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    克氏原螯虾类胰岛素受体基因家族的鉴定、特征分析及生长相关SNP研究

    IDENTIFICATION, CHARACTERIZATION AND GROWTH-RELATED SNP ANALYSIS OF THE INSULIN-LIKE RECEPTOR GENE FAMILY IN THE RED SWAMP CRAYFISH PROCAMBARUS CLARKII

    • 摘要: 为解析克氏原螯虾(Procambarus clarkii)类胰岛素受体基因家族(PcInsr)的组成特征及其与生长性状的关联, 本研究基于参考基因组和基因注释信息, 对PcInsr家族成员进行了系统鉴定, 并进一步分析其结构特征、系统发育关系、组织表达模式及生长相关SNP。结果显示, 共鉴定到6个PcInsr家族成员(PcInsr1PcInsr6), 分布于5条染色体上。结构分析表明, PcInsr家族成员总体具有较一致的受体蛋白特征, 但PcINSR4未检测到典型的胞内激酶相关结构域, 与其余成员存在明显差异。系统发育分析显示, 除PcINSR4外, 其余5个PcINSR成员分别归属于RTK1、RTK2、RTK3和RTK4分支, 其中PcINSR1归属于RTK1分支, PcINSR3归属于RTK2分支, PcINSR2归属于RTK3分支, PcINSR5和PcINSR6归属于RTK4分支。组织表达分析显示, PcInsr家族成员在11种组织中均有表达, 但其表达量具有明显的组织差异性, 其中PcInsr1PcInsr6在表皮中高表达, PcInsr2PcInsr3在生殖组织中相对高表达, PcInsr5在卵巢中表达最强, PcInsr4则在肌肉和触角腺中的表达水平较高。进一步从PcInsr1基因不同区域筛选获得7个多态性较高的候选SNP位点, 并与体质量性状进行关联分析, 结果显示4个位点与体重显著相关(P<0.05)。其中, 启动子区g.-9907 G>A位点位于NCOR1、AP1和FOXO3的重叠结合区域, 双荧光素酶报告实验表明, G型启动子构建体的相对荧光素酶活性显著高于A型(P<0.01)。综上, 克氏原螯虾PcInsr家族成员在结构组成、系统发育关系及组织表达模式上表现出明显差异, 其中PcInsr1启动子区候选位点g.-9907 G>A可显著影响启动子活性, 提示其可能是参与生长调控的重要候选功能变异位点。

       

      Abstract: The insulin/insulin-like signaling (IIS) pathway is a central regulator of growth, metabolism, and developmental transitions in animals. However, the composition and functional diversification of insulin receptor genes remain insufficiently characterized in many crustacean aquaculture species. The red swamp crayfish, Procambarus clarkii, is an economically important freshwater species that exhibits substantial individual variation in growth rate, yet the molecular basis underlying this variation is still poorly understood. In this study, we systematically identified the insulin receptor gene family (PcInsr) in P. clarkii, characterized its structural and expression features, and investigated growth-related single nucleotide polymorphisms (SNPs) in PcInsr1 through association and functional analyses. A total of six PcInsr genes (PcInsr1 to PcInsr6) were identified from the chromosome-level reference genome. These genes are unevenly distributed on five chromosomes and differ in transcript length, coding sequence length, amino acid number, theoretical molecular weight, and isoelectric point, indicating considerable structural diversity within the family. Structural analyses further showed that most PcInsr members retained the typical features of receptor proteins, whereas PcINSR4 lacked a typical intracellular kinase-related domain and differed markedly from the other members in domain composition. Subcellular localization prediction suggested that PcInsr family members were mainly associated with the plasma membrane, while PcINSR6 was additionally predicted to localize in the cytoplasm. Phylogenetic analysis showed that, except for PcINSR4, the other five PcINSR proteins could be assigned to the RTK1, RTK2, RTK3, and RTK4 clades, with PcINSR1 belonging to RTK1, PcINSR3 to RTK2, PcINSR2 to RTK3, and PcINSR5 and PcINSR6 to RTK4, indicating substantial evolutionary differentiation within the PcInsr family. Quantitative Real-time PCR analysis revealed clear tissue-biased expression patterns across 11 tissues: PcInsr1 and PcInsr6 were highly expressed in the epidermis, PcInsr2 and PcInsr3 were relatively highly expressed in reproductive tissues, PcInsr5 showed its highest expression in the ovary, and PcInsr4 was relatively highly expressed in muscle and the antennal gland. These distinct expression profiles suggest that different PcInsr paralogues may have undergone functional differentiation and may participate in diverse physiological processes related to growth, molting, reproduction, and tissue-specific regulation. To investigate the relationship between PcInsr variation and growth traits, SNPs within PcInsr1 were screened by integrating previous RAD-seq and bulked-segregant resequencing data with phenotypic measurements. Seven highly polymorphic candidate SNPs located in the promoter, 5′ untranslated region, and intronic regions were selected for association analysis in a growth-divergent crayfish population. Four loci were significantly associated with body weight (P<0.05), indicating that non-coding variation in PcInsr1 may contribute to growth regulation. Among these loci, the promoter variant g.-9907 G>A was selected for further functional validation. Dual-luciferase reporter assays showed that the PcInsr1 promoter fragment carrying the G allele drove significantly higher transcriptional activity than the construct carrying the A allele. In silico analysis further suggested that this substitution may alter the binding of transcription factors such as FOXO3, providing a plausible mechanism by which promoter variation in PcInsr1 could influence growth-related regulation. In summary, this study provides a systematic characterization of the PcInsr gene family in P. clarkii at the levels of structure, phylogeny, and tissue expression, and identifies a candidate functional promoter SNP associated with growth traits. These findings improve our understanding of insulin receptor diversification in crayfish and offer candidate loci for future studies on growth regulation and marker-assisted breeding in red swamp crayfish.

       

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