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The threonine-tRNA ligase gene region is applicable in classification, typing, and phylogenetic analysis of bifidobacteria
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SYSNO ASEP 0495892 Druh ASEP J - Článek v odborném periodiku Zařazení RIV J - Článek v odborném periodiku Poddruh J Článek ve WOS Název The threonine-tRNA ligase gene region is applicable in classification, typing, and phylogenetic analysis of bifidobacteria Tvůrce(i) Killer, Jiří (UZFG-Y) RID, ORCID
Mekadim, Chahrazed (UZFG-Y) ORCID
Pechar, R. (CZ)
Bunešová, V. (CZ)
Vlková, E. (CZ)Zdroj.dok. Journal of Microbiology. - : Microbiological society of Korea - ISSN 1225-8873
Roč. 56, č. 10 (2018), s. 713-721Poč.str. 9 s. Forma vydání Tištěná - P Jazyk dok. eng - angličtina Země vyd. KR - Korejská republika Klíč. slova Bifidobacterium ; thrS gene ; genetic marker Vědní obor RIV EE - Mikrobiologie, virologie Obor OECD Microbiology CEP EF15_003/0000460 GA MŠMT - Ministerstvo školství, mládeže a tělovýchovy NV16-27449A GA MZd - Ministerstvo zdravotnictví Způsob publikování Omezený přístup Institucionální podpora UZFG-Y - RVO:67985904 UT WOS 000446020000003 EID SCOPUS 85053865250 DOI 10.1007/s12275-018-8167-3 Anotace In the modern era, molecular genetic techniques are crucial in ecological studies, as well as in the classification, typing, and phylogenetic analysis of prokaryotes. These techniques are mainly aimed at whole genome comparisons and PCR-derived experiments, including amplifying the 16S rRNA and other various housekeeping genes used in taxonomy, as well as MLST (multilocus sequence typing) and MLSA (multilocus sequence analysis) of different taxonomic bacterial groups. The gene encoding threonine-tRNA ligase (thrS) is a gene potentially applicable as an identification and phylogenetic marker in bacteria. It is widely distributed in bacterial genomes and is subject to evolutionary selection pressure due to its important function in protein synthesis. In this study, specific primers were used to amplify a thrS gene fragment (similar to 740 bp) in 36 type and 30 wild strains classified under family Bifidobacteriaceae. The full-length gene has not yet been considered as a possible identification, classification, and phylogenetic marker in bifidobacteria. The thrS sequences revealed higher sequence variability (82.7% of pairwise identities) among members of the family than that shown by 16S rRNA gene sequences (96.0%). Although discrepancies were found between the thrS-derived and previously reported whole genome phylogenetic analyses, the main phylogenetic groups of bifidobacteria were properly assigned. Most wild strains of bifidobacteria were better differentiated based on their thrS sequences than on their 16S rRNA gene identities. Phylogenetic confidence of the evaluated gene with respect to other alternative genetic markers widely used in taxonomy of bifidobacteria (fusA, GroELhsp60, pyrG, and rplB genes) was confirmed using the localized incongruence difference - Templeton analysis. Pracoviště Ústav živočišné fyziologie a genetiky Kontakt Jana Zásmětová, knihovna@iapg.cas.cz, Tel.: 315 639 554 Rok sběru 2019 Elektronická adresa https://asep.lib.cas.cz/arl-cav/cs/csg/?repo=crepo1&key=34173440404
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