Lactobacillus jixianensis sp. Nov., lactobacillus baoqingensis sp. nov., lactobacillus jiayinensis sp. nov., lactobacillus zhaoyuanensis sp. nov., lactobacillus lindianensis sp. nov., lactobacillus huananensis sp. nov., lactobacillus tangyuanensis sp. nov., lactobacillus fuyuanensis sp. nov., lactobacillus tongjiangensis sp. nov., lactobacillus fujinensis sp. nov. and lactobacillus mulengensis sp. nov., isolated from Chinese traditional pickle

International Journal of Systematic and Evolutionary Microbiology

Volumn 69, Issue 8, 2019, Pages 2340-2353

  Long, Guang Yun ^a   Gu, Chun Tao ^a  

^a NORTHEAST AGRICULTURAL UNIVERSITY   (China)

Author keywords

Lactic acid bacteria; Lactobacillus; Novel species; Pickle

Indexed keywords

AMINO ACID; BACTERIAL DNA; BACTERIAL RNA; NUCLEOTIDE; RNA 16S;

ARTICLE; BACTERIAL GENE; BACTERIAL GENOME; BACTERIUM ISOLATE; BACTERIUM ISOLATION; CHINESE; COMPUTER MODEL; DNA BASE COMPOSITION; DNA DETERMINATION; DNA DNA HYBRIDIZATION; FERMENTED PRODUCT; LACTOBACILLUS; LACTOBACILLUS BAOQINGENSIS; LACTOBACILLUS FUJINENSIS; LACTOBACILLUS FUYUANENSIS; LACTOBACILLUS HUANANENSIS; LACTOBACILLUS JIXIANENSIS; LACTOBACILLUS LINDIANENSIS; LACTOBACILLUS MULENGENSIS; LACTOBACILLUS TANGYUANENSIS; LACTOBACILLUS TONGJIANGENSIS; LACTOBACILLUS ZHAOYUANENSIS; NEIGHBOR JOINING METHOD; NEW SPECIES; NONHUMAN; PHES GENE; PHYLOGENY; PRIORITY JOURNAL; RNA SEQUENCE; RPOA GENE; TYPE STRAIN; BACTERIUM IDENTIFICATION; CHINA; CLASSIFICATION; DNA SEQUENCE; FOOD CONTROL; GENETICS; ISOLATION AND PURIFICATION; MICROBIOLOGY; NUCLEIC ACID HYBRIDIZATION;

BACTERIAL TYPING TECHNIQUES; BASE COMPOSITION; CHINA; DNA, BACTERIAL; FERMENTED FOODS; FOOD MICROBIOLOGY; GENES, BACTERIAL; LACTOBACILLUS; NUCLEIC ACID HYBRIDIZATION; PHYLOGENY; RNA, RIBOSOMAL, 16S; SEQUENCE ANALYSIS, DNA;

EID: 85071067778     PISSN: 14665026     EISSN: 14665034     Source Type: Journal    
DOI: 10.1099/ijsem.0.003474     Document Type: Article

References (43)

1. Park KY, Kim BK. Lactic acid bacteria in vegetable fermentations. In: Lahtinen S, Ouwehand AC, Salminen S and Von Wright A (editors). Lactic Acid Bacteria: Microbiological and Functional Aspects, 4th ed. Boca Raton: CRC Press Taylor and Francis Group; 2012. pp. 187–211.
2. Miyamoto M, Seto Y, Hao DH, Teshima T, Sun YB et al. Lactobacillus harbinensis sp. nov., consisted of strains isolated from traditional fermented vegetables ’Suan cai’ in Harbin, Northeastern China and Lactobacillus perolens DSM 12745. Syst Appl Microbiol 2005;28:688–694.
3. Gu CT, Wang F, Li CY, Liu F, Huo GC. Lactobacillus xiangfangensis sp. nov., isolated from Chinese pickle. Int J Syst Evol Microbiol 2012;62:860–863.
4. Gu CT, Li CY, Yang LJ, Huo GC. Lactobacillus heilongjiangensis sp. nov., isolated from Chinese pickle. Int J Syst Evol Microbiol 2013; 63:4094–4099.
5. Gu CT, Li CY, Yang LJ, Huo GC. Lactobacillus mudanjiangensis sp. nov., Lactobacillus songhuajiangensis sp. nov. and Lactobacillus nenjiangensis sp. nov., isolated from Chinese traditional pickle and sourdough. Int J Syst Evol Microbiol 2013;63:4698–4706.
6. Li CY, Tian F, Zhao YD, Gu CT. Enterococcus xiangfangensis sp. nov., isolated from Chinese pickle. Int J Syst Evol Microbiol 2014; 64:1012–1017.
7. An D, Cai S, Dong X. Actinomyces ruminicola sp. nov., isolated from cattle rumen. Int J Syst Evol Microbiol 2006;56:2043–2048.
8. Naser SM, Thompson FL, Hoste B, Gevers D, Dawyndt P et al. Application of multilocus sequence analysis (MLSA) for rapid identification of Enterococcus species based on rpoA and pheS genes. Microbiology 2005;151:2141–2150.
9. Thompson JD, Higgins DG, Gibson TJ. CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice. Nucleic Acids Res 1994;22:4673–4680.
10. Saitou N, Nei M. The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 1987;4:406–425.
11. Kishino H, Hasegawa M. Evaluation of the maximum likelihood estimate of the evolutionary tree topologies from DNA sequence data, and the branching order in hominoidea. J Mol Evol 1989;29: 170–179.
12. Rzhetsky A, Nei M. A simple method for estimating and testing minimum evolution trees. Mol Biol Evol 1992;9:945–967.
13. Kumar S, Stecher G, Li M, Knyaz C, Tamura K. MEGA X: Molecular Evolutionary Genetics Analysis across Computing Platforms. Mol Biol Evol 2018;35:1547–1549.
14. Kim M, Oh HS, Park SC, Chun J. Towards a taxonomic coherence between average nucleotide identity and 16S rRNA gene sequence similarity for species demarcation of prokaryotes. Int J Syst Evol Microbiol 2014;64:346–351.
15. Naser SM, Dawyndt P, Hoste B, Gevers D, Vandemeulebroecke K et al. Identification of lactobacilli by pheS and rpoA gene sequence analyses. Int J Syst Evol Microbiol 2007;57:2777–2789.
16. Lee I, Ouk Kim Y, Park SC, Chun J. OrthoANI: an improved algorithm and software for calculating average nucleotide identity. Int J Syst Evol Microbiol 2016;66:1100–1103.
17. Yoon SH, Ha SM, Lim J, Kwon S, Chun J. A large-scale evaluation of algorithms to calculate average nucleotide identity. Antonie van Leeuwenhoek 2017;110:1281–1286.
18. Goris J, Konstantinidis KT, Klappenbach JA, Coenye T, Vandamme P et al. DNA-DNA hybridization values and their relationship to whole-genome sequence similarities. Int J Syst Evol Microbiol 2007;57:81–91.
19. Richter M, Rosselló-Móra R. Shifting the genomic gold standard for the prokaryotic species definition. Proc Natl Acad Sci USA 2009;106:19126–19131.
20. Meier-Kolthoff JP, Auch AF, Klenk HP, Göker M. Genome sequence-based species delimitation with confidence intervals and improved distance functions. BMC Bioinformatics 2013;14:60.
21. Stackebrandt E, Goebel BM. Taxonomic note: a place for DNA DNA reassociation and 16S rRNA sequence analysis in the present species definition in bacteriology. Int J Syst Evol Microbiol 1994;44:846–849.
22. Besemer J, Lomsadze A, Borodovsky M. GeneMarkS: a self-training method for prediction of gene starts in microbial genomes. Implications for finding sequence motifs in regulatory regions. Nucleic Acids Res 2001;29:2607–2618.
23. Konstantinidis KT, Tiedje JM. Towards a genome-based taxonomy for prokaryotes. J Bacteriol 2005;187:6258–6264.
24. Miyashita M, Yukphan P, Chaipitakchonlatarn W, Malimas T, Sugimoto M et al. Lactobacillus plajomi sp. nov. and Lactobacillus modestisalitolerans sp. nov., isolated from traditional fermented foods. Int J Syst Evol Microbiol 2015;65:2485–2490.
25. Hasegawa T, Takizawa M, Tanida S. A rapid analysis for chemical grouping of aerobic actinomycetes. J Gen Appl Microbiol 1983;29: 319–322.
26. Tak EJ, Kim HS, Lee JY, Kang W, Hyun DW et al. Vagococcus martis sp. nov., isolated from the small intestine of a marten, Martes flavigula. Int J Syst Evol Microbiol 2017;67:3398–3402.
27. Sasser M. Identification of Bacteria by Gas Chromatography of Cellular Fatty Acids, MIDI Technical Note 101. Newark, DE, USA: Microbial ID Inc; 1990.
28. Tanasupawat S, Pakdeeto A, Thawai C, Yukphan P, Okada S. Identification of lactic acid bacteria from fermented tea leaves (miang) in Thailand and proposals of Lactobacillus thailandensis sp. nov., Lactobacillus camelliae sp. nov., and Pediococcus siamensis sp. nov. J Gen Appl Microbiol 2007;53:7–15.
29. Cai Y, Pang H, Kitahara M, Ohkuma M. Lactobacillus nasuensis sp. nov., a lactic acid bacterium isolated from silage, and emended description of the genus Lactobacillus . Int J Syst Evol Microbiol 2012;62:1140–1144.
30. Morlon-Guyot J, Guyot JP, Pot B, Jacobe de Haut I, Raimbault M. Lactobacillus manihotivorans sp. nov., a new starch-hydrolysing lactic acid bacterium isolated during cassava sour starch fermentation. Int J Syst Bacteriol 1998;48 Pt 4:1101–1109.
31. Nguyen DT, Cnockaert M, van Hoorde K, de Brandt E, Snauwaert I et al. Lactobacillus porcinae sp. nov., isolated from traditional Vietnamese nem chua. Int J Syst Evol Microbiol 2013;63:1754– 1759.
32. Liu B, Dong X. Lactobacillus pantheris sp. nov., isolated from faeces of a jaguar. Int J Syst Evol Microbiol 2002;52:1745–1748.
33. Weiss N, Schillinger U, Laternser M, Kandler O. Lactobacillus sharpeae sp. nov. and Lactobacillus agilis sp. nov., two new species of homofermentative, meso-diaminopimelic acid-containing lactobacilli isolated from sewage. Zbl Bakt Hyg I Abt Orig C 1981;2:242– 253.
34. Kandler O, Weiss N. Genus Lactobacillus beijerinck 1901, 212212AL. In: Sneath PHA, Mair NS, Sharpe ME and Holt JG (editors). Bergey’s Manual of Systematic Bacteriology, vol. 2. Baltimore: Williams & Wilkins; 19861901. pp. 1209–1234.
35. Chenoll E, Macian MC, Aznar R. Lactobacillus rennini sp. nov., isolated from rennin and associated with cheese spoilage. Int J Syst Evol Microbiol 2006;56:449–452.
36. Tohno M, Kitahara M, Irisawa T, Masuda T, Uegaki R et al. Description of Lactobacillus iwatensis sp. nov., isolated from orchardgrass (Dactylis glomerata L.) silage, and Lactobacillus backii sp. nov. Int J Syst Evol Microbiol 2013;63:3854–3860.
37. Ehrmann MA, Preissler P, Danne M, Vogel RF. Lactobacillus paucivorans sp. nov., isolated from a brewery environment. Int J Syst Evol Microbiol 2010;60:2353–2357.
38. Valcheva R, Korakli M, Onno B, Prevost H, Ivanova I et al. Lactobacillus hammesii sp. nov., isolated from French sourdough. Int J Syst Evol Microbiol 2005;55:763–767.
39. Hiraga K, Ueno Y, Sukontasing S, Tanasupawat S, Oda K. Lactobacillus senmaizukei sp. nov., isolated from Japanese pickle. Int J Syst Evol Microbiol 2008;58:1625–1629.
40. Vancanneyt M, Naser SM, Engelbeen K, de Wachter M, van der Meulen R et al. Reclassification of Lactobacillus brevis strains LMG 11494 and LMG 11984 as Lactobacillus parabrevis sp. nov. Int J Syst Evol Microbiol 2006;56:1553–1557.
41. Yi EJ, Yang JE, Lee JM, Park Y, Park SY et al. Lactobacillus yonginensis sp. nov., a lactic acid bacterium with ginsenoside converting activity isolated from Kimchi. Int J Syst Evol Microbiol 2013;63: 1140–1144.
42. Bui TP, Kim YJ, In JG, Yang DC. Lactobacillus koreensis sp. nov., isolated from the traditional Korean food kimchi. Int J Syst Evol Microbiol 2011;61:772–776.
43. Koob J, Jacob F, Wenning M, Hutzler M. Lactobacillus cerevisiae sp. nov., isolated from a spoiled brewery sample. Int J Syst Evol Microbiol 2017;67:3452–3457.