Abstract
Aeromonas hydrophila is an emerging pathogen of aquatic and terrestrial animals, including humans. Here, we report the whole-genome sequence of the septicemic A. hydrophila AH-1 strain, belonging to the serotype O11, and the first mesophilic Aeromonas with surface layer (S-layer) to be sequenced.
GENOME ANNOUNCEMENT
Aeromonas hydrophila is a water-borne opportunistic pathogen of poikilothermic animals, including fish, reptiles, and mammals (1). Although it is an integral part of the intestinal flora of healthy fish (2), some A. hydrophila strains can cause severe outbreaks of motile aeromonad septicemia (MAS), causing huge economic losses in the aquaculture industry (3). In humans, A. hydrophila pathogenesis involves gastrointestinal and wound infections and even septicemia in immunocompromised patients (4). Aeromonas strains are considered a contaminant agent by the U.S. Environmental Protection Agency and are routinely monitored in drinking water. The virulence of A. hydrophila is multifactorial and has been associated with several pathogenic factors, including, but not limited to, surface polysaccharides, surface layers (S-layers), secretion systems, and flagella (5).
S-layers are bacterial cell surface proteins associated with different pathogenic functions, such as cell adhesion, antigenic properties, and protection against host complement system lysis and phagocytes (6). A. hydrophila AH-1 is a septicemic strain and the first mesophilic A. hydrophila strain with an S-layer to be sequenced to date. The analysis of the genome from this strain will allow in-depth understanding of the evolution and lateral transfer of genes involved in the S-layer production in bacteria and its importance in virulence and pathogenicity.
The genome of A. hydrophila AH-1 strain was fully sequenced using Illumina MiSeq II, generating a total of 6,856,223 paired reads with 82× coverage. Read quality analysis and trimming were done with Prinseq 0.20.4 (7). De novo assembly with SPAdes 3.6.0 (8) resulted in 218 scaffolds larger than 500 kb.
Genome annotation was performed both via the NCBI Prokaryotic Genome Annotation Pipeline (PGAAP) and Rapid Annotations using Subsystems Technology (RAST). The complete genome of A. hydrophila AH-1 is 5,123,179 bp, with 60.9% G+C content, and codes for 4,773 predicted genes, eight rRNAs, and 95 tRNA sequences.
Accession number(s).
This whole-genome shotgun project has been deposited at DDBJ/EMBL/GenBank under the accession no. LYXN00000000 (BioProject PRJNA323709). The version described in this paper is the first version, LYXN01000000.
ACKNOWLEDGMENTS
This work was supported by the Plan Nacional de I+D+i (Ministerio de Economia y Competitividad, Spain) and the Generalitat de Catalunya (Centre de Referencia de Biotecnologia).
We thank Maite Polo for her technical assistance.
Footnotes
Citation Forn-Cuní G, Tomás JM, Merino S. 2016. Whole-genome sequence of Aeromonas hydrophila strain AH-1 (serotype O11). Genome Announc 4(5):e00920-16. doi:10.1128/genomeA.00920-16.
REFERENCES
- 1.Janda JM, Abbott SL. 2010. The genus Aeromonas: taxonomy, pathogenicity, and infection. Clin Microbiol Rev 23:35–73. doi: 10.1128/CMR.00039-09. [DOI] [PMC free article] [PubMed] [Google Scholar]
- 2.Li J, Zhang XL, Liu YJ, Lu CP. 2011. Development of an Aeromonas hydrophila infection model using the protozoan tetrahymena thermophila. FEMS Microbiol Lett 316:160–168. doi: 10.1111/j.1574-6968.2010.02208.x. [DOI] [PubMed] [Google Scholar]
- 3.Pang M, Jiang J, Xie X, Wu Y, Dong Y, Kwok AH, Zhang W, Yao H, Lu C, Leung FC, Liu Y. 2015. Novel insights into the pathogenicity of epidemic Aeromonas hydrophila ST251 clones from comparative genomics. Sci Rep 5:9833. doi: 10.1038/srep09833. [DOI] [PMC free article] [PubMed] [Google Scholar]
- 4.Parker JL, Shaw JG. 2011. Aeromonas spp. clinical microbiology and disease. J Infect 62:109–118. doi: 10.1016/j.jinf.2010.12.003. [DOI] [PubMed] [Google Scholar]
- 5.Tomás JM. 2012. The main Aeromonas pathogenic factors. ISRN Microbiol 2012:256261. doi: 10.5402/2012/256261. [DOI] [PMC free article] [PubMed] [Google Scholar]
- 6.Beveridge TJ, Pouwels PH, Sára M, Kotiranta A, Lounatmaa K, Kari K, Kerosuo E, Haapasalo M, Egelseer EM, Schocher I, Sleytr UB, Morelli L, Callegari ML, Nomellini JF, Bingle WH, Smit J, Leibovitz E, Lemaire M, Miras I, Salamitou S, Béguin P, Ohayon H, Gounon P, Matuschek M, Koval SF. 1997. Functions of S-layers. FEMS Microbiol Rev 20:99–149. [DOI] [PubMed] [Google Scholar]
- 7.Schmieder R, Edwards R. 2011. Quality control and preprocessing of metagenomic datasets. Bioinformatics 27:863–864. doi: 10.1093/bioinformatics/btr026. [DOI] [PMC free article] [PubMed] [Google Scholar]
- 8.Bankevich A, Nurk S, Antipov D, Gurevich AA, Dvorkin M, Kulikov AS, Lesin VM, Nikolenko SI, Pham S, Prjibelski AD, Pyshkin AV, Sirotkin AV, Vyahhi N, Tesler G, Alekseyev MA, Pevzner PA. 2012. SPAdes: a new genome assembly algorithm and its applications to single-cell sequencing. J Comput Biol 19:455–477. doi: 10.1089/cmb.2012.0021. [DOI] [PMC free article] [PubMed] [Google Scholar]