Report of 20 unrecorded bacterial species in Korea belonging to the phylum Firmicutes during surveys in 2020 |
Park, Eun-Hee
(Department of Systems Biotechnology, Chung-Ang University)
Yoon, Jung-Hoon (Department of Food Science and Biotechnology, Sungkyunkwan University) Joh, Kiseong (Department of Bioscience and Biotechnology, Hankuk University of Foreign Studies) Seong, Chi-Nam (Department of Biology, Sunchon National University) Kim, Wonyong (Department of Microbiology, Chung-Ang University College of Medicine) Kim, Seung-Bum (Department of Microbiology and Molecular Biology, Chungnam National University) Im, Wan-Taek (Department of Biotechnology, Hankyoung National University) Cha, Chang-Jun (Department of Systems Biotechnology, Chung-Ang University) |
1 | Lawson, P.A., C.E. Deutch and M.D. Collins. 1996. Phylogenetic characterization of a novel salt-tolerant Bacillus species: description of Bacillus dipsosauri sp. nov. Journal of Applied Bacteriology 81:109-112. DOI |
2 | Aguirre, M. and M.D. Collins. 1992. Phylogenetic analysis of some Aerococcus-like organisms from urinary tract infections: description of Aerococcus urinae sp. nov. Journal of General Microbiology 138:401-405. DOI |
3 | Baker, G.C., J.J. Smith and D.A. Cowan. 2003. Review and re-analysis of domain-specific 16S primers. Journal of Microbiological Methods 55:541-555. DOI |
4 | Beijerinck, M.W. 1901. Sur les ferments lactiques de l'industrie. Archives Neerlandaises des Sciences Exactes et Naturelles(Section 2) 6:212-243. |
5 | Chen, Y.S., C.H. Chang, S.F. Pan, L.T. Wang, Y.C. Chang, H.-C. Wu and F. Yanagida. 2013. Lactococcus taiwanensis sp. nov., a lactic acid bacterium isolated from fresh cummingcordia. International Journal of Systematic and Evolutionary Microbiology 63:2405-2409. DOI |
6 | Choi, J.Y. and P.C. Lee. 2020. Psychrobacillus glaciei sp. nov., a psychrotolerant species isolated from an Antarctic iceberg. International Journal of Systematic and Evolutionary Microbiology 70:1947-1952. DOI |
7 | Diop, A., S. Khelaifia, N. Armstrong, N. Labas, P.E. Fournier, D. Raoult and M. Million. 2016. Microbial culturomics unravels the halophilic microbiota repertoire of table salt: description of Gracilibacillus massiliensis sp. nov. Microbial Ecology in Health and Disease 27:32049. |
8 | Felsenstein, J. 1981. Evolutionary trees from DNA sequences: A maximum likelihood approach. Journal of Molecular Evolution 17:368-376. DOI |
9 | Felsenstein, J. 1985. Confidence Limits on Phylogenies: an approach using the bootstrap. Evolution 39:783-791. DOI |
10 | Werner, W.E.G. 1933. Botanische Beschreibung haufiger am Buttersaureabbau beteiligter sporenbildender Bakterienspezies: Mitzlaff. |
11 | Yoon, S.H., S.M. Ha, S.J. Kwon, J.M. Lim, Y.S. Kim, H. Seo and J. Chun. 2017. Introducing EzBioCloud: a taxonomically united database of 16S rRNA gene sequences and whole-genome assemblies. International Journal of Systematic and Evolutionary Microbiology 67:1613. DOI |
12 | Kumar, S., G. Stecher, M. Li, C. Knyaz and K. Tamura. 2018. MEGA X: Molecular Evolutionary Genetics Analysis across Computing Platforms. Molecular Biology and Evolution 35:1547-1549. DOI |
13 | Dellaglio, F., S. Torriani and G.E. Felis. 2004. Reclassification of Lactobacillus cellobiosus Rogosa et al. 1953 as a later synonym of Lactobacillus fermentum Beijerinck 1901. International Journal of Systematic and Evolutionary Microbiology 54:809-812. DOI |
14 | Heyrman, J., B. Vanparys, N.A. Logan, A. Balcaen, M. Rodriguez-Diaz, A. Felske and P. De Vos. 2004. Bacillus novalis sp. nov., Bacillus vireti sp. nov., Bacillus soli sp. nov., Bacillus bataviensis sp. nov. and Bacillus drentensis sp. nov., from the Drentse A grasslands. International Journal of Systematic and Evolutionary Microbiology 54:47-57. DOI |
15 | Wu, Y.F., Q.L. Wu and S.J. Liu. 2013. Paenibacillus taihuensis sp. nov., isolated from an eutrophic lake. International Journal of Systematic and Evolutionary Microbiology 63:3652-3658. DOI |
16 | Patel, S. and R.S. Gupta. 2020. A phylogenomic and comparative genomic framework for resolving the polyphyly of the genus Bacillus: Proposal for six new genera of Bacillus species, Peribacillus gen. nov., Cytobacillus gen. nov., Mesobacillus gen. nov., Neobacillus gen. nov., Metabacillus gen. nov. and Alkalihalobacillus gen. nov. International Journal of Systematic and Evolutionary Microbiology 70:406-438. DOI |
17 | Lane, D.J. 1991. 16S/23S rRNA sequencing. In: E. Stackebrandt and M. Goodfellow (eds.), Nucleic acid techniques in bacterial systematics, John Wiley and Sons, New York, pp. 115-175. |
18 | Freney, J., Y. Brun, M. Bes, H. Meugnier, F. Grimont, P.A.D. Grimont, C. Nervi and J. Fleurette. 1988. Staphylococcus lugdunensis sp. nov. and Staphylococcus schleiferi sp. nov., Two Species from Human Clinical Specimens. International Journal of Systematic and Evolutionary Microbiology 38:168-172. |
19 | Ghio, S., D.H. Sauka, A.E. Ferrari, F.E. Piccini, O.M. Ontanon and E. Campos. 2019. Paenibacillus xylanivorans sp. nov., a xylan-degrading bacterium isolated from decaying forest soil. International Journal of Systematic and Evolutionary Microbiology 69:3818-3823. DOI |
20 | Jukes, T.H. and C.R. Cantor. 1969. Evolution of protein molecules. In: H.N. Munro (ed.), Mammalian protein metabolism, 3rd edn, Academic Press, New York, pp. 21-132. |
21 | Larkin, M.A., G. Blackshields, N.P. Brown, R. Chenna, P.A. McGettigan, H. McWilliam, F. Valentin, I.M. Wallace, A. Wilm, R. Lopez, J.D. Thompson, T.J. Gibson and D.G. Higgins. 2007. Clustal W and Clustal X version 2.0. Bioinformatics 23:2947-2948. DOI |
22 | Takebe, F., K. Hirota, Y. Nodasaka and I. Yumoto. 2012. Brevibacillus nitrificans sp. nov., a nitrifying bacterium isolated from a microbiological agent for enhancing microbial digestion in sewage treatment tanks. International Journal of Systematic and Evolutionary Microbiology 62:2121-2126. DOI |
23 | Ludwig, W., K.H. Schleifer and W.B. Whitman. 2009. Revised road map to the phylum Firmicutes. In: P. De Vos, G.M. Garrity, D. Jones, N.P. Krieg, W. Ludwig, et al. (eds.), Bergey's Manual of Systematic Bacteriology, 3rd, Springer, New York, pp. 1-13. |
24 | Menendez, E., J.D. Flores-Felix, R. Mulas, F.G. Andres, M. Fernandez-Pascual, A. Peix and E. Velazquez. 2017. Paenibacillus tritici sp. nov., isolated from wheat roots. International Journal of Systematic and Evolutionary Microbiology 67:2312-2316. DOI |
25 | Rogosa, M., R.F. Wiseman, J.A. Mitchell, M.N. Disraely and A.J. Beaman. 1953. Species differentiation of oral lactobacilli from man including descriptions of Lactobacillus salivarius nov spec and Lactobacillus cellobiosus nov spec. Journal of Bacteriology 65:681-699. DOI |
26 | Liu, B., G.H. Liu, G.H. Hu and M.C. Chen. 2014. Bacillus mesonae sp. nov., isolated from the root of Mesona chinensis. International Journal of Systematic and Evolutionary Microbiology 64:3346-3352. DOI |
27 | Logan, N.A., G. Forsyth, L. Lebbe, J. Goris, M. Heyndrickx, A. Balcaen, A. Verhelst, E. Falsen, A. Ljungh, H.B. Hansson and P. De Vos. 2002. Polyphasic identification of Bacillus and Brevibacillus strains from clinical, dairy and industrial specimens and proposal of Brevibacillus invocatus sp. nov. International Journal of Systematic and Evolutionary Microbiology 52:953-966. DOI |
28 | Scheldeman, P., M. Rodriguez-Diaz, J. Goris, A. Pil, E. De Clerck, L. Herman, P. De Vos, N.A. Logan and M. Heyndrickx. 2004. Bacillus farraginis sp. nov., Bacillus fortis sp. nov. and Bacillus fordii sp. nov., isolated at dairy farms. International Journal of Systematic and Evolutionary Microbiology 54:1355-1364. DOI |
29 | Spring, S., W. Ludwing, M.C. Marquez, A. Ventosa and K.H. Schleifer. 1996. Halobacillus gen. nov., with Descriptions of Halobacillus litoralis sp. nov. and Halobacillus trueperi sp. nov., and Transfer of Sporosarcina halophila to Halobacillus halophilus comb. nov. International Journal of Systematic and Evolutionary Microbiology 46:492-496. |
30 | Tanizawa, Y., I. Tada, H. Kobayashi, A. Endo, S. Maeno, A. Toyoda, M. Arita, Y. Nakamura, M. Sakamoto, M. Ohkuma and M. Tohno. 2018. Lactobacillus paragasseri sp. nov., a sister taxon of Lactobacillus gasseri, based on whole-genome sequence analyses. International Journal of Systematic and Evolutionary Microbiology 68:3512-3517. DOI |
31 | Waino, M., B.J. Tindall, P. Schumann and K. Ingvorsen. 1999. Gracilibacillus gen. nov., with description of Gracilibacillus halotolerans gen. nov., sp. nov.; transfer of Bacillus dipsosauri to Gracilibacillus dipsosauri comb. nov., and Bacillus salexigens to the genus Salibacillus gen. nov., as Salibacillus salexigens comb. nov. International Journal of Systematic Bacteriology 49:821-831. |
32 | Saitou, N. and M. Nei. 1987. The neighbor-joining method: a new method for reconstructing phylogenetic trees. Molecular Biology and Evolution 4:406-425. |
33 | Nielsen, P., D. Fritze and F.G. Priest. 1995. Phenetic diversity of alkaliphilic Bacillus strains: proposal for nine new species. Microbiology 141:1745-1761. DOI |
34 | Pantucek, R., I. Sedlacek, A. Indrakova, V. Vrbovska, I. Maslanova, V. Kovarovic, P. Svec, S. Kralova, L. Kristofova, J. Keklakova, P. Petras and J. Doskar. 2018. Staphylococcus edaphicus sp. nov., Isolated in Antarctica, Harbors the mecC Gene and Genomic Islands with a Suspected Role in Adaptation to Extreme Environments. Applied and Environmental Microbiology 84:e01746-17. |
35 | Qin, J., R. Li, J. Raes, M. Arumugam, K.S. Burgdorf, C. Manichanh, T. Nielsen, N. Pons, F. Levenez, T. Yamada, D.R. Mende, J. Li, J. Xu, S. Li, D. Li, J. Cao, B. Wang, H. Liang, H. Zheng, Y. Xie, J. Tap, P. Lepage, M. Bertalan, J.-M. Batto, T. Hansen, D. Le Paslier, A. Linneberg, H.B. Nielsen, E. Pelletier, P. Renault, T. Sicheritz-Ponten, K. Turner, H. Zhu, C. Yu, S. Li, M. Jian, Y. Zhou, Y. Li, X. Zhang, S. Li, N. Qin, H. Yang, J. Wang, S. Brunak, J. Dore, F. Guarner, K. Kristiansen, O. Pedersen, J. Parkhill, J. Weissenbach, M. Consortium, P. Bork, S.D. Ehrlich and J. Wang. 2010. A human gut microbial gene catalogue established by metagenomic sequencing. Nature 464:59-65. DOI |
36 | Zheng, J., S. Wittouck, E. Salvetti, C.M.A.P. Franz, H.M.B. Harris, P. Mattarelli, P.W. OToole, B. Pot, P. Vandamme, J. Walter, K. Watanabe, S. Wuyts, G.E. Felis, M.G. Ganzle and S. Lebeer. 2020. A taxonomic note on the genus Lactobacillus: Description of 23 novel genera, emended description of the genus Lactobacillus Beijerinck 1901, and union of Lactobacillaceae and Leuconostocaceae. International Journal of Systematic and Evolutionary Microbiology 70:2782-2858. DOI |
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