PMCCPMCCPMCC

Search tips
Search criteria 

Advanced

 
Logo of genannJournal InfoAuthorsPermissionsJournals.ASM.orggenomeA ArticleGenome Announcements
 
Genome Announc. 2017 March; 5(10): e01757-16.
Published online 2017 March 9. doi:  10.1128/genomeA.01757-16
PMCID: PMC5347252

Complete Genome Sequence of Lactobacillus jensenii Strain SNUV360, a Probiotic for Treatment of Bacterial Vaginosis Isolated from the Vagina of a Healthy Korean Woman

ABSTRACT

Lactobacillus jensenii SNUV360 is a potential probiotic strain that shows antimicrobial activity for the treatment of bacterial vaginosis. Here, we present the complete genomic sequence of L. jensenii SNUV360, isolated from a vaginal sample from a healthy Korean woman. Analysis of the sequence may provide insight into its functional activity.

GENOME ANNOUNCEMENT

Bacterial vaginosis (BV) is a common condition associated with numerous adverse health outcomes in women of reproductive age. BV can be characterized by a shift in the vaginal flora from Lactobacillus spp. dominance to a more diverse microbial environment (1). Some Lactobacilllus spp. strains have been shown to decrease pathogenic bacteria in vaginal environments of women diagnosed with BV (2, 3).

In this study, the strain Lactobacillus jensenii SNUV360, isolated from the vaginas of healthy women, shows functional properties in the treatment of vaginal infection caused by lactobacilli deficiency. Here, we present the complete genome sequence of this probiotic strain.

In order to perform the complete genome sequencing of the strain L. jensenii SNUV360, high throughput sequencing technology was implemented using the PacBio platform (Pacific Biosciences, Menlo Park, CA). A 20-Kb library was constructed with purified DNA affixed to single-molecule real-time (SMRT) cell and was sequenced using P6-C4 chemistry with a data collection time of 4 h. The sequencing run provided a total of 143,207 reads with a quality score of Q20. The number of bases was 964,237,020 bp. De novo assembly employed the default parameters of the Hierarchical Genome Assembly Process approach version 3 (HGAP3) (4). The L. jensenii SNUV360 genome consisted of a 1,672,949 bp single-chromosome contig, with coverage of 420× and G+C content of 34.4%. No plasmids were detected.

The assembled genome sequences were annotated using the Prokka annotation pipeline, version 1.11 (5), which predicted tRNA, rRNA, and mRNA genes. Putative gene products were then assigned to protein-coding genes (CDSs) based on their similarity to the sequences in the respective database. Curated virulence factors and antibiotic resistance genes were estimated by using IslandViewer3 (6) against the Virulence Factor Database (VFDB) (7) of virulence factors, and Comprehensive Antibiotic Resistance Database (CARD) (8) of antibiotic resistance genes.

The genome contains 1,595 CDSs, 58 tRNA genes, and 12 rRNA genes. The L. jensenii SNUV360 genome was compared with the reference strain L. jensenii TL2937 (genome accession number NZ_MDTN01000000) with the Rapid Annotations using the Subsystems Technology (RAST) server (9). In this comparison, we detected 42 elements absent in the published strain L. jensenii TL2937. No remarkable antibiotic resistance or virulence-associated genes were found. The analysis of the complete genome of L. jensenii SNUV360 may assist in understanding the mechanisms involved in its effect against bacterial vaginosis.

Accession number(s).

The results of this whole-genome project have been deposited at GenBank under accession no. CP018809.

ACKNOWLEDGMENT

This project was supported by the National Research Foundation of Korea (NRF) (Grant No. NRF-2015R1A2A1A10054078).

Footnotes

Citation Lee S, You HJ, Kwon B, Ko G. 2017. Complete genome sequence of Lactobacillus jensenii strain SNUV360, a probiotic for treatment of bacterial vaginosis isolated from the vagina of a healthy Korean woman. Genome Announc 5:e01757-16. https://doi.org/10.1128/genomeA.01757-16.

REFERENCES

1. Koumans EH, Sternberg M, Bruce C, McQuillan G, Kendrick J, Sutton M, Markowitz LE 2007. The prevalence of bacterial vaginosis in the United States, 2001–2004; associations with symptoms, sexual behaviors, and reproductive health. Sex Transm Dis 34:864–869. doi:.10.1097/OLQ.0b013e318074e565 [PubMed] [Cross Ref]
2. Anukam K, Osazuwa E, Ahonkhai I, Ngwu M, Osemene G, Bruce AW, Reid G 2006. Augmentation of antimicrobial metronidazole therapy of bacterial vaginosis with oral probiotic Lactobacillus rhamnosus GR-1 and Lactobacillus reuteri RC-14: randomized, double-blind, placebo controlled trial. Microbes Infect 8:1450–1454. doi:.10.1016/j.micinf.2006.01.003 [PubMed] [Cross Ref]
3. Reid G, Charbonneau D, Erb J, Kochanowski B, Beuerman D, Poehner R, Bruce AW 2003. Oral use of Lactobacillus rhamnosus GR-1 and L. fermentum RC-14 significantly alters vaginal flora: randomized, placebo-controlled trial in 64 healthy women. FEMS Immunol Med Microbiol 35:131–134. doi:.10.1016/S0928-8244(02)00465-0 [PubMed] [Cross Ref]
4. Chin CS, Alexander DH, Marks P, Klammer AA, Drake J, Heiner C, Clum A, Copeland A, Huddleston J, Eichler EE, Turner SW, Korlach J 2013. Nonhybrid, finished microbial genome assemblies from long-read SMRT sequencing data. Nat Methods 10:563–569. doi:.10.1038/nmeth.2474 [PubMed] [Cross Ref]
5. Seemann T. 2014. Prokka: rapid prokaryotic genome annotation. Bioinformatics 30:2068–2069. doi:.10.1093/bioinformatics/btu153 [PubMed] [Cross Ref]
6. Dhillon BK, Laird MR, Shay JA, Winsor GL, Lo R, Nizam F, Pereira SK, Waglechner N, McArthur AG, Langille MG, Brinkman FS 2015. IslandViewer 3: more flexible, interactive genomic island discovery, visualization and analysis. Nucleic Acids Res 43:W104–W108. doi:.10.1093/nar/gkv401 [PMC free article] [PubMed] [Cross Ref]
7. Chen L, Xiong Z, Sun L, Yang J, Jin Q 2012. VFDB 2012 update: toward the genetic diversity and molecular evolution of bacterial virulence factors. Nucleic Acids Res 40:D641–645. doi:.10.1093/nar/gkr989 [PMC free article] [PubMed] [Cross Ref]
8. McArthur AG, Waglechner N, Nizam F, Yan A, Azad MA, Baylay AJ, Bhullar K, Canova MJ, De Pascale G, Ejim L, Kalan L, King AM, Koteva K, Morar M, Mulvey MR, O’Brien JS, Pawlowski AC, Piddock LJ, Spanogiannopoulos P, Sutherland AD, Tang I, Taylor PL, Thaker M, Wang W, Yan M, Yu T, Wright GD 2013. The comprehensive antibiotic resistance database. Antimicrob Agents Chemother 57:3348–3357. doi:.10.1128/AAC.00419-13 [PMC free article] [PubMed] [Cross Ref]
9. Aziz RK, Bartels D, Best AA, DeJongh M, Disz T, Edwards RA, Formsma K, Gerdes S, Glass EM, Kubal M, Meyer F, Olsen GJ, Olson R, Osterman AL, Overbeek RA, McNeil LK, Paarmann D, Paczian T, Parrello B, Pusch GD, Reich C, Stevens R, Vassieva O, Vonstein V, Wilke A, Zagnitko O 2008. The RAST Server: Rapid Annotations using Subsystems Technology. BMC Genomics 9:75. doi:.10.1186/1471-2164-1189-1175 [PMC free article] [PubMed] [Cross Ref]

Articles from Genome Announcements are provided here courtesy of American Society for Microbiology (ASM)