과제정보
We thank Prof. Aharon Oren for his expert suggestion for correct species epithet and Latin etymology. This work was supported by the Program for Collection of Domestic Biological Resources from the National Institute of Biological Resources (NIBR No. 2020-02-001) of the Ministry of Environment (MOE) and the National Research Foundation (2017M3C1B5019250) of the Ministry of Science and ICT, Republic of Korea.
참고문헌
- Heulin T, Barakat M, Christen R, Lesourd M, Sutra L, De Luca G, et al. 2003. Ramlibacter tataouinensis gen. nov., sp. nov., and Ramlibacter henchirensis sp. nov., cyst-producing bacteria isolated from subdesert soil in Tunisia. Int. J. Syst. Evol. Microbiol. 53: 589-594. https://doi.org/10.1099/ijs.0.02482-0
- Lee DH, Cha CJ. 2017. Ramlibacter alkalitolerans sp. nov., alkali-tolerant bacterium isolated from soil of ginseng. Int. J. Syst. Evol. Microbiol. 67: 4619-4623. https://doi.org/10.1099/ijsem.0.002342
- Wang L, An DS, Kim SG, Jin FX, Kim SC, Lee ST, et al. 2012. Ramlibacter ginsenosidimutans sp. nov., with ginsenoside-converting activity. J. Microbiol. Biotechnol. 22: 311-315. https://doi.org/10.4014/jmb.1106.06041
- Lee HJ, Lee SH, Lee SS, Lee JS, Kim Y, Kim SC, et al. 2014. Ramlibacter solisilvae sp. nov., isolated from forest soil, and emended description of the genus Ramlibacter. Int. J. Syst. Evol. Microbiol. 64: 1317-1322. https://doi.org/10.1099/ijs.0.058396-0
- Chaudhary DK, Kim J. 2017. Ramlibacter monticola sp. nov., isolated from forest soil. Int. J. Syst. Evol. Microbiol. 67: 4468-4474. https://doi.org/10.1099/ijsem.0.002314
- Zhang XJ, Feng GD, Yao Q, Wang YH, Yang SZ, Zhu HH. 2019. Ramlibacter humi sp. nov., isolated from tropical forest soil. Int. J. Syst. Evol. Microbiol. 69: 3460-3464. https://doi.org/10.1099/ijsem.0.003641
- Yan ZF, Trinh H, Moya G, Lin P, Li CT, Kook M, et al. 2017. Ramlibacter rhizophilus sp. nov., isolated from rhizosphere soil of national flower Mugunghwa from South Korea. Int. J. Syst. Evol. Microbiol. 67: 3773-3777. https://doi.org/10.1099/ijsem.0.002191
- Akter S, Nam K, Lee SY, Moon SK, Choi C, Balusamy SR, et al. 2020. Ramlibacter pinisoli sp. nov., a novel bacterial species isolated from pine garden soil. Int. J. Syst. Evol. Microbiol. 70: 5841-5847. https://doi.org/10.1099/ijsem.0.004486
- Props R, Monsieurs P, Vandamme P, Leys N, Denef VJ, Boon N. 2019. Gene expansion and positive selection as bacterial adaptations to oligotrophic conditions. mSphere 4: e00011-19.
- Khan SA, Jung HS, Park HY, Jeon CO. 2021. Maritimibacter harenae sp. nov. and Sneathiella litorea sp. nov.: members of Alphaproteobacteria isolated from sea sand. Antonie Van Leeuwenhoek. 114: 799-811. https://doi.org/10.1007/s10482-021-01559-x
- Yoon SH, Ha SM, Kwon S, Lim J, Kim Y, Seo H, et al. 2017. Introducing EzBioCloud: A taxonomically united database of 16S rRNA and whole genome assemblies. Int. J. Syst. Evol. Microbiol. 67: 1613-1617. https://doi.org/10.1099/ijsem.0.001755
- Wang Q, Garrity GM, Tiedje JM, Cole JR. 2007. Naive Bayesian classifier for rapid assignment of rRNA sequences into the new bacterial taxonomy. Appl. Environ. Microbiol. 73: 5261-5267. https://doi.org/10.1128/AEM.00062-07
- Kumar S, Stecher G, Tamura K, Dudley J. 2016. MEGA7: molecular evolutionary genetics analysis version 7.0 for bigger datasets. Mol. Biol. Evol. 33: 1870-1874. https://doi.org/10.1093/molbev/msw054
- Sambrook J, Fritsch EF, Maniatis T. 1989. Molecular cloning: a laboratory manual, 2nd, Ed. Cold Spring Harbor, NY: Cold Spring Harbor Laboratory.
- Wick RR, Judd LM, Gorrie CL, Holt KE. 2017. Unicycler: Resolving bacterial genome assemblies from short and long sequencing reads. PLoS Comput. Biol. 13: e1005595. https://doi.org/10.1371/journal.pcbi.1005595
- Parks DH, Imelfort M, Skennerton CT, Hugenholtz P, Tyson GW. 2019. CheckM: assessing the quality of microbial genomes recovered from isolates, single cells, and metagenomes. Genome Res. 25: 1043-1055. https://doi.org/10.1101/gr.186072.114
- Lee I, Ouk Kim Y, Park SC, Chun J. 2016. OrthoANI: an improved algorithm and software for calculating average nucleotide identity. Int. J. Syst. Evol. Microbiol. 66: 1100-1103. https://doi.org/10.1099/ijsem.0.000760
- Meier-Kolthoff JP, Auch AF, Klenk H-P, Goker M. 2013. Genome sequence-based species delimitation with confidence intervals and improved distance functions. BMC Bioinformatics 14: 60. https://doi.org/10.1186/1471-2105-14-60
- Kim J, Na SI, Kim D, Chun J. 2021. UBCG2: up-to-date bacterial core gene and pipeline for phylogenomic analysis. J. Microbiol. 59: 609-615. https://doi.org/10.1007/s12275-021-1231-4
- Gomori G. 1955. Preparation of buffers for use in enzyme studies. Methods Enzymol. 1: 138-146. https://doi.org/10.1016/0076-6879(55)01020-3
- 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: 1049-1070. https://doi.org/10.1099/ijs.0.02136-0
- Tindall BJ, Sikorski J, Smibert RA, Krieg NR. 2007. Phenotypic characterization and the principles of comparative systematics. In Methods for General and Molecular Microbiology, pp. 330-393. Edited by Reddy CA, Beveridge TJ, Breznak JA, Marzluf G, Schmidt TM, Snyder LR. Washington DC: American Society for Microbiology.
- Lanyi B. 1987. Classical and rapid identification methods for medically important bacteria. Methods Microbiol. 19: 1-67.
- Minnikin DE, O'Donnell A, Goodfellow M, Alderson G, Athalye M, Schaal A, et al. 1984. An integrated procedure for the extraction of bacterial isoprenoid quinones and polar lipids. J. Microbiol. Methods 2: 233-241. https://doi.org/10.1016/0167-7012(84)90018-6
- Sasser M. 1990. Identification of bacteria by gas chromatography of cellular fatty acids, MIDI Technical Note 101.MIDI Inc, Newark.
- Minnikin DE, Patel PV, Alshamaony L, Goodfellow M. 1977. Polar lipid composition in the classification of Nocardia and related bacteria. Int. J. Syst. Evol. Microbiol. 27: 104-117.
- Chun J, Oren A, Ventosa A, Christensen H, Arahal DR, da Costa MS, et al. 2018. Proposed minimal standards for the use of genome data for the taxonomy of prokaryotes. Int. J. Syst. Evol. Microbiol. 68: 461-466. https://doi.org/10.1099/ijsem.0.002516