1887

Abstract

A polyphasic approach was used to characterize an aerobic, Gram-negative, rod-shaped bacterium (designated strain CC-KL-3) isolated from a hot spring. Phylogenetic analyses based on 16S rRNA genes indicated that strain CC-KL-3 showed highest sequence similarity to (97.7 %) and (97.6 %) and lower sequence similarity to other species (less than 97.6 %). The levels of DNA–DNA relatedness between strain CC-KL-3, and were estimated to be 13.0 and 8.7 % (the reciprocal value was 14.7 and 6.3 %). Strain CC-KL-3 was non-motile, without apparent flagella and able to grow between 15–42 °C (optimal 30 °С), pH 6.0–8.0 (optimal 7.0) and 0–2 % (w/v) NaCl (optimal 0 %). The DNA G+C content was 61.4 mol% and the major quinone system was ubiquinone (Q-8). The polyamine profile revealed the predominance of 2-hydroxyputrescine and putrescine and the dominant cellular fatty acids were C (28.9 %), Cω7/C ω6 (41.4 %) and Cω7/C ω6 (11.9 %). These data corroborated the affiliation of strain CC-KL-3 to the genus . Based on the distinct phylogenetic, phenotypic and chemotaxonomic traits, and the results of comparative 16S rRNA gene sequence analysis, strain CC-KL-3 is considered to represent a novel species of the genus , affiliated to the family , for which the name sp. nov. is proposed. The type strain is CC-KL-3 (=BCRC 80937=JCM 31216).

Loading

Article metrics loading...

/content/journal/ijsem/10.1099/ijsem.0.002146
2017-10-01
2024-04-23
Loading full text...

Full text loading...

/deliver/fulltext/ijsem/67/10/3716.html?itemId=/content/journal/ijsem/10.1099/ijsem.0.002146&mimeType=html&fmt=ahah

References

  1. Willems A, Busse J, Goor M, Pot B, Falsen E et al. Hydrogenophaga, a new genus of hydrogen-oxidizing bacteria that includes Hydrogenophaga flava comb. nov. (formerly Pseudomonas flava), Hydrogenophaga palleronii (formerly Pseudomonas palleronii), Hydrogenophaga pseudoflava (formerly Pseudomonas pseudoflava and "Pseudomonas carboxydoflava"), and Hydrogenophaga taeniospiralis (formerly Pseudomonas taeniospiralis). Int J Syst Bacteriol 1989; 39:319–333 [View Article]
    [Google Scholar]
  2. Yoon JH, Kang SJ, Ryu SH, Jeon CO, Oh TK, Tk O. Hydrogenophaga bisanensis sp. nov., isolated from wastewater of a textile dye works. Int J Syst Evol Microbiol 2008; 58:393–397 [View Article][PubMed]
    [Google Scholar]
  3. Contzen M, Moore ER, Blümel S, Stolz A, Kämpfer P. Hydrogenophaga intermedia sp. nov., a 4-aminobenzenesulfonate degrading organism. Syst Appl Microbiol 2000; 23:487–493 [View Article][PubMed]
    [Google Scholar]
  4. Kämpfer P, Schulze R, Jäckel U, Malik KA, Amann R et al. Hydrogenophaga defluvii sp. nov. and Hydrogenophaga atypica sp. nov., isolated from activated sludge. Int J Syst Evol Microbiol 2005; 55:341–344 [View Article][PubMed]
    [Google Scholar]
  5. Chung BS, Ryu SH, Park M, Jeon Y, Chung YR et al. Hydrogenophaga caeni sp. nov., isolated from activated sludge. Int J Syst Evol Microbiol 2007; 57:1126–1130 [View Article][PubMed]
    [Google Scholar]
  6. Du J, Yang JE, Singh H, Akter S, Won K et al. Hydrogenophaga luteola sp. nov. isolated from reed pond water. Antonie van Leeuwenhoek 2015; 108:695–701 [View Article][PubMed]
    [Google Scholar]
  7. Kim YJ, Kim MK, Weon HY, Kim HB, Yang DC et al. Hydrogenophaga temperata sp. nov., a betaproteobacterium isolated from compost in Korea. J Gen Appl Microbiol 2010; 56:419–425 [View Article][PubMed]
    [Google Scholar]
  8. Kimura Z, Okabe S. Hydrogenophaga electricum sp. nov., isolated from anodic biofilms of an acetate-fed microbial fuel cell. J Gen Appl Microbiol 2013; 59:261–266 [View Article][PubMed]
    [Google Scholar]
  9. Reinauer KM, Popovic J, Weber CD, Millerick KA, Kwon MJ et al. Hydrogenophaga carboriunda sp. nov., a tertiary butyl alcohol-oxidizing, psychrotolerant aerobe derived from granular-activated carbon (GAC). Curr Microbiol 2014; 68:510–517 [View Article][PubMed]
    [Google Scholar]
  10. Mantri S, Chinthalagiri MR, Gundlapally SR. Description of Hydrogenophaga laconesensis sp. nov. isolated from tube well water. Arch Microbiol 2016; 198:637–644 [View Article][PubMed]
    [Google Scholar]
  11. Edwards U, Rogall T, Blöcker H, Emde M, Böttger EC. Isolation and direct complete nucleotide determination of entire genes. characterization of a gene coding for 16S ribosomal RNA. Nucleic Acids Res 1989; 17:7843–7853 [View Article][PubMed]
    [Google Scholar]
  12. Heiner CR, Hunkapiller KL, Chen SM, Glass JI, Chen EY. Sequencing multimegabase-template DNA with BigDye terminator chemistry. Genome Res 1998; 8:557–561 [View Article][PubMed]
    [Google Scholar]
  13. 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: [View Article][PubMed]
    [Google Scholar]
  14. Thompson JD, Gibson TJ, Plewniak F, Jeanmougin F, Higgins DG. The CLUSTAL_X windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools. Nucleic Acids Res 1997; 25:4876–4882 [View Article][PubMed]
    [Google Scholar]
  15. 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 [View Article][PubMed]
    [Google Scholar]
  16. Saitou N, Nei M. The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 1987; 4:406–425[PubMed]
    [Google Scholar]
  17. Felsenstein J. Evolutionary trees from DNA sequences: a maximum likelihood approach. J Mol Evol 1981; 17:368–376 [View Article][PubMed]
    [Google Scholar]
  18. Fitch WM. Toward defining the course of evolution: minimum change for a specific tree topology. Syst Zool 1971; 20:406–416 [View Article]
    [Google Scholar]
  19. Felsenstein J. Confidence limits on phylogenies: an approach using the bootstrap. Evolution 1985; 39:783–791 [View Article][PubMed]
    [Google Scholar]
  20. Meier-Kolthoff JP, Göker M, Spröer C, Klenk HP. When should a DDH experiment be mandatory in microbial taxonomy?. Arch Microbiol 2013; 195:413–418 [View Article][PubMed]
    [Google Scholar]
  21. Seldin L, Dubnau D. Deoxyribonucleic acid homology among Bacillus polymyxa, Bacillus macerans, Bacillus azotofixans, and other nitrogen-fixing Bacillus strains. Int J Syst Bacteriol 1985; 35:151–154 [View Article]
    [Google Scholar]
  22. Wayne LG, Brenner DJ, Colwell RR, Grimont PAD, Kandler O et al. International committee on systematic bacteriology. report of the ad hoc committee on reconciliation of approaches to bacterial systematics. Int J Syst Bacteriol 1987; 37:463–464 [Crossref]
    [Google Scholar]
  23. Bernardet JF, Nakagawa Y, Holmes B. Subcommittee on the taxonomy of Flavobacterium and Cytophaga-like bacteria of the International Committee on Systematics of Prokaryotes Proposed minimal standards for describing new taxa of the family Flavobacteriaceae and emended description of the family. Int J Syst Evol Microbiol 2002; 52:1049–1070 [View Article][PubMed]
    [Google Scholar]
  24. Murray RGE, Doetsch RN, Robinow CF. Determination and cytological light microscopy. In Gerhardt P, Murray RGE, Wood WA, Krieg NR. (editors) Methods for General and Molecular Bacteriology Washington, DC: American Society for Microbiology; 1994 pp. 32–34
    [Google Scholar]
  25. Lai WA, Lin SY, Hameed A, Hsu YH, Liu YC et al. Leucobacter zeae sp. nov., isolated from the rhizosphere of maize (Zea mays L.). Int J Syst Evol Microbiol 2015; 65:4734–4742 [View Article][PubMed]
    [Google Scholar]
  26. Lin SY, Liu YC, Hameed A, Hsu YH, Lai WA et al. Azospirillum fermentarium sp. nov., a nitrogen-fixing species isolated from a fermenter. Int J Syst Evol Microbiol 2013; 63:3762–3768 [View Article][PubMed]
    [Google Scholar]
  27. Hameed A, Shahina M, Lin SY, Lai WA, Hsu YH et al. Aquibacter zeaxanthinifaciens gen. nov., sp. nov., a zeaxanthin-producing bacterium of the family Flavobacteriaceae isolated from surface seawater, and emended descriptions of the genera Aestuariibaculum and Gaetbulibacter . Int J Syst Evol Microbiol 2014; 64:138–145 [View Article][PubMed]
    [Google Scholar]
  28. Collins MD. Isoprenoid quinone analysis in classification and identification. In Goodfellow M, Minnikin DE. (editors) Chemical Methods in Bacterial Systematics London: Academic Press; 1985 pp. 267–287
    [Google Scholar]
  29. Miller LT. Single derivatization method for routine analysis of bacterial whole-cell fatty acid methyl esters, including hydroxy acids. J Clin Microbiol 1982; 16:584–586[PubMed]
    [Google Scholar]
  30. Paisley R. MIS Whole Cell Fatty Acid Analysis by Gas Chromatography Training Manual Newark, DE: MIDI; 1996
    [Google Scholar]
  31. Sasser M. Identification of Bacteria by Gas Chromatography of Cellular Fatty Acids, MIDI Technical Note 101. Newark, DE: MIDI Inc;
    [Google Scholar]
  32. Scherer P, Kneifel H. Distribution of polyamines in methanogenic bacteria. J Bacteriol 1983; 154:1315–1322[PubMed]
    [Google Scholar]
  33. Minnikin DE, O'Donnell AG, Goodfellow M, Alderson G, Athalye M et al. An integrated procedure for the extraction of bacterial isoprenoid quinones and polar lipids. J Microbiol Methods 1984; 2:233–241 [View Article]
    [Google Scholar]
  34. Mesbah M, Premachandran U, Whitman WB. Precise measurement of the G+C content of deoxyribonucleic acid by high-performance liquid chromatography. Int J Syst Bacteriol 1989; 39:159–167 [View Article]
    [Google Scholar]
http://instance.metastore.ingenta.com/content/journal/ijsem/10.1099/ijsem.0.002146
Loading
/content/journal/ijsem/10.1099/ijsem.0.002146
Loading

Data & Media loading...

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