Cho, J. C., & Giovannoni, S. J. (2004). Cultivation and growth characteristics of a diverse group of oligotrophic marine Gammaproteobacteria. Applied and Environmental Microbiology, 70, 432–440.
Article CAS PubMed PubMed Central Google Scholar
Chun, J., Oren, A., Ventosa, A., Christensen, H., Arahal, D. R., da Costa, M. S., Rooney, A. P., Yi, H., Xu, X. W., De Meyer, S., et al. (2018). Proposed minimal standards for the use of genome data for the taxonomy of prokaryotes. International Journal of Systematic and Evolutionary Microbiology, 68, 461–466.
Article CAS PubMed Google Scholar
Collins, M. D., Shah, H. N., & Minnikin, D. E. (1980). A note on the separation of natural mixtures of bacterial menaquinones using reverse phase thin-layer chromatography. Journal of Applied Bacteriology, 48, 277–282.
Article CAS PubMed Google Scholar
Felsenstein, J. (1981). Evolutionary trees from DNA sequences: A maximum likelihood approach. Journal of Molecular Evolution, 17, 368–376.
Article CAS PubMed Google Scholar
Felsenstein, J. (1985). Confidence limits on phylogenies: An approach using the bootstrap. Evolution, 39, 783–791.
Fitch, W. M. (1971). Toward defining the course of evolution: Minimum change for a specific tree topology. Systematic Biology, 20, 406–416.
Fuchs, B. M., Spring, S., Teeling, H., Quast, C., Wulf, J., Schattenhofer, M., Yan, S., Ferriera, S., Johnson, J., Glöckner, F. O., et al. (2007). Characterization of a marine gammaproteobacterium capable of aerobic anoxygenic photosynthesis. Proceedings of the National Academy of Sciences of the United States of America, 104, 2891–2896.
Article CAS PubMed PubMed Central Google Scholar
Gim, D. H., Lee, S. Y., Han, J. E., Lee, J. Y., Kang, S. M., & Bae, J. W. (2022). Description of Deefgea piscis sp. nov., and Deefgea tanakiae sp. nov., isolated from the gut of Korean indigenous fish. Journal of Microbiology, 60, 1061–1069.
Article CAS PubMed Google Scholar
Han, J. R., Ye, M. Q., Wang, C., & Du, Z. J. (2019). Halioglobus sediminis sp. nov., isolated from coastal sediment. International Journal of Systematic and Evolutionary Microbiology, 69, 1601–1605.
Article CAS PubMed Google Scholar
Hwang, C. Y., Cho, E. S., Rhee, W. J., Kim, E., & Seo, M. J. (2022). Genomic and physiological analysis of C50 carotenoid-producing novel Halorubrum ruber sp. nov. Journal of Microbiology, 60, 1007–1020.
Article CAS PubMed Google Scholar
Jang, Y., Oh, H. M., Kang, I., Lee, K., Yang, S. J., & Cho, J. C. (2011). Genome sequence of strain IMCC3088, a proteorhodopsin-containing marine bacterium belonging to the OM60/NOR5 clade. Journal of Bacteriology, 193, 3415–3416.
Article CAS PubMed PubMed Central Google Scholar
Jiang, S., Lian, F. B., Sun, Y. Y., Zhang, X. K., & Du, Z. J. (2021). Sediminihaliea albiluteola gen. nov., sp. nov., a new member of the family Halieaceae, isolated from marine sediment. International Journal of Systematic and Evolutionary Microbiology. https://doi.org/10.1099/ijsem.0.004959
Jo, H., Park, M. S., Lim, Y., Kang, I., & Cho, J. C. (2023). Ten novel species belonging to the genus Flavobacterium, isolated from freshwater environments: F. praedii sp. nov., F. marginilacus sp. nov., F. aestivum sp. nov., F. flavigenum sp. nov., F. luteolum sp. nov., F. gelatinilyticum sp. nov., F. aquiphilum sp. nov., F. limnophilum sp. nov., F. lacustre sp. nov., and F. eburneipallidum sp. nov. Journal of Microbiology, 61, 495–510.
Article CAS PubMed Google Scholar
Kanehisa, M., Sato, Y., & Morishima, K. (2016). BlastKOALA and GhostKOALA: KEGG tools for functional characterization of genome and metagenome sequences. Journal of Molecular Biology, 428, 726–731.
Article CAS PubMed Google Scholar
Kang, S., Lee, J. Y., Han, J. E., Jeong, Y. S., Gim, D. H., & Bae, J. W. (2022). Description of Flavobacterium cyclinae sp. nov. and Flavobacterium channae sp. nov., isolated from the intestines of Cyclina sinensis (Corb shell) and Channa argus (Northern snakehead). Journal of Microbiology, 60, 890–898.
Article CAS PubMed Google Scholar
Kim, J., Na, S. I., Kim, D., & Chun, J. (2021). UBCG2: Up-to-date bacterial core genes and pipeline for phylogenomic analysis. Journal of Microbiology, 59, 609–615.
Article CAS PubMed Google Scholar
Kim, M., Oh, H. S., Park, S. C., & Chun, J. (2014). Towards a taxonomic coherence between average nucleotide identity and 16S rRNA gene sequence similarity for species demarcation of prokaryotes. International Journal of Systematic and Evolutionary Microbiology, 64, 346–351.
Article CAS PubMed Google Scholar
Kim, Y. S., Hwang, E. M., Jeong, C. M., & Cha, C. J. (2023). Flavobacterium psychrotrophum sp. nov. and Flavobacterium panacagri sp. nov., isolated from freshwater and soil. Journal of Microbiology, 61, 891–901.
Article CAS PubMed Google Scholar
Kolmogorov, M., Yuan, J., Lin, Y., & Pevzner, P. A. (2019). Assembly of long, error-prone reads using repeat graphs. Nature Biotechnology, 37, 540–546.
Article CAS PubMed Google Scholar
Konkit, M., Kim, J. H., & Kim, W. (2016). Marimicrobium arenosum gen. nov., sp. nov., a moderately halophilic bacterium isolated from sea sand. International Journal of Systematic and Evolutionary Microbiology, 66, 856–861.
Article CAS PubMed Google Scholar
Kumar, S., Stecher, G., Li, M., Knyaz, C., & Tamura, K. (2018). MEGA X: Molecular evolutionary genetics analysis across computing platforms. Molecular Biology and Evolution, 35, 1547–1549.
Article CAS PubMed PubMed Central Google Scholar
Li, S. H., Kang, I., & Cho, J. C. (2023). Metabolic versatility of the family Halieaceae revealed by the genomics of novel cultured isolates. Microbiology Spectrum, 11, e03879-e3922.
PubMed PubMed Central Google Scholar
Li, S. H., Song, J., Kang, I., Hwang, J., & Cho, J. C. (2020). Aequoribacter fuscus gen. nov., sp. nov., a new member of the family Halieaceae, isolated from coastal seawater. Journal of Microbiology, 58, 463–471.
Article CAS PubMed Google Scholar
Marchler-Bauer, A., Zheng, C., Chitsaz, F., Derbyshire, M. K., Geer, L. Y., Geer, R. C., Gonzales, N. R., Gwadz, M., Hurwitz, D. I., Lanczycki, C. J., et al. (2013). CDD: Conserved domains and protein three-dimensional structure. Nucleic Acids Research, 41, D348–D352.
Article CAS PubMed Google Scholar
Meier-Kolthoff, J. P., Auch, A. F., Klenk, H. P., & Göker, M. (2013). Genome sequence-based species delimitation with confidence intervals and improved distance functions. BMC Bioinformatics, 14, 60.
Article PubMed PubMed Central Google Scholar
Minnikin, D., O’donnell, A., Goodfellow, M., Alderson, G., Athalye, M., Schaal, A., & Parlett, J. (1984). An integrated procedure for the extraction of bacterial isoprenoid quinones and polar lipids. Journal of Microbiological Methods, 2, 233–241.
Park, M. S., Sa, H., Kang, I., & Cho, J. C. (2022). Flavihumibacter fluminis sp. nov. and Flavihumibacter rivuli sp. nov., isolated from a freshwater stream. Journal of Microbiology, 60, 806–813.
Article CAS PubMed Google Scholar
Park, S., Yoshizawa, S., Inomata, K., Kogure, K., & Yokota, A. (2012). Halioglobus japonicus gen. nov., sp. nov. and Halioglobus pacificus sp. nov., members of the class Gammaproteobacteria isolated from seawater. International Journal of Systematic and Evolutionary Microbiology, 62, 1784–1789.
Article CAS PubMed Google Scholar
Powers, E. M. (1995). Efficacy of the Ryu nonstaining KOH technique for rapidly determining Gram reactions of food-borne and waterborne bacteria and yeasts. Applied and Environmental Microbiology, 61, 3756–3758.
Article CAS PubMed PubMed Central Google Scholar
Price, M. N., Dehal, P. S., & Arkin, A. P. (2009). FastTree:
留言 (0)