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Growth trait gene analysis of kuruma shrimp (Marsupenaeus japonicus) by transcriptome study
Zhao, Jichen1; He, Zihao1; Chen, Xieyan1; Huang, Yiyi1; Xie, Jingjing1; Qin, Xuan1; Ni, Zuotao2; Sun, Chengbo1,3,4
2021-12-01
Source PublicationCOMPARATIVE BIOCHEMISTRY AND PHYSIOLOGY D-GENOMICS & PROTEOMICS
ISSN1744-117X
Volume40Pages:10
Corresponding AuthorNi, Zuotao(nizuotao07@qdio.ac.cn) ; Sun, Chengbo(suncb@gdou.edu.cn)
AbstractGrowth 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.
KeywordMarsupenaeus japonicus Growth traits SMRT sequencing 14-3-3-like
DOI10.1016/j.cbd.2021.100874
Indexed BySCI
Language英语
Funding ProjectR&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 Research AreaBiochemistry & Molecular Biology ; Genetics & Heredity
WOS SubjectBiochemistry & Molecular Biology ; Genetics & Heredity
WOS IDWOS:000706846100001
PublisherELSEVIER SCIENCE INC
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Cited Times:1[WOS]   [WOS Record]     [Related Records in WOS]
Document Type期刊论文
Identifierhttp://ir.qdio.ac.cn/handle/337002/176691
Collection中国科学院海洋研究所
Corresponding AuthorNi, Zuotao; Sun, Chengbo
Affiliation1.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
Corresponding Author AffilicationInstitute of Oceanology, Chinese Academy of Sciences
Recommended Citation
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.
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