Xu F, Jiménez-González A, Kurt Z, Ástvaldsson Á, Andersson JO, Svärd SG. A chromosome-scale reference genome for Spironucleus salmonicida.
Sci Data 2022;
9:585. [PMID:
36153341 PMCID:
PMC9509377 DOI:
10.1038/s41597-022-01703-w]
[Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/11/2022] [Accepted: 09/15/2022] [Indexed: 11/24/2022] Open
Abstract
Spironucleus salmonicida is a diplomonad causing systemic infection in salmon. The first S. salmonicida genome assembly was published 2014 and has been a valuable reference genome in protist research. However, the genome assembly is fragmented without assignment of the sequences to chromosomes. In our previous Giardia genome study, we have shown how a fragmented genome assembly can be improved with long-read sequencing technology complemented with optical maps. Combining Pacbio long-read sequencing technology and optical maps, we are presenting here this new S. salmonicida genome assembly in nine near-complete chromosomes with only three internal gaps at long repeats. This new genome assembly is not only more complete sequence-wise but also more complete at annotation level, providing more details into gene families, gene organizations and chromosomal structure. This near-complete reference genome will aid comparative genomics at chromosomal level, and serve as a valuable resource for the diplomonad community and protist research.
| Measurement(s) | genomic_DNA • sequence_assembly • sequence feature annotation |
| Technology Type(s) | SMRT Sequencing • sequence assembly process • sequence annotation |
| Sample Characteristic - Organism | Spironucleus salmonicida |
Collapse