Abstract
Aeromonas aquatica and Aeromonas lacus are two new species that have been found in association with cyanobacterial blooms from recreational Finnish lakes where adverse human health effects have been recorded. Here, we present the draft genome sequences of their type strains.
GENOME ANNOUNCEMENT
The genus Aeromonas includes 27 species recovered mainly from aquatic environments, with several species implicated in mammalian and fish diseases (1, 2). During a survey of Finnish waters where cyanobacterial blooms were suspected to have caused adverse human health effects (i.e., fever and gastroenteritis), some Aeromonas strains were identified as new species, named Aeromonas aquatica and Aeromonas lacus (R. Beaz-Hidalgo, F. Latif-Eugenín, K. Berg, R. M. Niemi, J. Rapala, C. Lyra, and M. J. Figueras, unpublished data).
An Illumina MiSeq was used to generate the genome sequences for strains A. aquatica AE235T (=CECT 8025T = LMG 26712T) and A. lacus AE122T (=CECT 8024T = LMG 26710T), obtaining 1.12-Mb and 1.37-Mb sequence reads, with average coverages of 25× and 29×, respectively. The sequence reads were trimmed and assembled de novo using CLC Genomics Workbench (CLC bio, Cambridge, MA), generating the data shown in Table 1. The G+C content was within the range established (57 to 63 mol%) for the genus Aeromonas (3).
TABLE 1.
Summary of genome data from type strains of two novel Aeromonas species
| Strain | Accession no. | Genome size (bp) | N50 (kbp) | No. of contigs | G+C content (%) | No. of tRNAs | No. of proteins |
||
|---|---|---|---|---|---|---|---|---|---|
| Known function | Hypothetical | Unknown function | |||||||
| AE235Ta | JRGL00000000 | 4,582,304 | 67.5 | 171 | 61.1 | 84 | 3,301 | 778 | 19 |
| AE122Tb | JRGM00000000 | 4,394,373 | 76.7 | 196 | 58.7 | 68 | 3,921 | 662 | 13 |
Aeromonas aquatica.
Aeromonas lacus.
The assembled genomes were annotated using the RAST server (4). The numbers of predicted tRNAs and protein-coding sequences in the two genomes are shown in Table 1. Also, the two genomes have evidence for multiple secretory systems, including type I, II, and VI, and type III was found only in AE122T.
The two strains are predicted to have catabolic pathways for the utilization of mannose, deoxyribose, and deoxynucleoside, d-gluconate, ketogluconates, l-rhamnose, fructose, d-galactarate, d-glucarate, d-glycerate, and d-ribose. The two genomes also encode proteins required for the utilization of glycerol, glycerol-3-phosphate, and mannitol.
The prediction of prophages using PHAST (5) demonstrated that AE235T contains two complete prophages (21 kb and 77 kb) similar to Vibrio phages vB_VpaM_MAR and Stx2-converting phage I, respectively, and the AE122T genome showed no prophages.
The draft genome sequences of these novel Aeromonas species are valuable additions to the genomic database that will contribute to the understanding of their role in the environment and potential pathogenicity to humans and fish.
Nucleotide sequence accession numbers.
The draft genome sequences of the Aeromonas strains AE235T and AE122T used in this study have been deposited as whole-genome shotgun sequencing projects at DDBJ/EMBL/GenBank under the accession numbers JRGL00000000 and JRGM00000000, respectively. The version of each strain described in this paper is the first version, with accession numbers JRGL01000000 and JRGM01000000.
ACKNOWLEDGMENTS
This work was funded in part by the European Union Seventh Framework Program (FP7/2007-2013) under grant agreement no. 311846.
We are solely responsible for the content of this publication. It does not represent the opinion of the European Commission. The European Commission is not responsible for any use that might be made of the data appearing herein.
Footnotes
Citation Hossain MJ, Beaz-Hidalgo R, Figueras MJ, Liles MR. 2014. Draft genome sequences of two novel Aeromonas species recovered in association with cyanobacterial blooms. Genome Announc. 2(6):e01181-14. doi:10.1128/genomeA.01181-14.
REFERENCES
- 1. Beaz-Hidalgo R, Figueras MJ. 2013. Aeromonas spp. whole genomes and virulence factors implicated in fish disease. J. Fish Dis. 36:371–388. 10.1111/jfd.12025. [DOI] [PubMed] [Google Scholar]
- 2. Janda JM, Abbott SL. 2010. The genus Aeromonas: taxonomy, pathogenicity, and infection. Clin. Microbiol. Rev. 23:35–73. 10.1128/CMR.00039-09. [DOI] [PMC free article] [PubMed] [Google Scholar]
- 3. Martin-Carnahan A, Joseph SW. 2005. Family I. Aeromonadaceae, p 556–557 In Brenner DJ, Krieg NR, Staley JT, Garrity GM. (ed), Bergey’s manual of systematic bacteriology, 2nd ed. Vol 2: the Proteobacteria, part B: the Gammaproteobacteria. Springer Verlag, New York, NY. [Google Scholar]
- 4. Aziz RK, Bartels D, Best AA, DeJongh M, Disz T, Edwards RA, Formsma K, Gerdes S, Glass EM, Kubal M, Meyer F, Olsen GJ, Olson R, Osterman AL, Overbeek RA, McNeil LK, Paarmann D, Paczian T, Parrello B, Pusch GD, Reich C, Stevens R, Vassieva O, Vonstein V, Wilke A, Zagnitko O. 2008. The RAST server: Rapid Annotations using Subsystems Technology. BMC Genomics 9:75. 10.1186/1471-2164-9-75. [DOI] [PMC free article] [PubMed] [Google Scholar]
- 5. Zhou Y, Liang YJ, Lynch KH, Dennis JJ, Wishart DS. 2011. PHAST: a fast phage search tool. Nucleic Acids Res. 39:W347–W352. 10.1093/nar/gkr485. [DOI] [PMC free article] [PubMed] [Google Scholar]