ABSTRACT
Pannonibacter indicus strain HT23T, a highly arsenate-tolerant bacterium, was isolated from a tropical hot spring. The estimated genome is 4.2 Mb with 3,818 protein-coding sequences containing putative genes, some of which are involved in arsenate resistance.
GENOME ANNOUNCEMENT
Pannonibacter indicus strain HT23T is a motile, aerobic, Gram-negative, and rod-shaped bacterium belonging to the class Alphaproteobacteria. This bacterium was isolated from a tropical hot spring at Athamallik, Orissa, India (1, 2). Strain HT23T is able to grow in the presence of 500 mM of sodium arsenate in low-phosphate medium. The genome sequence will help to understand the mechanism of arsenic tolerance in this bacterium.
The draft genome of strain HT23T was generated at the DOE Joint Genome Institute (JGI). An Illumina standard shotgun library was constructed and sequenced using the Illumina HiSeq 2000 platform (3), which generated 10,175,130 paired-end reads totaling 1,536.4 Mb. Filtered Illumina reads were assembled using Velvet (4), wgsim, and Allpaths-LG (5). The final draft assembly contained 38 contigs in 36 scaffolds, totaling 4.2 Mb, with an input read coverage of 261.8-fold. The largest and N50 contigs were 646.4 kb and 216.1 kb, respectively, with a G+C content of 63.5%.
The genome was annotated using the JGI Microbial Annotation Pipeline (6). Genes were identified using Prodigal (7), followed by manual curation using GenePRIMP (8). The tRNAs, rRNAs, and other noncoding RNA genes were identified by searching the genome using the tRNAScan-SE tool (9), rRNA gene models built from SILVA (10), and Infernal (https://www.janelia.org/publication/infernal-10-inference-rna-alignments), respectively. The draft genome sequence has 3,818 candidate protein-coding sequences (CDSs), 50 tRNAs, 7 rRNAs, 13 other RNAs, and 3 clustered regularly interspaced short palindromic repeats (CRISPRs).
Accession number(s).
This whole-genome shotgun project has been deposited at DDBJ/EMBL/GenBank under the accession number LIPT00000000. The version described in this paper is the first version, LIPT01000000.
ACKNOWLEDGMENTS
This work was supported in part by funding received by S.K.D. from the Department of Biotechnology, Government of India (D.O. no. BT/PR9712/NBD/52/91/2007). S.B. acknowledges the Council of Scientific and Industrial Research (CSIR), Government of India, New Delhi, for providing the research fellowship. The genome sequencing was performed under the auspices of the U.S. Department of Energy’s Office of Science, Biological and Environmental Research Program, and by the University of California, Lawrence Berkeley National Laboratory, under contract no. DE-AC02-05CH11231.
Footnotes
Citation Bandyopadhyay S, Whitman WB, Das SK. 2017. Draft genome sequence of Pannonibacter indicus strain HT23T (DSM 23407T), a highly arsenate-tolerant bacterium isolated from a hot spring in India. Genome Announc 5:e00283-17. https://doi.org/10.1128/genomeA.00283-17.
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