INTRODUCTION
A number of Bacillus strains reported to degrade non-digestible carbohydrates, including cellulose and hemicellulose, have been used as feed additives to increase feed efficiency [1,2]. Bacillus amyloliquefaciens ATC6 was originally isolated from pig feces, and produces acidic cellulase [3]. Here we sequenced the complete genome of B. amyloliquefaciens ATC6. B. amyloliquefaciens ATC6 was grown in Nutrient Broth (Difco, Franklin Lakes, NJ, USA) at 37℃ for 12 h. The genomic DNA was prepared as described previously [4], and the genome quality was checked using a spectrophotometer (UV-1601PC, Shimadzu, Kyoto, Japan). The genomic DNA of B. amyloliquefaciens ATC6 was sequenced using the PacBio RSII platform (ver. 2.0; Pacific Biosciences, CA, USA) at Macrogen. (Korea). All generated reads were de novo assembled using RS HGAP Assembly (ver. 3.0) [5]. Functional annotation was performed using the InterProScan (ver. 5.30–69.0) (http://www.ebi.ac.uk/interpro/), GO (http://geneontology.org/page/go-database), BLAST (ver. 2.6.0+) (http://blast.ncbi.nlm.nih.gov/) with UniProt (ver. 2018_06) (http://www.uniprot.org/), and EggNOG (ver. 4.5) (http://eggnogdb.embl.de/#/app/home) databases, and the genome was submitted to GenBank (https://www.ncbi.nlm.nih.gov/) (No. PRJNA639017).
The complete genome of strain ATC6 was 4,062,817 bp in length with a guanine-cytosine (GC) content of 46.27% (Table 1). No plasmid was detected (Fig. 1). The chromosome contained a total of 3,913 protein-coding sequences, 27 ribosomal RNAs, and 86 transfer RNAs that were annotated (Table 1). Analysis of the genomic sequences revealed that ATC6 possessed genes involved in cellulose degradation, as shown in our previous report [3]. This genome also contained genes associated with the degradation of other non-digestible carbohydrates, such as xylan and mannan. The genomic information of B. amyloliquefaciens ATC6 will help clarify the biodegradation mechanism of non-digestible carbohydrates, which could increase animal feed efficiency.
Table 1. Genome features of Bacillus amyloliquefaciens ATC6
GC, guanine-cytosine.
Fig. 1. Chromosome map of Bacillus amyloliquefaciens ATC6. GC, guanine-cytosine
Competing interests
No potential conflict of interest relevant to this article was reported.
Funding sources
This work was supported by a grant from the Next-Generation BioGreen 21 Program (Project No. PJ 01322303), Rural Development Administration, Korea.
Acknowledgements
Not applicable.
Availability of data and material
Upon reasonable request, the datasets of this study can be available from the corresponding author.
Ethics approval and consent to participate
This article does not require IRB/IACUC approval because there are no human and animal participants.
References
- Lee JK, Park IK, Choi YJ, Cho J. Bacillus strains as feed additives: in vitro evaluation of its potential probiotic properties. Rev Colomb Cienc Pecu. 2012;25:577-85.
- Bedford MR, Partridge GG. Enzymes in farm animal nutrition. 2nd updated ed. Wallingford, UK: CABI Publishing; 2010.
- Lee SH, Chae JP, Kim MJ, Kang DK. Isolation of Bacillus amyloliquefaciens ATC6 producing acidic cellulase. J Anim Sci Technol. 2010;52:65-70. https://doi.org/10.5187/JAST.2010.52.1.065
- Valeriano VDV, Oh JK, Bagon BB, Kim HB, Kang DK. Comparative genomic analysis of Lactobacillus mucosae LM1 identifies potential niche-specific genes and pathways for gastrointestinal adaptation. Genomics. 2019;111:24-33. https://doi.org/10.1016/j.ygeno.2017.12.009
- Chin CS, Alexander DH, Marks P, Klammer AA, Drake J, Heiner C, et al. Nonhybrid, finished microbial genome assemblies from long-read SMRT sequencing data. Nat Methods. 2013;10:563-9. https://doi.org/10.1038/nmeth.2474