Abstract
Streptococcus parauberis is a pathogen of cattle and fish, closely related Streptococcus uberis and Streptococcus iniae. We report the genomes of seven S. parauberis strains recovered from striped bass (Morone saxatilis) in the Chesapeake Bay. The availability of these genomes will allow comparative genomic analysis of Chesapeake Bay S. parauberis strains versus S. parauberis cultured from other animal hosts and geographic regions.
GENOME ANNOUNCEMENT
Streptococcus parauberis is a Gram-positive lactic acid bacterium first recognized as an agent of bovine mastitis in domestic cattle, where it was previously considered a subtype of Streptococcus uberis (1). S. parauberis is an emerging pathogen in the aquaculture industry and has caused epizootics of streptococcosis in multiple geographic locations, including Spain, in cultured turbot (Scopthalmus maximus) (2); South Korea, in olive flounder (Paralichthys olivaceaus) (3); and Japan, in olive flounder and in a cultured sea bass species Sebastes ventricosus (4, 5). Recently, S. parauberis was cultured from wild striped bass (Morone saxatilis) from the Chesapeake Bay, representing the first detection of this bacterial pathogen in fish in North America and its first detection in a wild host population (6). We report the genomes of seven Streptococcus parauberis strains cultured from striped bass hosts in the Chesapeake Bay.
Purified isolates were grown for 48 h in 5 mL of BHI broth at 30°C. Genomic DNA was isolated from purified isolates using DNEasy Blood and Tissue kits (Qiagen). Genomes were sequenced using Illumina MiSeq or HiSeq sequencing platforms at the University of Texas at Austin Genomic Sequencing and Analysis Facility. Then 125-bp paired-end reads were downsampled to either 50× or 100× coverage using FastqToCA and de novo assembled into contigs using Celera Assembler v 1.1, 6.1, 8.2, or 8.3 (7) with default parameters. Contigs were then annotated using Prokka v 1.11 (8).
A full description of these strains will be included in a future report with the results of comparative S. parauberis genomic analysis.
Accession number(s).
These draft genomes have been deposited in GenBank under the accession numbers listed in Table 1. The versions described in this paper are the first versions.
TABLE 1 .
Characteristics of 7 Streptococcus parauberis isolates from striped bass (Morone saxatilis) in the Chesapeake Bay
| Strain name | Accession no. | SRAa accession no. | Total contig length (bp) | No. of contigs | G+C content (%) | No. of CDSsb | No. of tRNAs |
|---|---|---|---|---|---|---|---|
| N11 | LIXR00000000 | SRR3231596 | 1,999,273 | 14 | 35.50% | 2,019 | 23 |
| N198_2 | LHAC00000000 | SRR3152169 | 1,975,829 | 14 | 35.50% | 1,972 | 49 |
| PL23 | LHAD00000000 | SRR3151460 | 2,020,482 | 12 | 35.50% | 2,040 | 39 |
| PL9 | LJCT00000000 | SRR3280351 | 2,012,234 | 23 | 33.90% | 2,028 | 41 |
| RP15 | LRBI00000000 | SRR3231612 | 2,012,630 | 12 | 39.00% | 2,040 | 53 |
| RP17 | LRBJ00000000 | SRR3231613 | 2,016,416 | 12 | 38.90% | 2,049 | 53 |
| RP25 | LRBK00000000 | SRR3231641 | 2,031,135 | 12 | 35.70% | 2,057 | 57 |
SRA, Sequence Read Archive.
CDSs, coding sequences.
ACKNOWLEDGMENTS
This work was supported by grants to Ashley Haines by the Jeffress Memorial Foundation, the Thurgood Marshall College Fund, the U.S. Department of Defense, and the National Science Foundation under grant no. HRD-1505348, as well as grants to Norfolk State University from the Louis Stokes Alliance for Minority Participation (LSAMP) in support of the STARS program.
We are grateful to the University of Texas Austin Genomic Sequencing and Analysis Facility (GSAF) for genome sequencing, Martha Rhodes from the Virginia Institute of Marine Science at the College of William & Mary for providing the samples, and Vince Ruggerio from the Office of Information & Technology at Norfolk State University for computing assistance.
The funders had no role in study design, data collection and interpretation, or the decision to submit the work for publication.
Footnotes
Citation Haines A, Nebergall E, Besong E, Council K, Lambert O, Gauthier D. 2016. Draft genome sequences for seven Streptococcus parauberis isolates from wild fish in the Chesapeake Bay. Genome Announc 4(4):e00741-16. doi:10.1128/genomeA.00741-16.
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