De Novo Assembly and Comparative Analysis of the Enterococcus faecalis Genome (KACC 91532) from a Korean Neonate

• Published in: Journal of microbiology and biotechnology Vol. 23; no. 7; pp. 966 - 973
• Main Authors: Ham, J.S., RDA, Suwon, Republic of Korea, Kwak, W.R., Seoul National University, Seoul, Republic of Korea, Chang, O.K., RDA, Suwon, Republic of Korea, Han, G.S., RDA, Suwon, Republic of Korea, Jeong, S.G., RDA, Suwon, Republic of Korea, Seol, K.H., RDA, Suwon, Republic of Korea, Kim, H.W., RDA, Suwon, Republic of Korea, Kang, G.H., RDA, Suwon, Republic of Korea, Park, B.Y., RDA, Suwon, Republic of Korea, Lee, H.J., RDA, Suwon, Republic of Korea, Kim, J.G., RDA, Cheonan, Republic of korea, Kim, K.W., Seoul National University, Seoul, Republic of Korea, Sung, S.S., C and K Genomics, Seoul, Republic of Korea, Lee, T.H., RDA, Suwon, Republic of Korea, Cho, S.O., C and K Genomics, Seoul, Republic of Korea, Kim, H.B., Seoul National University, Seoul, Republic of Korea
• Format: Journal Article
• Language: English
• Published: Seoul Korean Society for Applied Microbiology 01.07.2013; 한국미생물·생명공학회
• Subjects: Asian Continental Ancestry Group; Biological and medical sciences; Biotechnology; DNA, Bacterial - chemistry; DNA, Bacterial - genetics; Enterococcus faecalis - genetics; Enterococcus faecalis - isolation & purification; Feces - microbiology; Fundamental and applied biological sciences. Psychology; Genome, Bacterial; Gram-Positive Bacterial Infections - microbiology; Humans; Infant, Newborn; KACC 91532,de novo assembly,dN/dS, arginine deiminase; Sequence Analysis, DNA; STREPTOCOCCUS FAECALIS; 생물학; Human; Enterococcus faecalis; Enzyme; de novo; de novo assembly; Arginine deiminase; Streptococcaceae; dN/dS; Newborn; Bacteria; Hydrolases; Micrococcales; KACC 91532; Genome; Comparative study
• ISSN: 1017-7825; 1738-8872
• DOI: 10.4014/jmb.1303.03045

Using a newly constructed de novo assembly pipeline, finished genome level assembly had been conducted for the probiotic candidate strain E. faecalis KACC 91532 isolated from a stool samples of Korean neonates. Our gene prediction identified 3,061 genes in the assembled genome of the strain. Among these, nine genes were specific only for the E. faecalis KACC 91532, compared with all of the four known reference genomes (EF62, D32, V583, OG1RF). We identified genes related to phenotypic characters and detected E. faecalis KACC 91532-specific evolutionarily accelerated genes using dN/dS analysis. From these results, we found the potential risk of KACC 91532 as a useful probiotic strain and identified some candidate genetic variations that could affect the function of enzymes.