Abstract
Pathogenic Leptospira spp. cause leptospirosis upon contact with mucosa through wounds or ingestion, leading to headaches, fever, jaundice, kidney or liver failure, or death in about 1.3 million people each year. Here, we present the draft genomes of one L. santarosai isolate and two L. interrogans isolates from Ecuador.
GENOME ANNOUNCEMENT
Leptospirosis is a zoonotic disease with worldwide distribution (1), responsible for 1.03 million human cases per year around the world (2). Leptospirosis infection occurs by direct contact with urine or flesh from infected animals or by contact with contaminated soil or water (3). Ten out of 22 Leptospira spp. are classified in the “pathogenic clade” of the genus: L. alexanderi, L. weilii, L. borgpetersenii, L. santarosai, L. kmetyi, L. alstonii, L. interrogans, L. kirschneri, L. mayottensis, and L. noguchii (4). Most of these have been reported to cause high human morbidity. To date, 334 whole genome Leptospira sequences have been published, from which most of them (65%) belong to L. interrogans, followed by L. santarosai (8%), L. kirschneri (8%), and L. borgpetersenii (6%) (5).
Here, we announce the first three Leptospira whole-genome sequences from Ecuador. These isolates are from human blood collected in 2014 from Portoviejo, Ecuador (isolate C216), and cow urine (isolates ZV013 and ZV016) from Portoviejo collected in 2014. Isolates were obtained by culturing human blood (isolate C216) and cow urine (isolates ZV013, ZV016) in EMJH culture media. Research on human samples was approved by the Northern Arizona University Institutional Review Board (482212-1). Dual-indexed Illumina MiSeq libraries were prepared from genomic DNA as described in Keim et al. (6). Genome assembly was performed by using SPAdes version 3.60 (7). Comparative analysis of the 16S rRNA gene identified isolate C216 as L. santarosai, and isolates ZV013 and ZV016 as L. interrogans. A detailed list of genome assembly details is shown in Table 1. We used Prokka software (8) to annotate the genome and determine the total number of coding sequences, tRNAs, and rRNAs.
TABLE 1 .
Three Leptospira sp. genomes released to NCBI
| Isolate ID | Accession no. | Source | Genome size (bp) | No. of contigs | No. of CDSsa | No. of tRNAs | No. of rRNAs |
|---|---|---|---|---|---|---|---|
| C216 | LSSR00000000 | Human sera | 3,983,958 | 95 | 3,547 | 37 | 1 |
| ZV013 | LSSQ00000000 | Cow urine | 4,414,224 | 87 | 3,586 | 38 | 1 |
| ZV016 | LSSS00000000 | Cow urine | 4,416,860 | 117 | 3,590 | 38 | 1 |
CDSs, coding sequences.
Nucleotide sequence accession numbers.
All three genomes have been deposited in GenBank under the accession numbers listed in Table 1. The versions in this paper are the first versions.
ACKNOWLEDGMENTS
This work was funded by the National Institute of Allergy and Infectious Diseases, National Institutes of Health grant R15AI101913; a SENESCYT scholarship from the Ecuadorian government; and Universidad San Francisco de Quito, Ecuador. The funders had no role in study design, data collection and interpretation, or the decision to submit the work for publication.
Footnotes
Citation Barragan V, Sahl JW, Wiggins K, Chiriboga J, Salinas A, Cantos NE, Loor MN, Intriago BI, Morales M, Trueba G, Pearson T. 2016. Draft genome sequence of the first pathogenic Leptospira isolates from Ecuador. Genome Announc 4(3):e00271-16. doi:10.1128/genomeA.00271-16.
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