GENOME ANNOUNCEMENT
Genome Sequence of Lysinibacillus boronitolerans F1182, Isolated from a Traditional Korean Fermented Soybean Product Young-Do Nam, Myung-Ji Seo, Seong-Il Lim, and So-Young Lee Fermentation and Functionality Research Group, Korea Food Research Institute, Sungnam, Republic of Korea
Lysinibacillus is a Gram-positive, rod-shaped, and round-spore-forming bacterial genus of the family Bacillaceae. We analyzed the genome sequence of Lysinibacillus boronitolerans F1182, isolated from a traditional Korean fermented soybean product. The genome sequence contained 4.46 Mbp with a GⴙC content of 37.5%. This is the first report of an L. boronitolerans genome.
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ysinibacillus is a Gram-positive, rod-shaped, and round-sporeforming bacterial genus in the family Bacillaceae. Organisms in this genus were previously regarded as members of the genus Bacillus, but the taxonomic status of these microorganisms, i.e., rRNA group 2 of the genus Bacillus, was changed to the genus Lysinibacillus in 2007 (1). Compared with Bacillus, Lysinibacillus contains lysine and aspartate in the cell wall peptidoglycan as diagnostic amino acids, in contrast to meso-diaminopimelic acid in the genus Bacillus (7). Lysinibacillus is commonly found in soil (1) and has been isolated from plant tissues (6), from fermented plant seed products (8), and even from puffer fish liver specimens (10). As an insecticidal microorganism, the genome of Lysinibacillus sphaericus strain C3-41 was the first strain in the genus Lysinibacillus (3). Environmental isolates of the genus Lysinibacillus are potential biological control agents for diseases that affect cacao (6). In this study, a new strain, L. boronitolerans F1182, was isolated from a Korean fermented soybean food, meju. The genome sequence of this Lysinibacillus strain will facilitate the investigation of its beneficial properties in food and the agriculture industry. The whole genome of L. boronitolerans F1182 was sequenced with an Ion Torrent Personal Genome Machine with 316 (100 Mb) sequencing chips according to the manufacturer’s instructions (9). This produced 1,845,985 reads (average length of 104 bases) covering 192 Mb. The sequence reads were assembled into 309 contigs (⬎1 kb in size) with approximately 43-fold coverage using the CLC Genomics Workbench 5.0.1 program (CLC Bio, Aarhus, Denmark). The draft genome of L. boronitolerans F1142 measured 4.46 Mbp in length with a G⫹C content of 37.5%. Single copies of the 16S and 23S rRNAs and 22 tRNAs were identified using RNAmmer 1.2 (4) and tRNA scan-SE (5), respectively. The genome contained 5,188 predicted protein-coding sequences, 1,832 (35.3%) of which were annotated as hypothetical proteins using RAST (rapid annotation using subsystem technology) server 4.0 (2). A total of 363 genes were related to carbohydrate metabolism (7%), and 219 genes were related to protein metabolism (4.2%), including 83 peptidase- and 35 protease-related genes. Seven genes encoded urease structural (ureABC) and accessory proteins (ureDEFG), while 24 genes were related to ethanolamine utilization, such as eutA, eutL, eutN, eutP, and eutS. The genome sequence did not contain insecticidal genes; however, L. boronitolerans F1182 harbored a large set of genes related to protein and carbohydrate metabolism and genes capable of utilizing various environmental materials such as urea or ethanolamine. A
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more detailed analysis of this genome will provide information that could prove useful to the application of microorganisms in the food and agriculture industries. Nucleotide sequence accession numbers. The draft genome sequence of L. boronitolerans F1182 is available in DDBJ/EMBL/ GenBank under accession number AJXM00000000. The version described here is the first version, AJXM00000000. ACKNOWLEDGMENT This study was supported by a grant from the Korea Food Research Institute (project E0121302).
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Received 16 August 2012 Accepted 17 August 2012 Address correspondence to So-Young Lee,
[email protected]. Copyright © 2012, American Society for Microbiology. All Rights Reserved. doi:10.1128/JB.01485-12
November 2012 Volume 194 Number 21
