Draft Genome Sequence of Salmonella enterica subsp. enterica Serovar Kiambu Strain CRJJGF_00061 (Phylum Gammaproteobacteria)

We report a 4.58 Mbp draft genome sequence of Salmonella enterica subsp. enterica serovar Kiambu strain CRJJGF_00061 isolated from cattle in 2004.

pathogens and an important public health concern worldwide which can be transmitted to humans via contaminated food or water causing sporadic cases or outbreaks of salmonellosis (1,2). Food animals and their products are associated with Salmonella infections. Animal contact represents another source of human infection and a threat to public health (3). There are over 2,579 Salmonella serovars, however, less than 100 serotypes account for most human infections (e.g., Enteritidis, Typhimurium, Newport, and Heidelberg) (4,5).
Genomic DNA was isolated using GenElute bacterial genomic DNA kit (Sigma-Aldrich, St. Louis, MO), the DNA library was constructed using the Nextera-XT DNA preparation kit, and paired-end sequencing was performed on the Illumina HiSeq2500 (Illumina Inc., San Diego, CA) using a 500cycle MiSeq reagent kit. About 3,520,806 reads with quality score Ն30 were assembled using Velvet assembler (11), result-ing in 168 contigs with minimum contig length Ն200 bp. The total assembly size was 4.58 Mbp, with N 50 values of 66.2 kbp, and GϩC content of 52.10%. The contigs were ordered with Mauve (12) using Salmonella LT2 as reference, and prodigal (13) and ARAGORN (14) were used to predict protein coding sequences (CDS) and tRNAs. A total of 4,277 coding sequences (Ն50 amino acids) and 42 tRNAs were predicted within the genome. Prophages, signal peptides, and resistance genes were predicted using PHAST (15), signalp (16), and ARG-ANNOT (17), respectively. We identified signal peptides in 418 genes, two clustered regularly interspaced short palindromic repeat (CRISPR) (18) loci usually associated with a CRISPR-Cas system, and four phages in the genome. We detected one resistance gene, Aac6-Iy, which remains cryptic and located on the chromosome (19). No phenotypic antimicrobial resistance was detected. The detected arsenic resistance genes (pstBACS) (20) were correlated with phenotypes. The tested MIC of the isolate was 206 g/ml for arsenate and 29 g/ml for arsenite compared to wildtype Salmonella which had a median MIC of 51 g/ml for arsenate and 15 g/ml for arsenite. To our knowledge, no other genomic data for Salmonella serovar Kiambu exists in the literature. Addition of new serovars draft genomes increases the diversity of Salmonella genomes currently available for comparative analysis.
Nucleotide sequence accession number. Genome sequences of Salmonella enterica subsp. enterica serovar Kiambu strain CRJJGF_00061 have been deposited in GenBank under the accession number JQUR00000000. This paper describes the first version.

ACKNOWLEDGMENTS
The mention of trade names or commercial products in this article is solely for the purpose of providing specific information and does not imply recommendation or endorsement by the U.S. Department of Agriculture.

FUNDING INFORMATION
This work, including the efforts of Charlene R Jackson and Jonathan Gray Frye, was funded by American Meat Institute Foundation. This work, including the efforts of Michael McClelland, was funded by HHS | National Institutes of Health (NIH) (R01AI052237, AI039557, AI053327, AI073971, AI075093, AI077645, and AI083646). This work, including the efforts of Charlene R Jackson and Jonathan Gray The funders had no role in study design, data collection and interpretation, or the decision to submit the work for publication.