Complete genome sequences and comparative genome analysis of Lactobacillus plantarum strain 5-2 isolated from fermented soybean

•The Lactobacillus plantarum strain 5-2 isolated from fermented soybeans•Fourteen complete insertion sequence elements were found in the genome.•There were 24 DNA replication proteins and 76 DNA repair proteins in 5-2 genome.•The genome encodes the key enzymes required for the EMP and phosphoketolase pathways.•An extracellular serine protease existed in 5-2 different with L. plantarum WCSF1.

Lactobacillus plantarum is an important probiotic and is mostly isolated from fermented foods. We sequenced the genome of L. plantarum strain 5-2, which was derived from fermented soybean isolated from Yunnan province, China. The strain was determined to contain 3114 genes. Fourteen complete insertion sequence (IS) elements were found in 5-2 chromosome. There were 24 DNA replication proteins and 76 DNA repair proteins in the 5-2 genome. Consistent with the classification of L. plantarum as a facultative heterofermentative lactobacillus, the 5-2 genome encodes key enzymes required for the EMP (Embden–Meyerhof–Parnas) and phosphoketolase (PK) pathways. Several components of the secretion machinery are found in the 5-2 genome, which was compared with L. plantarum ST-III, JDM1 and WCFS1. Most of the specific proteins in the four genomes appeared to be related to their prophage elements.