Growth trait gene analysis of kuruma shrimp (Marsupenaeus japonicus) by transcriptome study

doi:10.1016/j.cbd.2021.100874

IOCAS-IR

	Growth trait gene analysis of kuruma shrimp (Marsupenaeus japonicus) by transcriptome study
	Zhao, Jichen 1; He, Zihao 1; Chen, Xieyan 1; Huang, Yiyi 1; Xie, Jingjing 1; Qin, Xuan 1; Ni, Zuotao 2; Sun, Chengbo 1,3,4
	2021-12-01
发表期刊	COMPARATIVE BIOCHEMISTRY AND PHYSIOLOGY D-GENOMICS & PROTEOMICS
ISSN	1744-117X
卷号	40 页码:10
通讯作者	Ni, Zuotao([email protected]) ; Sun, Chengbo([email protected])
摘要	Growth traits are a vital standard for the animal culture industry. The molecular mechanism of growth traits remains poorly understood, especially in aquaculture, which hinders the development of the selective breeding industry. Genomic resources discovered by next-generation sequencing (NGS) have been widely applied in certain species. However, accurate assembly and downstream analysis by NGS are still major challenges for species without reference genomes. In this study, a comparative transcriptome analysis of an economic crustacean species (Marsupenaeus japonicus) between a fast growth group and slow growth group at different stages was performed by SMRT (single molecule real time) and NGS. A high-quality full-length transcriptome (e.g., mean length of unigenes was longer than those unigenes assembled by Illumina clean reads from previous reports, and annotation rate was higher than Illumina sequencing in the same studies) was generated and analyzed. Several differentially expressed genes (DEGs) related to growth were identified and validated by quantitative real-time PCR (qPCR). The results showed that compared with the late stage, more DEGs were identified at the early stage, indicating that the growth-related physiological activity differences between different individuals at the early stage were higher than at the late stage. Moreover, 215 DEGs were shared between the early stage and late stage, and 109 had divergent functions during development. These 109 genes may play an important role in regulating the specific growth rate (SGR) of kuruma shrimp. In addition, twelve growth-related pathways were shared between the two comparative groups. Among these pathways, the fly Hippo signaling pathway and its key gene Mj14-3-3-like were identified for the first time to be involved in growth traits in crustaceans. Further analysis showed that Mj14-3-3-like was significantly downregulated in the fast growth group at the early stage and late stage; its expression level was reduced to its lowest level at the intermolt stage (C), the most important growth stage in shrimp, suggesting that Mj14-3-3-like may inhibit the growth of kuruma shrimp. Our study helps to elucidate the genes involved in the molecular mechanisms governing growth traits in kuruma shrimp, which is valuable for future shrimp developmental research.
关键词	Marsupenaeus japonicus Growth traits SMRT sequencing 14-3-3-like
DOI	10.1016/j.cbd.2021.100874
收录类别	SCI
语种	英语
资助项目	R&D Program of Key Areas in Guangdong Province[2020B0202010009]; Fangchenggang Science and Technology Plan Project[AD19008017]; 2019 Annual Guangdong Provincial Special Financial Fund[2319412525]; 2019 Annual Guangdong Provincial Special Financial Fund[231619003]
WOS研究方向	Biochemistry & Molecular Biology ; Genetics & Heredity
WOS类目	Biochemistry & Molecular Biology ; Genetics & Heredity
WOS记录号	WOS:000706846100001
出版者	ELSEVIER SCIENCE INC
引用统计	被引频次：12[WOS] [WOS记录] [WOS相关记录]
文献类型	期刊论文
条目标识符	http://ir.qdio.ac.cn/handle/337002/176691
专题	中国科学院海洋研究所
通讯作者	Ni, Zuotao; Sun, Chengbo
作者单位	1.Guangdong Ocean Univ, Coll Fisheries, Zhanjiang, Peoples R China 2.Chinese Acad Sci, Inst Oceanol, Qingdao, Peoples R China 3.Guangdong Prov Lab Southern Marine Sci & Engn, Zhanjiang, Peoples R China 4.Guangdong Prov Key Lab Pathogen Biol & Epidemiol, Zhanjiang, Peoples R China
通讯作者单位	中国科学院海洋研究所
推荐引用方式 GB/T 7714	Zhao, Jichen,He, Zihao,Chen, Xieyan,et al. Growth trait gene analysis of kuruma shrimp (Marsupenaeus japonicus) by transcriptome study[J]. COMPARATIVE BIOCHEMISTRY AND PHYSIOLOGY D-GENOMICS & PROTEOMICS,2021,40:10.
APA	Zhao, Jichen.,He, Zihao.,Chen, Xieyan.,Huang, Yiyi.,Xie, Jingjing.,...&Sun, Chengbo.(2021).Growth trait gene analysis of kuruma shrimp (Marsupenaeus japonicus) by transcriptome study.COMPARATIVE BIOCHEMISTRY AND PHYSIOLOGY D-GENOMICS & PROTEOMICS,40,10.
MLA	Zhao, Jichen,et al."Growth trait gene analysis of kuruma shrimp (Marsupenaeus japonicus) by transcriptome study".COMPARATIVE BIOCHEMISTRY AND PHYSIOLOGY D-GENOMICS & PROTEOMICS 40(2021):10.

条目包含的文件
文件名称/大小	文献类型	版本类型	开放类型	使用许可
1-s2.0-S1744117X2100（4021KB）	期刊论文	出版稿	限制开放	CC BY-NC-SA	浏览