Chromosome-Level Genome Assembly and Genomic Analysis of the Hybrid Grouper ShanHu (Epinephelus fuscoguttatus ♀ × Epinephelus polyphekadion ♂)
Yiqun Liu, Yunxiang Mao
TL;DR
This study provides the first chromosome-level genome assembly of the hybrid ShanHu grouper, revealing genetic variations and expanded gene families related to immunity and growth.
Contribution
The first complete genomic information for a hybrid grouper, including structural variations and expanded gene families.
Findings
The ShanHu grouper genome assembly has a total length of 1.17 Gb with a scaffold N50 of 46.12 Mb.
Centric inversion structural variations were identified in the hybrid's chromosomes compared to its parents.
Gene families related to immunity and growth development have expanded in the hybrid species.
Abstract
Groupers are important aquaculture species, and hybridization is an effective breeding method for genetic improvement and to enhance production efficiency in groupers. The ShanHu grouper (Epinephelus fuscoguttatus ♀ × Epinephelus polyphekadion ♂) is a hybrid grouper with potential for aquaculture development and research value. Using Illumina and PacBio sequencing platforms, as well as PacBio SMRT technology and Hi-C auxiliary mounting technology, the whole genome sequencing and assembly of the ShanHu grouper were completed, resulting in a chromosome-level genome information for this hybrid grouper. The genome assembly has a total length of 1.17 Gb with a scaffold N50 of 46.12 Mb, and 171 contigs were anchored into 24 chromosomes. Additionally, its repeat sequences and non-coding RNAs were annotated and 26,102 genes were predicted. Through comparative genomic analysis of the hybrid…
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Taxonomy
TopicsAquaculture disease management and microbiota · Genomics and Phylogenetic Studies · Aquaculture Nutrition and Growth