
  25. Goris J, Konstantinidis KT, Klappenbach JA, Coenye T, Vandamme P et al. DNA–DNA hybridization values and their relationship to whole-genome sequence similarities. Int J Syst Evol Microbiol 2007; 57:81–91 [View Article]
    [Google Scholar]
  26. Antunes A, França L, Rainey FA, Huber R, Nobre MF et al. Marinobacter salsuginis sp. nov., isolated from the brine-seawater interface of the Shaban Deep, Red Sea. Int J Syst Evol Microbiol 2007; 57:1035–1040 [View Article][PubMed]
    [Google Scholar]
  27. Kumar S, Karan R, Kapoor S, S P S, S K K. Screening and isolation of halophilic bacteria producing industrially important enzymes. Braz J Microbiol 2012; 43:1595–1603 [View Article][PubMed]
    [Google Scholar]
  28. Sasser M. Technical Note # 101 Bacterial Identification by Gas Chromatographic Analysis of Fatty Acids Methyl Esters (GC-FAME).. Stat 20061–6
    [Google Scholar]
  29. Tindall BJ, Sikorski J, Smibert RA, Krieg NR et al. Phenotypic Characterization and the Principles of Comparative Systematics. In Reddy CA, Beveridge TJ, Breznak JA, Marzluf G, Schmidt TM. (editors) Methods for General and Molecular Microbiology, 4th ed. Washington, DC: ASM Press; 2017 pp 330–393
    [Google Scholar]
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