Bacillus coagulans strains are gram-positive, spore-forming, and produce lactic acid, which possesses the capacity to balance intestinal gut microbiota, ultimately promoting the growth of animals and improving immunity [1,2]. In addition, B. coagulans is resistant to high temperatures because of its probiotic activity, modulates and strengthens the immune system to protect against infections, and minimizes inflammation-related tissue damage [3].
We isolated B. coagulans CACC 834 (KACC 22145) from the feces of a female 3-year-old Boston terrier in Korea. The samples were incubated under anaerobic conditions at 37℃ [4].
Whole-genome sequencing was performed using the Pacific Biosciences (PacBio) RS II Single Molecule Real Time (SMRT) platform with a 20 kb SMRTbellTM template library at ChunLab. The reads were assembled using the PacBio SMAR Analysis 2.3.0. [5].
The sequences were annotated using the combined results of the automatic National Center for Biotechnology Information (NCBI) Prokaryotic Genome Annotation Pipeline (PGAP) and Rapid Annotations using Subsystems Technology (RAST) [6].
The complete genome of B. coagulans CACC 834 was composed of a 3, 077, 319 bp circular chromosome with 47.1% guanine (G) + cytosine (C) content. The genome contained 3, 181 protein coding sequences (CDS), 30 rRNAs, and 83 tRNAs (Table 1). The genome features of B. coagulans CACC 834 are summarized in Fig. 1. Among these CDS, 2, 909 genes were classified into 20 clusters of orthologous groups (COG) functional categories (Fig. 1B). More than 41% of genes were involved in transport and metabolism, including amino acid, carbohydrate, inorganic ion, nucleotide, coenzyme, and lipid. Interestingly, 11% of the genes were involved in replication, recombination, and repair (Fig. 1B).
Table 1. Genome overview of Bacillus coagulas CACC834
Fig. 1. Genome features of Bacillus coagulans CACC834.
(A) Circular genome maps of B. coagulans CACC834 chromosome. Circles from the outside to the center denote rRNA and tRNA gene, reverse strand CDS, forward strand CDS, GC skew, and GC content. (B) Genome number of COG categorie. CDS, protein-coding genes; COG, clusters of orthologous group; G, guanine; C, cytosine.
The genome of B. coagulans CACC 834 possessed hsp20, hsp60, dnaK, dnaJ and grpE operons, encoding enzymes and proteins for heat shock. Also, B. coagulans CACC 834 has heat shock induced genes, such as clpB, clpP, mcsB, and repair-related genes, such as recA and uvrABC. The expression of these genes is expected to help promote cell recovery from heat shock by limiting damage caused by stress [7–9]. Furthermore, B. coagulans CACC 834 carried genes known to be involved in lactate synthesis, adhesion, acid resistance, and bile resistance (Table 2).
Table 2. Predicted genes involved in probiotic potency in B. coagulans CACC834
This study on complete genome sequence of B. coagulans CACC 834 may increase our understanding of the probiotic effects in host healthcare and extend its potential application as an industrial strain.
The complete genome of B. coagulans strain CACC 834 determined in this study has been deposited in the NCBI GenBank database under accession number CP076597.
Competing interests
No potential conflict of interest relevant to this article was reported.
Acknowledgements
Not applicable.
Authors’ contributions
Conceptualization: Kim Y. Data curation: Kim JA. Formal analysis: Kim JA. Methodology: Kim JA. Software: Kim JA. Validation: Kim JA, Kim DH. Investigation: Kim Y. Writing - original draft: Kim Y. Writing - review & editing: Kim JA, Kim DH, Kim Y
References
- Su F, Xu P. Genomic analysis of thermophilic Bacillus coagulans strains: efficient producers for platform bio-chemicals. Sci Rep. 2014;4:3926. https://doi.org/10.1038/srep03926
- Zhou Y, Zeng Z, Xu Y, Ying J, Wang B, Majeed M, et al. Application of Bacillus coagulans in animal husbandry and its underlying mechanisms. Animals. 2020;10:454. https://doi.org/10.3390/ani10030454
- Konuray G, Erginkaya Z. Potential use of Bacillus coagulans in the food industry. Foods. 2018;7:92. https://doi.org/10.3390/foods7060092
- Jang HJ, Son S, Kim JA, Jung MY, Choi Y, Kim DH, et al. Characterization and functional test of canine probiotics. Front Microbiol. 2021;12:625562. https://doi.org/10.3389/fmicb.2021.625562
- Lee JE, Heo S, Kim GB. Complete genome sequence of Streptococcus hyointestinalis B19, a strain producing bacteriocin, isolated from chicken feces. J Anim Sci Technol. 2020;62:420-2. https://doi.org/10.5187/jast.2020.62.3.420
- Aziz RK, Bartels D, Best AA, DeJongh M, Disz T, Edwards RA, et al. The RAST Server: rapid annotations using subsystems technology. BMC Genomics. 2008;9:75. https://doi.org/10.1186/1471-2164-9-75
- Palop A, Sala FJ, Condon S. Occurrence of a highly heat-sensitive spore subpopulation of Bacillus coagulans STCC 4522 and its conversion to a more heat-stable form. Appl Environ Microbiol. 1997;63:2246-51. https://doi.org/10.1128/aem.63.6.2246-2251.1997
- Guzzo J. Biotechnical applications of small heat shock proteins from bacteria. Int J Biochem Cell Biol. 2012;44:1698-705. https://doi.org/10.1016/j.biocel.2012.06.007
- Li P, Tian W, Jiang Z, Liang Z, Wu X, Du B. Genomic characterization and probiotic potency of Bacillus sp. DU-106, a highly effective producer of L-lactic acid isolated from fermented yogurt. Front Microbiol. 2018;9:2216. https://doi.org/10.3389/fmicb.2018.02216