Genetic marker-based multi-locus sequence analysis for classification, genotyping, and phylogenetics of the family Bifidobacteriaceae as an alternative approach to phylogenomics

Result code in IS VaVaI

<a href="https://www.isvavai.cz/riv?ss=detail&h=RIV%2F67985904%3A_____%2F19%3A00517384" target="_blank" >RIV/67985904:_____/19:00517384 - isvavai.cz</a>

Alternative codes found

RIV/60460709:41210/19:80451

Result on the web

<a href="https://asep.lib.cas.cz/arl-cav/cs/csg/?repo=crepo1&key=77979367209" target="_blank" >https://asep.lib.cas.cz/arl-cav/cs/csg/?repo=crepo1&key=77979367209</a>

DOI - Digital Object Identifier

<a href="http://dx.doi.org/10.1007/s10482-019-01307-2" target="_blank" >10.1007/s10482-019-01307-2</a>

Result language

angličtina

Original language name

Genetic marker-based multi-locus sequence analysis for classification, genotyping, and phylogenetics of the family Bifidobacteriaceae as an alternative approach to phylogenomics

Original language description

Bifidobacteria are widely known for their probiotic potential,however, little is known regarding the ecological significance and potential probiotic effects of the phylogenetically related 'scardovial' genera (Aeriscardovia,Alloscardovia,Bombiscardovia,Galliscardovia,Neoscardovia, Parascardovia, Pseudoscardovia and Scardovia) and Gardnerella classified with bifidobacteria within the Bifidobacteriaceae family. Accurate classification and genotyping of bacteria using certain housekeeping genes is possible, whilst current phylogenomic analyses allow for extremely precise classification.Studies of applicable genetic markers may provide results comparable to those obtained from phylogenomic analyses of the family Bifidobacteriaceae. Segments of the glyS (624 nucleotides),pheS(555 nucleotides),rpsA (630 nucleotides),and rpsB (432 nucleotides) genes and their concatenated sequence were explored.The mean glyS, pheS, rpsB and rpsA gene sequence similarities calculated for Bifidobacterium taxa were 84.8, 85.2, 90.2 and 86.8%, respectively. Interestingly, the average value of the Average Nucleotide Identity among 67 type strains of the family Bifidobacteriaceae (84.70%)calculated based on values published recently was in agreement with the average pairwise similarity among 75 type strains of Bifidobacteriaceae family computed in this study using the concatenated sequences of four gene fragments.Similar to phylogenomic analyses, several gene sequence and phylogenetic analyses revealed that concatenated gene regions allow for classification of Bifidobacteriaceae strains into particular phylogenetic clusters and groups.Phylogeny reconstructed from the concatenated sequences assisted in defining two novel phylogenetic groups, the Bifidobacterium psychraerophilum group consisting of B.psychraerophilum, Bifidobacterium crudilactis and Bifidobacterium aquikefiri species and the Bifidobacterium bombi group consisting of B. bombi, Bifidobacterium bohemicum and Bifidobacterium commune.

Czech name

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Czech description

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Type

J_imp - Article in a specialist periodical, which is included in the Web of Science database

CEP classification

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OECD FORD branch

10603 - Genetics and heredity (medical genetics to be 3)

Project

Result was created during the realization of more than one project. More information in the Projects tab.

Continuities

P - Projekt vyzkumu a vyvoje financovany z verejnych zdroju (s odkazem do CEP)

Publication year

2019

Confidentiality

S - Úplné a pravdivé údaje o projektu nepodléhají ochraně podle zvláštních právních předpisů

Name of the periodical

Antonie van Leeuwenhoek International Journal of General and Molecular Microbiology and Antonie van Leeuwenhoek Journal of Microbiology

ISSN

0003-6072

e-ISSN

—

Volume of the periodical

112

Issue of the periodical within the volume

12

Country of publishing house

NL - THE KINGDOM OF THE NETHERLANDS

Number of pages

16

Pages from-to

1785-1800

UT code for WoS article

000494890500009

EID of the result in the Scopus database

2-s2.0-85069954540