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A chromosome-level genome of the mud crab (Scylla paramamosain estampador) provides insights into the evolution of chemical and light perception in this crustacean

文献类型： 外文期刊

作者： Zhao, Ming 1 ; Wang, Wei 1 ; Zhang, Fengying 1 ; Ma, Chunyan 1 ; Liu, Zhiqiang 1 ; Yang, Meidi-Huang 3 ; Chen, Wei 1 ; Li 1 ;

作者机构： 1.Chinese Acad Fishery Sci, East China Sea Fisheries Res Inst, Minist Agr & Rural Affairs, Key Lab East China Sea Fishery Resources Exploit, Shanghai 200090, Peoples R China

2.Shanghai Ocean Univ, Coll Fisheries & Life Sci, Shanghai, Peoples R China

3.Chinese Acad Fishery Sci, Beijing Key Lab Fishery Biotechnol, Minist Agr & Rural Affairs, Key Lab Aquat Genom, Beijing 100141, Peoples R China

关键词： chemoreceptor; Decapoda; evolution; genome assembly; Scylla paramamosain

期刊名称：MOLECULAR ECOLOGY RESOURCES （ 影响因子：7.09； 五年影响因子：8.745 ）

ISSN： 1755-098X

年卷期： 2021 年 21 卷 4 期

页码：

收录情况： SCI

摘要： Mud crabs, found throughout the Indo-Pacific region, are coastal species that are important fisheries resources in many tropical and subtropical Asian countries. Here, we present a chromosome-level genome assembly of a mud crab (Scylla paramamosain). The genome is 1.55 Gb (contig N50 191 kb) in length and encodes 17,821 proteins. The heterozygosity of the assembled genome was estimated to be 0.47%. Effective population size analysis suggested that an initial large population size of this species was maintained until 200 thousand years ago. The contraction of cuticle protein and opsin genes compared with Litopenaeus vannamei is assumed to be correlated with shell hardness and light perception ability, respectively. Furthermore, the analysis of three chemoreceptor gene families, the odorant receptor (OR), gustatory receptor (GR) and ionotropic receptor (IR) families, suggested that the mud crab has no OR genes and shows a contraction of GR genes and expansion of IR genes. The numbers of the three gene families were similar to those in three other decapods but different from those in two nondecapods and insects. In addition, IRs were more diversified in decapods than in nondecapod crustaceans, and most of the expanded IRs in the mud crab genome were clustered with the antennal IR clades. These findings suggested that IRs might exhibit more diverse functions in decapods than in nondecapods, which may compensate for the smaller number of GR genes. Decoding the S. paramamosain genome not only provides insight into the genetic changes underpinning ecological traits but also provides valuable information for improving the breeding and aquaculture of this species.

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