A chromosome-scale reference genome for Spironucleus salmonicida.

Xu F, Jiménez-González A, Kurt Z, Ástvaldsson Á, Andersson JO, Svärd SG

Sci Data 9 (1) 585 [2022-09-24; online 2022-09-24]

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.

NGI Long read [Service]

NGI Uppsala (Uppsala Genome Center) [Service]

National Genomics Infrastructure [Service]

PubMed 36153341

DOI 10.1038/s41597-022-01703-w

Crossref 10.1038/s41597-022-01703-w

pmc: PMC9509377
pii: 10.1038/s41597-022-01703-w

Publications 9.5.0