文蛤HDAC1基因克隆、时空表达及生长相关SNP位点筛查
CLONING,SPATIOTEMPORAL EXPRESSION AND SNPS IDENTIFICATION OF HDAC1 GENE IN HARD CLAM MERETRIX MERETRIX
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摘要: 为探索HDAC1基因在文蛤生长发育中的作用, 研究通过已构建的文蛤转录组文库, 利用SMARTRACE技术扩增得到文蛤HDAC1 (Mm-HDAC1)基因的cDNA全长序列, 分析了其生物信息学、组织及发育阶段表达特征, 并用直接测序法在外显子中筛查生长相关的SNP位点。结果显示, Mm-HDAC1基因的cDNA全长3065 bp, 开放阅读框1599 bp, 编码532个氨基酸; 氨基酸序列比对发现, 文蛤与其他物种同源性为74.3%78.7%。荧光定量PCR (qRT-PCR)结果表明, Mm-HDAC1基因在文蛤6个组织中均有表达, 其中外套膜中的表达量相对最高, 并与其他组织间有极显著差异(P0.01); 不同发育时期的表达差异结果表明, Mm-HDAC1基因在壳顶幼虫期表达量最高, 显著高于其他发育时期(P0.05)。SNP位点筛查结果表明, 在Mm-HDAC1基因的外显子区域发现了19个SNP位点, 其中有3个SNP位点(627AT、924TC和1266TC)与文蛤生长相关。Abstract: Mm-HDAC1 cDNA was cloned by SMART RACE techniques using 454 cDNA library of Meretrix meretrix. The bioinformatics and expression profiles in different tissues and developmental stages were analyzed, and SNPs were screened. The results indicated that the full length cDNA of Mm-HDAC1 gene was 3065 bp, containing a complete 1599 bp ORF that encodes 532 amino acids. Comparison of animal acid sequence, M. meretrix shared 74.3%78.5% identity with others, suggesting that Mm-HDAC1 was highly conservative. The result of qRT-PCR showed that Mm-HDAC1 expressed in all six tissues, and its expression was significantly higher in mantle than other tissues (P0.01). Moreover, the expression of Mm-HDAC1 gradually increased with the process of the development with the highest level in umbo larvae stage (P0.01). 19 SNPs in exons of Mm-HDAC1 were identified and 3 SNPs were potentially associated with M. meretrix growth (627AT, 924TC and 1266TC).
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Keywords:
- Meretrix meretrix /
- Histone deacetylase1 (HDAC1) /
- cDNA /
- qRT-PCR /
- SNP
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[1] Wang Z W. Function of HDAC1gene during the development of bovine oocytes and cloned embryos [D]. Thesis for Doctor of Science, Jilin University, Changchun. 2011 [王中伟. HDAC1基因在牛卵母细胞和早期克隆胚胎发育中的作用. 博士学位论文, 吉林大学, 长春. 2011]
[2] Taunton J, Hassig C A, Schreiber S L. A mammalian histone deacetylase related to the yeast transcriptional regulator Rpd3p [J]. Science, 1996, 272(8): 408411
[3] Hassiga C A, Fleischer T C, Billin AN, et al. Histone deacety-lase activity is required for full transcriptional repression by mSin3A [J]. Cell, 1997, 89(3): 341
[4] Sun J M, Chen H Y, Moniwa M, et al. Purification and characterization of chicken erythrocyte histone deacetylase 1[J]. Biochemistry, 1999, 38(18): 59395947
[5] Liu F. Study of on effects of HDAC1 gene and PIT-1 gene on partial economic traits in pigs [D]. Thesis for Master of Science, Hunan Agricultural University, Changsha. 2005 [刘峰. HDAC1基因、PIT-1基因与猪部分经济性状相关性研究. 硕士学位论文, 湖南农业大学, 长沙. 2005]
[6] Liu X C, Xiao T Y, He W G, et al. Genetic effect of three loci related with growth and carcass traits in swine [J]. Scientia Agricultura Sinica, 2009, 42(2): 742747 [柳小春, 肖调义, 何伟光, 等. 猪生长及胴体性状3个相关基因座遗传效应. 中国农业科学, 2009, 42(2): 742747]
[7] Liu F, Ge R L. Cloning and sequencing of HDAC1 coding cDNA sequence from Tibetan antelope (Pantholops hodgsonii) [J]. Acta Theriologica Sinica, 2011, 31(4): 396403 [刘芳, 格日力. 藏羚羊组蛋白去乙酰化酶1基因编码区的克隆与序列分析. 兽类学报, 2011, 31(4): 396403]
[8] Pillai R, Coverdale L E, Dubey G, et al. Histone deacetylase 1 (HDAC-1) required for the normal formation of craniofacial cartilage and pectoral fins of the zebrafish [J]. Developmental Dynamics, 2004, 231(3): 647654
[9] Li H, Xu Y P, Bao Y P. Different expression pattern of HDAC1 before and during the process of metamorphosis in Paralichthys olivaceus [J]. Journal of Shanghai Ocean University, 2014, 23(5): 641649 [李慧, 徐义平, 鲍宝龙. 牙鲆胚后发育阶段HDAC1基因的空间表达. 上海海洋大学学报, 2014, 23(5): 641649]
[10] Zhou X L. Development and application of SSR and cloning of growth-related gene HDAC1 in Tegillarca granosa [D]. Thesis for Master of Science, Shanghai Ocean University, Shanghai. 2013 [周小龙. 泥蚶微卫星分子标记的开发与应用及生长相关基因HDAC1的克隆. 硕士学位论文, 上海海洋大学, 上海. 2013]
[11] Sui L J, Liu W D, Li Y F, et al. Molecular cloning, mRNA expression and bioassay of recombinant protein of C1q gene in hard clam (Meretrix meretrix) [J]. Fisheries Science, 2012, 31(6): 311319
[12] Li H J, Yang Q, Gao X G, et al. Identification and expression of a putative LPS-induced TNF-a factor from Asiatic hard clam Meretrix meretrix [J]. Molecular Biology Reports, 2012, 39(2): 865871
[13] Zhu D. Molecular cloning and mRNA expression and recombinant protein of an Cu/Zn-superoxide dismutase (Cu/Zn-SOD) gene from hard clam (Meretrix meretrix) [D]. Thesis for Master of Science, Liaoning Normal University, Dalian. 2011 [朱丹. 文蛤胞内铜锌超氧化物歧化酶的基因克隆与表达及重组蛋白活性的测定. 硕士学位论文, 辽宁师范大学, 大连. 2011]
[14] Gao X G, He C B, Li Y F, et al. Analysis on cloning and sequence Characteristics of metallothionein gene in hard clam Meretrix meretrix [J]. Chinese Journal Fisheries, 2009, 22(4): 811 [高祥刚, 赫崇波, 李云峰, 等. 文蛤金属硫蛋白基因的克隆与分析. 水产学杂志, 2009, 22(4): 811]
[15] Liu S X, Qi Z H, Zhang J J, et al. Lipopolysaccharide and -1, 3-glucan binding protein in the hard clam (Meretrix meretrix): molecular characterization and expression analysis [J]. Genetics and Molecular Research, 2014, 13(3): 49564966
[16] Chen H, Yang X, Tang T, et al. The involvement of cysteine-rich intestinal protein in early development and innate immunity of Asiatic hard clam, Meretrix meretrix [J]. Fish and Shellfish Immunology, 2014, 40(2): 435440
[17] Wang X M. Molecular cloning and functional analysis of genes involved in larval development in clam Meretrix meretrix [D]. Chinese Academy of Sciences, Institute of Oceanology, Qingdao. 2008 [王晓梅. 文蛤(Meretrix meretrix)幼虫生长发育相关基因的克隆和功能分析. 博士学位论文, 中国科学院海洋研究所, 青岛. 2008]
[18] Yao X L, Zhang J Q, Sun J S, et al. Recombinant expression, characterization and expressional analysis of clam Meretrix meretrix cathepsin B, an enzyme involved in nutrient digestion [J]. Molecular Biology Reports, 2011, 38(3): 18611868
[19] Wang C, You Y N, Wang H X, et al. Genetic diversity of the sulfotransferase-like gene and one nonsynonymous SNP associated with growth traits of clam, Meretrix meretrix [J]. Molecular Biology Reports, 2012, 39(2): 13231331
[20] Wang C, Wang H X, Li Y, et al. Identification of a fructose-1, 6-bisphosphate aldolase gene and association of the single nucleotide polymorphisms with growth traits in the clam Meretrix meretrix [J]. Molecular Biology Reports, 2012, 39(4): 50175024
[21] Cheng L, Wang K L. Studies on the morphology and ultrastructure of Meretrix meretrix Linnaeus [J]. Zoological Research, 1997, 18(4): 351357 [程量, 王康乐. 文蛤形态学及其亚显微结构的研究. 动物学研究, 1997, 18(4): 351357]
[22] Tou L, Liu Q, Shivdasani R A. Regulation of mammalian epithelial differentiation and intestine development by class I histone deacetylases [J]. Molecular and Cellular Biology, 2004, 24(8): 31323139
[23] Puri P L, Iezzi S, Stiegler P, et al. Class I histone deacetylases sequentially interact with MyoD and pRb during skeletal myogenesis [J]. Molecular Cell, 2001, 8(4): 885897
[24] Mal A, Harter M L. MyoD is functionally linked to the silencing of a muscle-specific regulatory gene prior to skeletal myogenesis [J]. Proceedings of the National Academy of Sciences of the USA, 2003, 100(4): 17351739
[25] Lagger G, O'Carroll D, Rembold M, et al. Essential function of histone deacetylase 1 in proliferation control and CDK inhibitor repression [J]. The EMBO Journal, 2002, 21(11): 26722681
[26] Montgomery R L, Davis C A, Potthoff M J, et al. Histone deacetylases 1 and 2 redundantly regulate cardiac morphogenesis, growth, and contractility [J]. Genes and Development, 2007, 21(14): 17901802.
[27] Dufourcq P, Victor M, Gay F, et al. Function requirement for histone deacetylase 1 in Caenorhabditis elegans gonadogenesis [J]. Molecular Cellular Biology, 2002, 22(9): 30243034
[28] Mannerrvik M, Levine M. The Rpd3 histone deacetylase is required for segmentation of the Drosophila embryo [J]. Proceedings of the National Academy of Sciences of the USA, 1999, 96(12): 67976801
[29] Nambiar R M, Henion P D. Sequential antagonism of early and late Wnt-signaling by zebrafish colgate promotes dorsal and anterior fates [J]. Developmental Biology, 2004, 267(1): 165180
[30] Damjanovski S, Sachs L M, Shi Y B. Multiple stage-dependent roles for histone deacetylases during amphibian embryogenesis: implications for the Involvement of extracellular matrix remodeling [J]. International Journal of Developmental Biology, 2000, 44(7): 769776
[31] Wang R C, Wang Z P. Science of Marine Shellfish Culture [M]. Qingdao: China Ocean University Press. 2008, 2829 [王如才, 王昭萍. 海水贝类养殖学. 青岛: 中国海洋大学出版社. 2008, 2829]
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