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Biosci Microbiota Food Health. 2017;36(3):129-134. doi: 10.12938/bmfh.16-026. Epub 2017 Mar 4.

Genomic characterization reconfirms the taxonomic status of Lactobacillus parakefiri.

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Center for Information Biology, National Institute of Genetics, 1111 Yata, Mishima, Shizuoka 411-8540, Japan.
Institute of Livestock and Grassland Science, National Agriculture and Food Research Organization, 768 Senbonmatsu, Nasushiobara, Tochigi 329-2793, Japan.
Japan Collection of Microorganisms, RIKEN BioResource Center, 3-1-1 Koyadai, Tsukuba, Ibaraki 305-0074, Japan.
PRIME, Japan Agency for Medical Research and Development (AMED), 3-1-1 Koyadai, Tsukuba, Ibaraki 305-0074, Japan.
RIKEN Center for Sustainable Resource Science, 1-7-22 Suehiro-cho, Tsurumi, Yokohama, Kanagawa 230-0045, Japan.


Whole-genome sequencing was performed for Lactobacillus parakefiri JCM 8573T to confirm its hitherto controversial taxonomic position. Here, we report its first reliable reference genome. Genome-wide metrics, such as average nucleotide identity and digital DNA-DNA hybridization, and phylogenomic analysis based on multiple genes supported its taxonomic status as a distinct species in the genus Lactobacillus. The availability of a reliable genome sequence will aid future investigations on the industrial applications of L. parakefiri in functional foods such as kefir grains.


Lactobacillus parakefiri; lactic acid bacteria; taxonomy; whole-genome sequence

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