Citrimicrobium luteum gen. nov., sp. nov., aerobic anoxygenic phototrophic bacterium isolated from the gut of a sea cucumber Stichopus japonicus
详细信息 查看全文
- 作者：Hong-Joo Jung ; In-Tae Cha ; Kyung June Yim ; Hye Seon Song…
- 关键词：Citrimicrobium luteum ; sea cucumber ; Stichopus japonicus ; gut bacterium ; polyphasic taxonomy
- 刊名：Journal of Microbiology
- 出版年：2014
- 出版时间：October 2014
- 年：2014
- 卷：52
- 期：10
- 页码：819-824
- 全文大小：616 KB
- 参考文献：1. Beja, O., Suzuki, M.T., Heidelberg, J.F., Nelson, W.C., Preston, C.M., Hamada, T., Eisen, J.A., Fraser, C.M., and DeLong, E.F. 2002. Unsuspected diversity among marine aerobic anoxygenic phototrophs. / Nature 415, 630-33. CrossRef
2. Cha, I.T., Park, S.J., Kim, S.J., Kim, J.G., Jung, M.Y., Shin, K.S., Kwon, K.K., Yang, S.H., Seo, Y.S., and Rhee, S.K. 2013. / Marinoscillum luteum sp. nov., isolated from marine sediment. / Int. J. Syst. Evol. Microbiol. 63, 3475-480. CrossRef
3. Clayton, R.K. 1996. Spectroscopic analysis of bacteriochlorophyll / in vivo and / in vitro. / Photochem. Photobiol. 5, 669-77. CrossRef
4. Collins, M.D. and Jones, D. 1981. Distribution of isoprenoid quinone structural types in bacteria and their taxonomic implication. / Microbiol. Rev. 45, 316-54.
5. Denner, E.B., Vybiral, D., Koblizek, M., Kampfer, P., Busse, H.J., and Velimirov, B. 2002. / Erythrobacter citreus sp. nov., a yellowpigmented bacterium that lacks bacteriochlorophyll / a, isolated from the western Mediterranean Sea. / Int. J. Syst. Evol. Microbiol. 52, 1655-661. CrossRef
6. Dittmer, J.C. and Lester, R.L. 1964. A simple, specific spray for the detection of phospholipids on thin-layer chromatograms. / J. Lipid Res. 5, 126-27.
7. Fan, Z.Y., Xiao, Y.P., Hui, W., Tian, G.R., Lee, J.S., Lee, K.C., and Quan, Z.X. 2011. / Altererythrobacter dongtanensis sp. nov., isolated from a tidal flat. / Int. J. Syst. Evol. Microbiol. 61, 2035-039. CrossRef
8. Felsenstein, J. 1981. Evolutionary trees from DNA sequences: a maximum likelihood approach. / J. Mol. Evol. 17, 368-76. CrossRef
9. Fitch, W.M. 1971. Toward defining the course of evolution: minimum change for a specific tree topology. / Syst. Zool. 20, 406-16. CrossRef
10. González, J.M., Mayer, F., Moran, M.A., Hodson, R.E., and Whitman, W.B. 1997. / Microbulbifer hydrolyticus gen. nov., sp. nov., and / Marinobacterium georgiense gen. nov., sp. nov., two marine bacteria from a lignin-rich pulp mill waste enrichment community. / Int. J. Syst. Bacteriol. 47, 369-76. CrossRef
11. Jeong, S.H., Jin, H.M., Lee, H.J., and Jeon, C.O. 2013. / Altererythrobacter gangjinensis sp. nov., a marine bacterium isolated from a tidal flat. / Int. J. Syst. Evol. Microbiol. 63, 971-76. CrossRef
12. Jung, Y.T., Park, S., Oh, T.K., and Yoon, J.H. 2012. / Erythrobacter marinus sp. nov., isolated from seawater. / Int. J. Syst. Evol. Microbiol. 62, 2050-055. CrossRef
13. Kaiser, P., Geyer, R., Surmann, P., and Fuhrmann, H. 2012. LC-MS method for screening unknown microbial carotenoids and isoprenoid quinones. / J. Microbiol. Methods 88, 28-4. CrossRef
14. Kim, O.S., Cho, Y.J., Lee, K., Yoon, S.H., Kim, M., Na, H., Park, S.C., Jeon, Y.S., Lee, J.H., Yi, H., and et al. 2012. Introducing EzTaxon-e: a prokaryotic 16S rRNA gene sequence database with phylotypes that represent uncultured species. / Int. J. Syst. Evol. Microbiol. 62, 716-21. CrossRef
15. Kumar, N.R., Nair, S., Langer, S., Busse, H.J., and Kampfer, P. 2008. / Altererythrobacter indicus sp. nov., isolated from wild rice ( / Porteresia coarctata Tateoka). / Int. J. Syst. Evol. Microbiol. 58, 839-44. CrossRef
16. Lee, H.W., Roh, S.W., Shin, N.R., Lee, J., Whon, T.W., Jung, M.J., Yun, J.H., Kim, M.S., Hyun, D.W., Kim, D., and et al. 2013. / Blastopirellula cremea sp. nov., isolated from a dead ark clam. / Int. J. Syst. Evol. Microbiol. 63, 2314-319. CrossRef
17. Mesbah, M. and Whitman, W.B. 1989. Measurement of deoxyguanosine/ thymidine ratios in complex mixtures by high-performance liquid chromatography for determination of the mole percentage guanine + cytosine of DNA. / J. Chromatogr. 479, 297-06. CrossRef
18. MIDI. 1999. Sherlock Microbial Identification System Operating Manual, version 3.0. MIDI, Inc., Newark, DE, USA.
19. Nagashima, K.V., Hiraishi, A., Shimada, K., and Matsuura, K. 1997. Horizontal transfer of genes coding for the photosynthetic reaction centers of purple bacteria. / J. Mol. Evol. 45, 131-36. CrossRef
20. Park, S.C., Baik, K.S., Choe, H.N., Lim, C.H., Kim, H.J., Ka, J.O., and Seong, C.N. 2011. / Altererythrobacter namhicola sp. nov. and / Altererythrobacter aestuarii sp. nov., isolated from seawater. / Int. J. Syst. Evol. Microbiol. 61, 709-15. CrossRef
21. Pruesse, E., Peplies, J., and Glockner, F.O. 2012. SINA: accurate high-throughput multiple sequence alignment of ribosomal RNA genes. / Bioinformatics 28, 1823-829. CrossRef
22. Roh, S.W., Lee, M., Lee, H.W., Yim, K.J., Heo, S.Y., Kim, K.N., Yoon, C., Nam, Y.D., Kim, J.Y., Hyun, D.W., and et al. 2013. / Gillisia marina sp. nov., from seashore sand, and emended description of the genus / Gillisia. / Int. J. Syst. Evol. Microbiol. 63, 3640-645. CrossRef
23. Roh, S.W., Sung, Y., Nam, Y.D., Chang, H.W., Kim, K.H., Yoon, J.H., Jeon, C.O., Oh, H.M., and Bae, J.W. 2008. / Arthrobacter soli sp. nov., a novel bacterium isolated from wastewater reservoir sediment. / J. Microbiol. 46, 40-4. CrossRef
24. Saitou, N. and Nei, M. 1987. The neighbor-joining method: a new method for reconstructing phylogenetic trees. / Mol. Biol. Evol. 4, 406-25.
25. Sasser, M. 1990. Identification of bacteria by gas chromatography of cellular fatty acids. MIDI Inc., Newark, DE, USA.
26. Shiba, T. and Simidu, U. 1982. / Erythrobacter longus gen. nov., sp. nov., an aerobic bacterium which contains bacteriochlorophyll a. / Int. J. Syst. Bacteriol. 32, 211-17. CrossRef
27. Smibert, R.M. and Krieg, N.R. 1994. Phenotypic characterization, pp. 607-54. / In Gerhardt, P., Murray, R.G.E., Wood, W.A., and Krieg, N.R. (eds.), Methods for General and Molecular Bacteriology. American Society for Microbiology, Washington, DC, USA.
28. Subhash, Y., Tushar, L., Sasikala, C., and Ramana Ch, V. 2013. / Erythrobacter odishensis sp. nov. and / Pontibacter odishensis sp. nov. isolated from dry soil of a solar saltern. / Int. J. Syst. Evol. Microbiol. 63, 4524-532. CrossRef
29. Tamura, K., Peterson, D., Peterson, N., Stecher, G., Nei, M., and Kumar, S. 2011. MEGA5: molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods. / Mol. Biol. Evol. 28, 2731-739. CrossRef
30. Waidner, L.A. and Kirchman, D.L. 2008. Diversity and distribution of ecotypes of the aerobic anoxygenic phototrophy gene pufM in the Delaware estuary. / Appl. Environ. Microbiol. 74, 4012-021. CrossRef
31. Wu, H.X., Lai, P.Y., Lee, O.O., Zhou, X.J., Miao, L., Wang, H., and Qian, P.Y. 2012. / Erythrobacter pelagi sp. nov., a member of the family / Erythrobacteraceae isolated from the Red Sea. / Int. J. Syst. Evol. Microbiol. 62, 1348-353. CrossRef
32. Wu, Y.H., Xu, L., Meng, F.X., Zhang, D.S., Wang, C.S., Oren, A., and Xu, X.W. 2014. / Altererythrobacter atlanticus sp. nov., isolated from deep-sea sediment. / Int. J. Syst. Evol. Microbiol. 64, 116-21. CrossRef
33. Xu, M., Xin, Y., Yu, Y., Zhang, J., Zhou, Y., Liu, H., Tian, J., and Li, Y. 2010. / Erythrobacter nanhaisediminis sp. nov., isolated from marine sediment of the South China Sea. / Int. J. Syst. Evol. Microbiol. 60, 2215-220. CrossRef
34. Xue, X., Zhang, K., Cai, F., Dai, J., Wang, Y., Rahman, E., Peng, F., and Fang, C. 2012. / Altererythrobacter xinjiangensis sp. nov., isolated from desert sand, and emended description of the genus / Altererythrobacter. / Int. J. Syst. Evol. Microbiol. 62, 28-2. CrossRef
35. Yim, K.J., Cha, I.T., Whon, T.W., Lee, H.W., Song, H.S., Kim, K.N., Nam, Y.D., Lee, S.J., Bae, J.W., Rhee, S.K., and et al. 2014. / Halococcus sediminicola sp. nov., an extremely halophilic archaeon isolated from a marine sediment. / Antonie van Leeuwenhoek 105, 73-9. CrossRef
36. Yoon, J.H., Kang, S.J., Lee, M.H., Oh, H.W., and Oh, T.K. 2006. / Porphyrobacter dokdonensis sp. nov., isolated from sea water. / Int. J. Syst. Evol. Microbiol. 56, 1079-083. CrossRef
37. Yoon, J.H., Kang, K.H., Oh, T.K., and Park, Y.H. 2004. / Erythrobacter aquimaris sp. nov., isolated from sea water of a tidal flat of the Yellow Sea in Korea. / Int. J. Syst. Evol. Microbiol. 54, 1981-985. CrossRef
38. Yoon, B.J., Lee, D.H., and Oh, D.C. 2013. / Erythrobacter jejuensis sp. nov., isolated from seawater. / Int. J. Syst. Evol. Microbiol. 63, 1421-426. CrossRef
39. Yoon, J.H., Oh, T.K., and Park, Y.H. 2005. / Erythrobacter seohaensis sp. nov. and / Erythrobacter gaetbuli sp. nov., isolated from a tidal flat of the Yellow Sea in Korea. / Int. J. Syst. Evol. Microbiol. 55, 71-5. CrossRef
40. Yurkov, V.V., Krieger, S., Stackebrandt, E., and Beatty, J.T. 1999. / Citromicrobium bathyomarinum, a novel aerobic bacterium isolated from deep-sea hydrothermal vent plume waters that contains photosynthetic pigment-protein complexes. / J. Bacteriol. 181, 4517-525.
41. Yurkov, V., Stackebrandt, E., Holmes, A., Fuerst, J.A., Hugenholtz, P., Golecki, J., Gad’on, N., Gorlenko, V.M., Kompantseva, E.I., and Drews, G. 1994. Phylogenetic positions of novel aerobic, bacteriochlorophyll / a-containing bacteria and description of / Roseococcus thiosulfatophilus gen. nov., sp. nov., / Erythromicrobium ramosum gen. nov., sp. nov., and / Erythrobacter litoralis sp. nov. / Int. J. Syst. Bacteriol. 44, 427-34. CrossRef - 作者单位：Hong-Joo Jung (1)
In-Tae Cha (2) (3)
Kyung June Yim (2)
Hye Seon Song (2)
Kichul Cho (2)
Daekyung Kim (2)
Hae-Won Lee (2)
Jae Kook Lee (2)
Myung-Ji Seo (3)
Seong Woon Roh (2)
Sung-Jae Lee (1)
1. Department of Biology and Department of Life and Nanopharmaceutical Sciences, Kyung Hee University, Seoul, 130-701, Republic of Korea
2. Jeju Center, Korea Basic Science Institute, Jeju, 690-756, Republic of Korea
3. Division of Bioengineering, Incheon National University, Incheon, 406-772, Republic of Korea - ISSN：1976-3794
文摘
A Gram-stain negative, yellow-pigmented, motile, pleomorphic bacterium, designated strain CBA4602T, was isolated from the gut of the sea cucumber Stichopus japonicus, which was collected from Jeju Island in the Republic of Korea. In a phylogenetic analysis based on the 16S rRNA gene, strain CBA4602T belonged to the order Sphingomonadales in the class Alphaproteobacteria. The 16S rRNA gene sequence similarity between strain CBA4602T and -em class="a-plus-plus">Citromicrobium bathyomarinum-JF-1, the most closely related strain having nonvalidly published name, was 98.4%, followed by 95.2-6.7% identities with sequence of the other closest strains in the genus Erythrobacter. Strain CBA4602T had bacteriochlorophyll a and carotenoids. Strain CBA4602T grew in 0-0% (w/v) NaCl, at 10-2°C and pH 6.0-.0, with optimal growth in 1-% NaCl, at 30-7°C and pH 7.0. Strain CBA4602T was positive for catalase and oxidase activities and was able to hydrolyse gelatine and Tween 20 and 40, but not starch, Tween 80 or l-tyrosine. The G+C content of genomic DNA from strain CBA4602T was 68.0 mol% and Q-10 was the major detected isoprenoid quinone. The polar lipids were three unidentified phospholipids, three unidentified glycolipids, and two unidentified lipids. The dominant fatty acids were anteiso-C15:0, C16:0, anteiso-C17:0 and C18:0. As considering the current taxonomic status of the genus -em class="a-plus-plus">Citromicrobium-and polyphasic taxonomic analyses, strain CBA4602T represents a novel genus and species. The name Citrimicrobium luteum is proposed for the type strain CBA4602T (=KACC 17668T =JCM 19530T).