Halolamina rubra sp. nov., a haloarchaeon isolated from non-purified solar salt
详细信息 查看全文
- 作者：In-Tae Cha (1) (2)
Kyung June Yim (1)
Hye Seon Song (1)
Hae-Won Lee (1) (3)
Dong-Wook Hyun (4)
Kil-Nam Kim (1)
Jong-Soon Choi (5) (6)
Daekyung Kim (1)
Sung-Jae Lee (4)
Myung-Ji Seo (7)
Hak-Jong Choi (3)
Jin-Woo Bae (4)
Sung-Keun Rhee (2)
Seong Woon Roh (1)
Young-Do Nam (8) - 关键词：Haloarchaea ; Halolamina rubra sp. nov. ; Solar salt ; Polyphasic taxonomy
- 刊名：Antonie van Leeuwenhoek
- 出版年：2014
- 出版时间：May 2014
- 年：2014
- 卷：105
- 期：5
- 页码：907-914
- 全文大小：269 KB
- 参考文献：1. Agarwal S, Hunnicutt DW, McBride MJ (1997) Cloning and characterization of the / Flavobacterium johnsoniae ( / Cytophaga johnsonae) gliding motility gene, / gldA. Proc Natl Acad Sci USA 94(22):12139-2144 CrossRef
2. Altschul SF, Gish W, Miller W, Myers EW, Lipman DJ (1990) Basic local alignment search tool. J Mol Biol 215(3):403-10
3. Antunes A, Taborda M, Huber R, Moissl C, Nobre MF, da Costa MS (2008) / Halorhabdus tiamatea sp. nov., a non-pigmented, extremely halophilic archaeon from a deep-sea, hypersaline anoxic basin of the Red Sea, and emended description of the genus / Halorhabdus. Int J Syst Evol Microbiol 58(1):215-20 CrossRef
4. Benson HJ (2002) Microbiological applications: a laboratory manual in general microbiology. McGraw-Hill, New York
5. Bernardet JF, Nakagawa Y, Holmes B (2002) Proposed minimal standards for describing new taxa of the family / Flavobacteriaceae and emended description of the family. Int J Syst Evol Microbiol 52(3):1049-070 CrossRef
6. Cui HL, Lin ZY, Dong Y, Zhou PJ, Liu SJ (2007) / Halorubrum litoreum sp. nov., an extremely halophilic archaeon from a solar saltern. Int J Syst Evol Microbiol 57(Pt 10):2204-206 CrossRef
7. Cui HL, Zhou PJ, Oren A, Liu SJ (2009) Intraspecific polymorphism of 16S rRNA genes in two halophilic archaeal genera, / Haloarcula and / Halomicrobium. Extremophiles 13(1):31-7 CrossRef
8. Cui HL, Gao X, Yang X, Xu XW (2011) / Halolamina pelagica gen. nov., sp. nov., a new member of the family / Halobacteriaceae. Int J Syst Evol Microbiol 61(7):1617-621 CrossRef
9. Dittmer JC, Lester RL (1964) A simple, specific spray for the detection of phospholipids on thin-layer chromatograms. J Lipid Res 15:126-27
10. Dussault HP (1955) An improved technique for staining red halophilic bacteria. J Bacteriol 70(4):484-85
11. Ezaki T, Hashimoto H, Yabuuchi E (1989) Fluorometric deoxyribonucleic acid-deoxyribonucleic acid hybridization in microdilution wells as an alternative to membrane filter hybridization in which radioisotopes are used to determine genetic relatedness among bacterial strains. Int J Syst Bacteriol 39:224-29 CrossRef
12. Felsenstein J (1981) Evolutionary trees from DNA sequences: a maximum likelihood approach. J Mol Evol 17(6):368-76 CrossRef
13. Gonzalez JM, Saiz-Jimenez C (2002) A fluorimetric method for the estimation of G+C mol% content in microorganisms by thermal denaturation temperature. Environ Microbiol 4(11):770-73 CrossRef
14. Gonzalez C, Gutierrez C, Ramirez C (1978) / Halobacterium vallismortis sp. nov. An amylolytic and carbohydrate-metabolizing, extremely halophilic bacterium. Can J Microbiol 24(6):710-15 CrossRef
15. Grant WD (2004) Life at low water activity. Philos Trans R Soc Lond B Biol Sci 359:1249-267 CrossRef
16. Kim OS, Cho YJ, Lee K, Yoon SH, Kim M, Na H, Park SC, Jeon YS, Lee JH, Yi H, Won S, Chun J (2012) Introducing EzTaxon-e: a prokaryotic 16S rRNA gene sequence database with phylotypes that represent uncultured species. Int J Syst Evol Microbiol 62(3):716-21 CrossRef
17. Kimura M (1980) A simple method for estimating evolutionary rates of base substitutions through comparative studies of nucleotide sequences. J Mol Evol 16(2):111-20 CrossRef
18. Minegishi H, Kamekura M, Itoh T, Echigo A, Usami R, Hashimoto T (2010) Further refinement of the phylogeny of the / Halobacteriaceae based on the full-length RNA polymerase subunit B-( / rpoB-/em>) gene. Int J Syst Evol Microbiol 60(10):2398-408 CrossRef
19. Nei M, Kumar S, Takahashi K (1998) The optimization principle in phylogenetic analysis tends to give incorrect topologies when the number of nucleotides or amino acids used is small. Proc Natl Acad Sci USA 95(21):12390-2397 CrossRef
20. Oren A, Duker S, Ritter S (1996) The polar lipid composition of Walsby’s square bacterium. FEMS Microbiol Lett 138(2-):135-40 CrossRef
21. Oren A, Ventosa A, Grant WD (1997) Proposed minimal standards for description of new taxa in the order / Halobacteriales. Int J Syst Bacteriol 47(1):233-38 CrossRef
22. Pruesse E, Peplies J, Glockner FO (2012) SINA: accurate high-throughput multiple sequence alignment of ribosomal RNA genes. Bioinformatics 28(14):1823-829 CrossRef
23. Roh SW, Bae JW (2009) / Halorubrum cibi sp. nov., an extremely halophilic archaeon from salt-fermented seafood. J Microbiol 47(2):162-66 CrossRef
24. Roh SW, Nam Y-D, Chang H-W, Kim K-H, Lee H-J, Oh H-M, Bae J-W (2007a) / Natronococcus jeotgali sp. nov., a halophilic archaeon isolated from shrimp jeotgal, a traditional fermented seafood from Korea. Int J Syst Evol Microbiol 57(9):2129-131 CrossRef
25. Roh SW, Nam YD, Chang HW, Sung Y, Kim KH, Oh HM, Bae JW (2007b) / Halalkalicoccus jeotgali sp. nov., a halophilic archaeon from shrimp jeotgal, a traditional Korean fermented seafood. Int J Syst Evol Microbiol 57(10):2296-298 CrossRef
26. Roh SW, Sung Y, Nam YD, Chang HW, Kim KH, Yoon JH, Jeon CO, Oh HM, Bae JW (2008) / Arthrobacter soli sp. nov., a novel bacterium isolated from wastewater reservoir sediment. J Microbiol 46(1):40-4 CrossRef
27. Roh SW, Nam Y-D, Chang H-W, Kim K-H, Sung Y, Kim M-S, Oh H-M, Bae J-W (2009) / Haloterrigena jeotgali sp. nov., an extremely halophilic archaeon from salt-fermented food. Int J Syst Evol Microbiol 59:2359-363 CrossRef
28. Saitou N, Nei M (1987) The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 4(4):406-25
29. Sambrook J, Fritsch EF, Maniatis T (1989) Molecular cloning: a laboratory manual, 2nd edn. Cold Spring Harbor Laboratory, Cold Spring Harbor
30. Smibert RM, Krieg NR (1994) Phenotypic characterization. In: Gerhardt PRGEM, Wood WA. Wood, Kreig NR (eds) Methods for general and molecular bacteriology. American Society for Microbiology, Washington, DC, pp 607-54
31. Stackebrandt E, Goebel BM (1994) Taxonomic note: a place for DNA–DNA reassociation and 16S rRNA sequence analysis in the present species definition in bacteriology. Int J Syst Bacteriol 44:846-49 CrossRef
32. Tamura K, Peterson D, Peterson N, Stecher G, Nei M, Kumar S (2011) MEGA5: molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods. Mol Biol Evol 28(10):2731-739 CrossRef
33. Wayne LG, Brenner DJ, Colwell RR, Grimont PAD, Kandler O, Krichevsky MI, Moore LH, Moore WEC, Murray RGE, Stackebrandt E, Starr MP, Truper HG (1987) International committee on systematic bacteriology. Report of the ad hoc committee on reconciliation of approaches to bacterial systematics. Int J Syst Bacteriol 37:463-64 CrossRef
34. Xin H, Itoh T, Zhou P, Suzuki K, Kamekura M, Nakase T (2000) / Natrinema versiforme sp. nov., an extremely halophilic archaeon from Aibi salt lake, Xinjiang, China. Int J Syst Evol Microbiol 50:1297-303 CrossRef
35. Zhang WY Jr, Huo YY, Zhang XQ, Zhu XF, Wu M (2013) / Halolamina salifodinae sp. nov. and / Halolamina salina sp. nov., two extremely halophilic archaea isolated from a salt mine. Int J Syst Evol Microbiol 63(12):4380-385 CrossRef - 作者单位：In-Tae Cha (1) (2)
Kyung June Yim (1)
Hye Seon Song (1)
Hae-Won Lee (1) (3)
Dong-Wook Hyun (4)
Kil-Nam Kim (1)
Jong-Soon Choi (5) (6)
Daekyung Kim (1)
Sung-Jae Lee (4)
Myung-Ji Seo (7)
Hak-Jong Choi (3)
Jin-Woo Bae (4)
Sung-Keun Rhee (2)
Seong Woon Roh (1)
Young-Do Nam (8)
1. Jeju Center, Korea Basic Science Institute, Jeju, 690-140, Republic of Korea
2. Department of Microbiology, Chungbuk National University, Cheongju, 361-763, Republic of Korea
3. World Institute of Kimchi, Gwangju, 503-360, Republic of Korea
4. Department of Life and Nanopharmaceutical Sciences and Department of Biology, Kyung Hee University, Seoul, 130-701, Republic of Korea
5. Division of Life Science, Korea Basic Science Institute, Daejeon, 305-806, Republic of Korea
6. Graduate School of Analytical Science and Technology, Chungnam National University, Daejeon, 305-764, Republic of Korea
7. Division of Bioengineering, Incheon National University, Incheon, 406-772, Republic of Korea
8. Fermentation and Functionality Research Group, Korea Food Research Institute, Sungnam, 463-746, Republic of Korea - ISSN：1572-9699
文摘
Two Gram-stain negative, rod-shaped and motile extreme halophiles, designated CBA1107T and CBA1108, were isolated from non-purified solar salt. Based on the phylogenetic analysis, strains CBA1107T and CBA1108 were shown to belong to the genus Halolamina, with similarities for the 16S rRNA gene sequences between strains CBA1107T and Halolamina pelagica TBN21T , Halolamina salina WSY15-H3T and Halolamina salifodinae WSY15-H1T of 98.3, 97.6 and 97.3?%, respectively; the similarities for the rpoB-gene sequences between the same strains were 96.0, 95.3 and 94.6?%, respectively. The colonies of both strains were observed to be red pigmented on growth medium. Strain CBA1107T was observed to grow at 20-0?°C, in the presence of 15-0?% NaCl, at pH 6.0-.0, and with 0.005-.5?M?Mg2+. The cells of both strains lysed in distilled water. The DNA–DNA hybridization experiments showed that strain CBA1107T shared 97?% relatedness with CBA1108 and <50?% relatedness with H. pelagica JCM 16809T, H. salina JCM 18549T and H. salifodinae JCM 18548T. The genomic DNA G+C content of strain CBA1107T was determined to be 65.1?mol%. The major polar lipids of the two strains were phosphatidylglycerol, phosphatidylglycerol phosphate methyl ester, phosphatidylglycerol sulfate and glycolipids including sulfated mannosyl glucosyl diether and mannosyl glucosyl diether. Based on the polyphasic taxonomic analyses, the strains are considered to represent a new taxon for which the name Halolamina rubra sp. nov. is proposed, with the type strain CBA1107T (=CECT 8421T =JCM 19436T).