The full-length transcriptome sequencing of three sturgeons reveals the occurrence of whole genome duplication event.

Abstract

Sturgeon is one of the ancient fish species with the fossil records over 200 million years ago. However, the sturgeon genomes are rather complicated, owing to several rounds of genome polyploidizations, which makes it difficult to assemble a high quality genome so that only a few studies analyze their whole genome evolutions (WGDs). This study applied the PacBio sequencing technology to sequence the full-length transcriptomes of blood samples of octoploid Huso dauricus, octoploid Acipenser schrenckii and tetraploid Acipenser stellatus. A total of non-redundant 33,407 transcript assemblies of the three sturgeons were finally generated and fully annotated with different gene function databases, as well as the predictions of simple sequence repeats, transcription factors and long non-coding RNAs. Data valuation exhibited that annotations of the three transcriptomes had the higher quality than those of the previously sequenced sturgeon genomes. A phylogeny of eight typical sturgeons was constructed using the low copy genes, which illustrated that Acipenser and Huso might share a single origin. The sturgeon WGDs were parallelly timed by calculating the divergence times of 2-member gene clusters and heterozygous-SNP-carried genes, which both suggested the occurrence of the WGDs later than 150 mya. The full-length transcriptome sequences were supposed to be the reliable reference data for the study of sturgeon.