Halomicroarcula pellucida gen. nov., sp. nov., a non-pigmented, transparent-colony-forming, halophilic archaeon isolated from solar salt

International Journal of Systematic and Evolutionary Microbiology

Volumn 63, Issue PART10, 2013, Pages 3556-3562

  Echigo, Akinobu ^a   Minegishi, Hiroaki ^a   Shimane, Yasuhiro ^b   Kamekura, Masahiro ^c   Itoh, Takashi ^d   Usami, Ron ^a  

^a TOYO UNIVERSITY   (Japan)

^b JAPAN AGENCY FOR MARINE EARTH SCIENCE AND TECHNOLOGY   (Japan)

^c Halophiles Research Institute   (Japan)

^d RIKEN BIORESOURCE CENTER   (Japan)

Author keywords

[No Author keywords available]

Indexed keywords

CASAMINO ACID; CITRATE SODIUM; GLUTAMATE SODIUM; PHOSPHATIDYLGLYCEROL; RNA 16S; RNA POLYMERASE; SODIUM CHLORIDE; STARCH;

AGAR MEDIUM; ARTICLE; BACTERIAL GROWTH; BACTERIAL STRAIN; CARBON SOURCE; GENE SEQUENCE; GENUS; HALOARCULA MARISMORTUI; HALOMICROARCULA PELLUCIDA; HALOPHILIC ARCHAEON; LIQUID CULTURE; NONHUMAN; NUCLEOTIDE SEQUENCE; ORGANIC NUTRIENT; PH; PRIORITY JOURNAL; SPECIES; TYPE STRAIN; YEAST;

BASE COMPOSITION; DNA, ARCHAEAL; DNA-DIRECTED RNA POLYMERASES; FRANCE; GENES, ARCHAEAL; HALOBACTERIACEAE; LIPIDS; MOLECULAR SEQUENCE DATA; PHYLOGENY; RNA, RIBOSOMAL, 16S; SODIUM CHLORIDE;

EID: 84885235227     PISSN: 14665026     EISSN: None     Source Type: Journal    
DOI: 10.1099/ijs.0.049965-0     Document Type: Article

References (30)

1. Cline, S. W., Schalkwyk, L. C. & Doolittle, W. F. (1989). Transformation of the archaebacterium Halobacterium volcanii with genomic DNA. J Bacteriol 171, 4987-4991.
2. Cui, H.-L., Zhou, P. J., Oren, A. & Liu, S. J. (2009). Intraspecific polymorphism of 16S rRNA genes in two halophilic archaeal genera, Haloarcula and Halomicrobium. Extremophiles 13, 31-37.
3. Dussault, H. P. (1955). An improved technique for staining red halophilic bacteria. J Bacteriol 70, 484-485.
4. Elazari-Volcani, B. (1957). Genus XII. Halobacterium Elazari-Volcani. In Bergey's Manual of Determinative Bacteriology, 7th edn, pp. 207-212. Edited by R. S. Breed, R. G. D. Murray & N. R. Smith. Baltimore: Williams & Wilkins.
5. Felsenstein, J. (1985). Confidence limits on phylogenies: An approach using the bootstrap. Evolution 39, 783-791.
6. Felsenstein, J. (2002). PHYLIP (phylogeny inference package), version 3.6a. Distributed by the author. Department of Genome Sciences, University of Washington, Seattle, USA.
7. Gonzalez, C., Gutierrez, C. & Ramirez, C. (1978). Halobacterium vallismortis sp. nov. An amylolytic and carbohydrate-metabolizing, extremely halophilic bacterium. Can J Microbiol 24, 710-715.
8. Ihara, K., Watanabe, S. & Tamura, T. (1997). Haloarcula argentinensis sp. nov. and Haloarcula mukohataei sp. nov., two new extremely halophilic archaea collected in Argentina. Int J Syst Bacteriol 47, 73-77.
9. Juez, G., Rodríguez-Valera, F., Ventosa, A. & Kushner, D. J. (1986). Haloarcula hispanica spec. nov. and Haloferax gibbonsii spec. nov., two new species of extremely halophilic archaebacteria. Syst Appl Microbiol 8, 75-79.
10. Kamekura, M. (1993). Lipids of extreme halophiles. In The Biology of Halophilic Bacteria, pp. 135-161. Edited by R. H. Vreeland & L. I. Hochstein. Boca Raton, FL: CRC Press.
11. Kharroub, K., Lizama, C., Aguilera, M., Boulahrouf, A., Campos, V., Ramos-Cormenzana, A. & Monteoliva-Sánchez, M. (2008). Halomicrobium katesii sp. nov., an extremely halophilic archaeon. Int J Syst Evol Microbiol 58, 2354-2358.
12. Larkin, M. A., Blackshields, G., Brown, N. P., Chenna, R., McGettigan, P. A., McWilliam, H., Valentin, F., Wallace, I. M., Wilm, A. & other authors (2007). CLUSTAL W and CLUSTAL_X version 2.0. Bioinformatics 23, 2947-2948.
13. Minegishi, H., Echigo, A., Nagaoka, S., Kamekura, M. & Usami, R. (2010a). Halarchaeum acidiphilum gen. nov., sp. nov., a moderately acidophilic haloarchaeon isolated from commercial solar salt. Int J Syst Evol Microbiol 60, 2513-2516.
14. Minegishi, H., Kamekura, M., Itoh, T., Echigo, A., Usami, R. & Hashimoto, T. (2010b). Further refinement of the phylogeny of the Halobacteriaceae based on the full-length RNA polymerase subunit B' (rpoB') gene. Int J Syst Evol Microbiol 60, 2398-2408.
15. Minegishi, H., Kamekura, M., Kitajima-Ihara, T., Nakasone, K., Echigo, A., Shimane, Y., Usami, R., Itoh, T. & Ihara, K. (2012). Gene orders in the upstream of 16S rRNA genes divide genera of the family Halobacteriaceae into two groups. Int J Syst Evol Microbiol 62, 188-195.
16. Miyazaki, S., Sugawara, H., Gojobori, T. & Tateno, Y. (2003). DNA Data Bank of Japan (DDBJ) in XML. Nucleic Acids Res 31, 13-16.
17. Namwong, S., Tanasupawat, S., Kudo, T. & Itoh, T. (2011). Haloarcula salaria sp. nov. and Haloarcula tradensis sp. nov., isolated from salt in Thai fish sauce. Int J Syst Evol Microbiol 61, 231-236.
18. Oren, A., Ginzburg, M., Ginzburg, B. Z., Hochstein, L. I. & Volcani, B. E. (1990). Haloarcula marismortui (Volcani) sp. nov., nom. rev., an extremely halophilic bacterium from the Dead Sea. Int J Syst Bacteriol 40, 209-210.
19. Oren, A., Ventosa, A. & Grant, W. D. (1997). Proposed minimal standards for description of new taxa in the order Halobacteriales. Int J Syst Bacteriol 47, 233-238.
20. Oren, A., Ventosa, A., Gutiérrez, M. C. & Kamekura, M. (1999). Haloarcula quadrata sp. nov., a square, motile archaeon isolated from a brine pool in Sinai (Egypt). Int J Syst Bacteriol 49, 1149-1155.
21. Oren, A., Elevi, R., Watanabe, S., Ihara, K. & Corcelli, A. (2002). Halomicrobium mukohataei gen. nov., comb. nov., and emended description of Halomicrobium mukohataei. Int J Syst Evol Microbiol 52, 1831-1835.
22. Saitou, N. & Nei, M. (1987). The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 4, 406-425.
23. Smibert, R. M. & Krieg, N. R. (1994). Phenotypic characterization. In Methods for General and Molecular Bacteriology, pp. 607-654. Edited by P. Gerhardt. Washington, DC: American Society for Microbiology.
24. Stamatakis, A., Ludwig, T. & Meier, H. (2005). RAxML-III: a fast program for maximum likelihood-based inference of large phylogenetic trees. Bioinformatics 21, 456-463.
25. Takashina, T., Hamamoto, T., Otozai, K., Grant, W. D. & Horikoshi, K. (1990). Haloarcula japonica sp. nov., a new triangular halophilic archaebacterium. Syst Appl Microbiol 13, 177-181.
26. Tamaoka, J. & Komagata, K. (1984). Determination of DNA base composition by reversed-phase high-performance liquid chromatography. FEMS Microbiol Lett 25, 125-128.
27. Tindall, B. J., Schneider, S., Lapidus, A., Copeland, A., Glavina Del R io, T., Nolan, M., Lucas, S., Chen, F., Tice, H. & other authors (2009). Complete genome sequence of Halomicrobium mukohataei type strain (arg-2). Stand Genomic Sci 1, 270-277.
28. Torreblanca, M., Rodriguez-Valera, F., Juez, G., Ventosa, A., Kamekura, M. & Kates, M. (1986). Classification of non-alkaliphilic halobacteria based on numerical taxonomy and polar lipid composition, and description of Haloarcula gen. nov. and Haloferax gen. nov. Syst Appl Microbiol 8, 89-99.
29. Yang, X. & Cui, H.-L. (2012). Halomicrobium zhouii sp. nov., a halophilic archaeon from a marine solar saltern. Int J Syst Evol Microbiol 62, 1235-1240.
30. Yang, Y., Cui, H.-L., Zhou, P. J. & Liu, S. J. (2007). Haloarcula amylolytica sp. nov., an extremely halophilic archaeon isolated from Aibi salt lake in Xin-Jiang, China. Int J Syst Evol Microbiol 57, 103-106.