Abstract
Cylindrospermopsis raciborskii is a freshwater cyanobacterium producing bloom events and toxicity in drinking water source reservoirs. We present the first genome sequence for C. raciborskii CS505 (Australia), containing one 4.1-Mbp chromosome and one 110-Kbp plasmid having G+C contents of 40.3% (3933 genes) and 39.3% (111 genes), respectively.
GENOME ANNOUNCEMENT
Cylindrospermopsis raciborskii is defined as a planktonic nitrogen-fixing freshwater cyanobacterium (1). Strain CS505 (CSIRO culture collection) was isolated from Solomon Dam, North Queensland, Australia (2) and characterized based on its production of the hepatotoxin cylindrospermopsin (CYL), a potent protein synthesis inhibitor (3). In 2010, the draft genome of this strain was analyzed by a combination of 454 and Sanger sequencing, yielding 95 scaffolds with a total length of 3,879,017 bp (4). The cluster associated with the synthesis of CYL toxin was identified, as it had been previously described (5). The strain was grown in MLA liquid medium (6) at 25°C to 28°C under 12:12-h light/dark with a photon flux density of 40 µmol·m−2·s−1 with no aeration.
In this work, the full genome of the C. raciborskii CS505 strain was sequenced using the Pacific Biosciences (PacBio) RS II single-molecule real-time (SMRT) whole-genome sequencing system and assembled using the hierarchical genome assembly process (HGAP) implemented in the PacBio SMRT Analysis software suite (version 2.2.0). The assembly resulted in six scaffolds with a total length of 4,159,260 bp. The average length of the scaffolds was 693,210 bp, with longest and shortest scaffolds sizes of 4,011,384 bp and 2,519 bp, respectively. CheckM analysis (7) indicated a genome completeness of 99.85% with a contamination level of 0.22% and no strain heterogeneity identified. The complete genome and plasmid were annotated using RAST (8) and curated using GenomeMatcher (9).
Accession number(s).
This whole-genome shotgun project has been deposited at DDBJ/ENA/GenBank under the accession number LYXA00000000. The version described in this paper is version LYXA01000000.
ACKNOWLEDGMENTS
This work was supported by Grant Fondecyt Regular 1131037, 1161232 and FONDECYT de postdoctorado 3140191.
Funding Statement
J. J. Fuentés-Valdés has a Chilean Government Fellowship for Graduate Students (CONICYT #21120837).
Footnotes
Citation Fuentes-Valdés JJ, Plominsky AM, Allen EE, Tamames J, Vásquez M. 2016. Complete genome sequence of a cylindrospermopsin-producing cyanobacterium, Cylindrospermopsis raciborskii CS505, containing a circular chromosome and a single extrachromosomal element. Genome Announc 4(4):e00823-16. doi:10.1128/genomeA.00823-16.
REFERENCES
- 1.Woloszynska J. 1912. Das phytoplankton einiger javanischer seen mit berücksichtigung des Sawa-planktons. Bull Int Acad Sci Cracovie Ser B 6:649–709. [Google Scholar]
- 2.Saker ML. 2014. Cyanobacterial blooms in tropical north Queensland water bodies. Ph.D. Thesis James Cook University, Townsville, Australia. [Google Scholar]
- 3.Griffiths DJ, Saker ML. 2003. The Palm Island mystery disease 20 years on: a review of research on the cyanotoxin cylindrospermopsin. Environ Toxicol 18:78–93. doi: 10.1002/tox.10103. [DOI] [PubMed] [Google Scholar]
- 4.Stucken K, John U, Cembella A, Murillo AA, Soto-Liebe K, Fuentes-Valdés JJ, Friedel M, Plominsky AM, Vásquez M, Glöckner G. 2010. The smallest known genomes of multicellular and toxic cyanobacteria: comparison, minimal gene sets for linked traits and the evolutionary implications. PLoS One 5:e9235. doi: 10.1371/journal.pone.0009235. [DOI] [PMC free article] [PubMed] [Google Scholar]
- 5.Mihali TK, Kellmann R, Muenchhoff J, Barrow KD, Neilan BA. 2008. Characterization of the gene cluster responsible for cylindrospermopsin biosynthesis. Appl Environ Microbiol 74:716–722. doi: 10.1128/AEM.01988-07. [DOI] [PMC free article] [PubMed] [Google Scholar]
- 6.Castro D, Vera D, Lagos N, García C, Vásquez M. 2004. The effect of temperature on growth and production of paralytic shellfish poisoning toxins by the cyanobacterium Cylindrospermopsis raciborskii C10. Toxicon 44:483–489. doi: 10.1016/j.toxicon.2004.06.005. [DOI] [PubMed] [Google Scholar]
- 7.Parks DH, Imelfort M, Skennerton CT, Hugenholtz P, Tyson GW. 2015. Assessing the quality of microbial genomes recovered from isolates, single cells, and metagenomes. Genome Res 25:1043–1055. doi: 10.1101/gr.186072.114. [DOI] [PMC free article] [PubMed] [Google Scholar]
- 8.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. doi: 10.1186/1471-2164-9-75. [DOI] [PMC free article] [PubMed] [Google Scholar]
- 9.Ohtsubo Y, Ikeda-Ohtsubo W, Nagata Y, Tsuda M. 2008. GenomeMatcher: a graphical user interface for DNA sequence comparison. BMC Bioinformatics 9:376. doi: 10.1186/1471-2105-9-376. [DOI] [PMC free article] [PubMed] [Google Scholar]