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We present here the draft genome sequence of Lactobacillus brevis strain 3M004, a probiotic that has potential for regulating quorum sensing. The strain was obtained from a type of aquafeed. The assembly consists of 2,459,326 bp and contains 33 contigs, with a G+C content of 45.10%.
Lactobacillus brevis strain 3M004 was obtained from a type of aquafeed. Some strains of this species have been reported to act against influenza in elementary schoolchildren and have anti-inflammatory effects on periodontal disease (1, 2). This strain could degrade acyl-homoserine lactones (AHLs) as quorum-sensing (3) signaling molecules efficiently, and the strain does not produce AHLs, which indicates that it has potential for regulating quorum sensing.
A TIANamp bacterial DNA kit (DP302-02, TIANGEN Biotech Co, Ltd, Beijing, China) was used to extract genomic DNA from L. brevis strain 3M004. A paired-end library with an insert size of 350 bp was constructed and sequenced using the Illumina HiSeq platform with a PE150 strategy. Then, the high-quality reads, without PCR adapter sequences, were assembled with SOAPdenovo (4, 5) to generate scaffolds, and all reads were used for further gap closure. A total of 667 Mb of high-quality sequence data were obtained, and the resulting assembly consisted of 2,459,326 bp comprising 33 contigs (the longest was 435,481 bp; N50 was 299,821 bp) with a G+C content of 45.10%. With gene prediction, a total of 2,410 genes in the genome assembly of L. brevis strain 3M004 were found by GeneMarkS (6) with integrated and heuristic model parameters. Gene annotation was performed with BLAST (7) searches (E value less than 1e−5 and minimal alignment length larger than 40%) against four databases; as a result, 1,325, 1,704, 2,350, and 1,664 functional genes were annotated from KEGG (8), COG (9), NR, and GO (10), respectively.
The genome sequence of L. brevis strain 3M004 was deposited at DDBJ/ENA/GenBank under the accession number NFZZ00000000. The version described in this paper is the first version, NFZZ01000000.
This work, including the efforts of Yan Liang, was funded by the Foundation of Shenzhen Strategic Emerging Industries Development (JSKF20150831171545604) and the Shenzhen Technology Development Project (CXZZ20150529144041624).
Citation Li Q, Pan Y, Ding L, Hong H, Yan S, Wu B, Liang Y. 2017. Draft genome sequence of Lactobacillus brevis strain 3M004, a probiotic with potential quorum-sensing regulation. Genome Announc 5:e00675-17. https://doi.org/10.1128/genomeA.00675-17.