Analysis of DNA methylation in different tissues of <i>Fenneropenaeus chinensis</i> from the wild population and Huanghai No. 1

HE Yuying; DU Ying; LI Jian; LIU Ping; WANG Qingyin; LI Zhaoxia

doi:10.1007/s13131-015-0765-x

中国对虾选育群体“黄海1号”和野生群体不同组织基因组DNA甲基化的MSAP分析

doi: 10.1007/s13131-015-0765-x

1.
农业部海洋渔业可持续发展重点实验室中国水产科学研究院黄海水产研究所, 青岛 266071;中国海洋大学海洋生命学院, 青岛 266003
2.
青岛农业大学海洋科学与工程学院, 青岛 266109
3.
农业部海洋渔业可持续发展重点实验室中国水产科学研究院黄海水产研究所, 青岛 266071
4.
College of Marine Science and Engineering, Qingdao Agricultural University, Qingdao 266109, China

基金项目: The National Natural Science Foundation of China under contract No. 31172401; the Independent Innovation Industry in Shandong Province Special of China under contract No. 2013CXC80202; China Agriculture Research System under contract No. CARS-47.

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- 收稿日期: 2014-08-01
- 修回日期: 2014-12-15

Analysis of DNA methylation in different tissues of Fenneropenaeus chinensis from the wild population and Huanghai No. 1

1.
Key Laboratory for Sustainable Utilization for Marine Fisheries, Yellow Sea Fisheries Research Institute, Chinese Academy of Fishery Sciences, Qingdao 266071, China;Function Laboratory for Marine Fisheries Science and Food Production Processes, Qingdao National Laboratory for Marine Science and Technology, Qingdao 266235, China
2.
College of Marine Life Sciences, Ocean University of China, Qingdao 266003, China
3.
Key Laboratory for Sustainable Utilization for Marine Fisheries, Yellow Sea Fisheries Research Institute, Chinese Academy of Fishery Sciences, Qingdao 266071, China
4.
College of Marine Science and Engineering, Qingdao Agricultural University, Qingdao 266109, China

摘要

摘要: DNA甲基化在调节动物生长发育和组织分化中发挥了重要作用。本研究主要从酶切、预扩和选扩等方面优化了中国对虾DNA甲基化分析的MSAP技术,给出了适合中国对虾MSAP分析的最近反应程序和体系,并采用该技术分别对中国对虾选育群体"黄海1号"和野生群体的肌肉、鳃和血细胞三种组织基因组DNA的CCGG甲基化水平进行分析。研究结果表明,中国对虾野生群体肌肉、鳃和血细胞的DNA甲基化比例分别为23.1%、22.3%和19.7%,选育群体"黄海1号"肌肉、鳃和血液的甲基化比例分别为21.4%、19.6%和18.9%。鳃组织的DNA甲基化水平在两群体中差异极显著(P <0.01),肌肉间的甲基化水平差异显著(P <0.05),而血细胞中甲基化水平差异不显著(P >0.05)。中国对虾野生群体和"黄海1号"同一组织间的甲基化水平不同(P ≤ 0.05),而不同组织间的甲基化水平也各不相同(P ≤ 0.05)。DNA甲基化多态性分析表明,野生群体和选育群体"黄海1号"的鳃和血细胞组织的甲基化多态性比例变化明显,而肌肉组织甲基化水平较稳定,这些变化趋势与CCGG位点的甲基化和去甲基化有关。
- MSAP /
- DNA甲基化 /
- 中国对虾
Abstract: DNA methylation plays an important role in the regulation of gene expression during biological development and tissue differentiation in eukaryotes. A methylation sensitive amplification polymorphism (MSAP) including digestion, pre-selective amplification and selective amplification was optimized to compare the levels of DNA cytosine methylation at CCGG sites in muscle, gill and hemocyte from the wild populations and the selective breeding of Huanghai No. 1 of Fenneropenaeus chinensis, respectively. Significant differences in cytosine methylation levels among three tissues in two populations were detected. The average DNA methylation ratios in muscle, gill and hemocyte of the wild population were 23.1%, 22.3% and 19.7%, while those were 21.4%, 19.6%, and 18.9% in Huanghai No. 1, respectively. The DNA methylation levels of gill from the two populations were highly significant (P <0.01), the difference of muscle was significant (P <0.05), while in hemocyte, there were no significant differences (P >0.05). DNA polymorphic methylation of gill and hemocyte between the wild population and Huanghai No. 1 varies to some extent, while those of muscle kept in a balanced degree. Furthermore, polymorphic methylation was associated with demethylation and methylation of CCGG loci.
- methylation sensitive amplification polymorphism /
- DNA methylation /
- Fenneropenaeus chinensis

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参考文献(34)

Baránek M, Křižan B, Ondrušíková E, et al. 2010. DNA-methylation changes in grapevine somaclones following in vitro culture and thermotherapy. Plant Cell, Tissue and Organ Culture, 101(1):11-22

Baurens F C, Bonnot F, Bienvenu D, et al. 2003. Using SD-AFLP and MSAP to assess CCGG methylation in the Banana genome.Plant Molecular Biology Reporter, 21(4):339-348

Cai Zhaowei, Zhao Xiaofeng, Li Jianhua, et al. 2008. The applied and breeding of DNA methylation in animal genetics. Shanghai Journal of Animal Husbandry and Veterinary Medicine (in Chinese), (1):56-57

Cao Zheming, Ding Weidong, Yu Juhua, et al. 2007. Differences in methylated loci among different grass carp individuals from one pair of parents. Acta Zoologica Sinica (in Chinese), 53(6):1083-1088

Cao Zheming, Yang Jian. 2009. Analysis of the methylation in genome DNA from different tissues of Anodonta woodiana. Ecology and Environmental Sciences, 18(6):2011-2016

Cao Zheming, Yang Jian. 2010. Effect of cadmium at different concentrations on genomic DNA of common carps. Chinese Journal of Applied Environmental Biology, 16(4):457-461

Chen Xiaoqiang, Ma Yi, Chen Fang, et al. 2009. Analysis of DNA methylation patterns of PLBs derived from Cymbidium hybridium based on MSAP. Plant Cell, Tissue and Organ Culture, 98(1):67-77

Fang J G, Song C N, Qian J L, et al. 2010. Variation of cytosine methylation in 57 sweet orange cultivars. Acta Physiologiae Plantarum, 32(6):1023-1030

Finnegan, E J, Brettell R I S, Dennis E S. 1993. The role of DNA methylation in the regulation of plant gene expression. In:Jost J P, Saluz H P, eds. DNA Methylation, Molecular Biology and Biological Significance. Basel:Birkhäuser Basel, 218-261

Fulneček J, Matyášek R, Kovařík A, et al. 1998. Mapping of 5-methylcytosine residues in Nicotiana tabacum 5S rRNA genes by genomic sequencing. Molecular and General Genetics, 259(2):153-141

Giovanna M, Emanuela N, Sergio L, et al. 2008. Potentiality of methylation-sensitive amplification polymorphism (MSAP) in identifying genes involved in tomato response to tomato yellow leaf curl sardinia virus. Plant Molecular Biology Reporter, 26(3):156-173

Hanai L R, Floh E I S, Fungaro M H P, et al. 2010. Methylation patterns revealed by MSAP profiling in genetically stable somatic embryogenic cultures of Ocotea catharinensis (Lauraceae). In Vitro Cellular & Developmental Biology-Plant, 46(4):368-377

Hao Yujin, Deng Xiuxin. 2002. Stress treatments and DNA methylation affected the Somatic embryogenesis of Citrus callus. Acta Botanica Sinica, 44(6):673-677

He Yuying, Liu Ping, Li Jian, et al. 2004. Analysis of genetic structure in the first cultured stock and the sixth cultured stock of Fenneropenaeus chinensis. Journal of Fishery Sciences of China, 11(6):572-575

Jaligot E, Rival A, Beule T, et al. 2000. Somaclonal variation in oil palm (Elaeis guineensis Jacq.):the DNA methylation hypothesis.Plant Cell Reports, 19(7):684-690

Li Jian, Liu Ping, He Yuying, et al. 2005. Artificial selection in the new breed of Fenneropenaeus chinensis named "Yellow Sea 1" based on fast growth trait. Journal of Fisheries of China, 29(1):1-5

Li Weiguo, Chen Wenbo. 2010. Establishment of the optimized MSAP analysis system for Alternanthera philoxeroides. Biotechnology(in Chinese), 20(4):32-34

Li Zhaoxia, Li Jian, Wang Qingyin, et al. 2006. The effects of selective breeding on the genetic structure of shrimp Fenneropenaeus chinensis populations. Aquaculture, 258(1-4):278-282

Liu Bo, Wang Qingyin, Li Jian, et al. 2010. A genetic linkage map of marine shrimp Penaeus (Fenneropenaeus) chinensis based on AFLP, SSR, and RAPD markers. Chinese Journal of Oceanology and Limnology, 28(4):815-825

Lu Yanli, Rong Tingzhao, Cao Moju. 2008. Analysis of DNA methylation in different maize tissues. Journal of Genetics and Genomics, 35(1):41-48

McClelland M, Nelson M, Raschke E. 1994. Effect of site-specific modification on restriction endonucleases and DNA modification methyltransferases. Nucleic Acids Research, 22(17):3640-3659

Park S Y, Murthy H N, Chakrabarthy D, et al. 2009. Detection of epigenetic variation in tissue-culture-derived plants of Doritaenopsis by methylation-sensitive amplification polymorphism(MSAP) analysis. In Vitro Cellular & Developmental Biology-Plant, 45(1):104-108

Sakthivel K, Girishkumar K, Ramkumar G, et al. 2010. Alterations in inheritance pattern and level of cytosine DNA methylation, and their relationship with heterosis in rice. Euphytica, 175(3):303-314

Sasaki T, Fujimoto R, Kishitani S, et al. 2011. Analysis of target sequences of DDM1s in Brassica rapa by MSAP. Plant Cell Reports, 30(1):81-88

Sha A H, Lin X H, Huang J B, et al. 2005. Analysis of DNA methylation related to rice adult plant resistance to bacterial blight based on methylation sensitive AFLP (MSAP) analysis. Molecular Genetics and Genomics, 273(6):484-490

Strauss W M. 2001. Preparation of genomic DNA from mammalian tissues. In:Current Protocol in Molecular Biology. New York:John Wiley & Sons, 221-222

Su Yu, Wang Xi, Zhu Weiguo. 2009. DNA methyltransferases:the role in regulation of gene expression and biological processes.Hereditas (in Chinese), 31(11):1087-1093

Tang Shaoqing, Zhang Yuan, Xu Qing, et al. 2006. Analysis of methylation level of genome in various tissues of different animal species.Jourmal of Agricultural Biotechnology (in Chinese), 14(4):507-510

Vos P, Hogers R, Bleeker M, et al. 1995. AFLP:a new technique for DNA fingerprinting. Nucl Acids Res, 23(21):4407-4414

Vroh-Bi I, Anagbogu C, Nnadi S, et al. 2011. Genomic characterization of natural and somaclonal variations in bananas (Musa spp.). Plant Molecular Biology Reporter, 29(2):440-448

Wassenegger M. 2000. RNA-directed DNA methylation. Plant Molecular Biology, 43(2):203-220

Wu Chuntai, Li Weiguo, Huang Huangsun. 2011. Establishment of MSAP analysis system for rubber tree and its preliminary application in juvenile-type clone. Guangdong Agricultural Sciences(in Chinese), 38(9):141-144

Xiong L Z, Xu C G, Maroof M A S. 1999. Patterns of cytosine methylation in an elite rice hybrid and its parental lines, detected by a methylation-sensitive amplification polymorphism technique.Molecular and General Genetics MGG, 261(3):439-446

Zhang Tianshi, Wang Qingyin, Liu Ping, et al. 2005. Genetic diversity analysis on selected populations of shrimp Fenneropenaeus chinensis by microsatellites. Oceanologia et Limnologia Sinica(in Chinese), 36(1):72-80

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中国对虾选育群体“黄海1号”和野生群体不同组织基因组DNA甲基化的MSAP分析

doi: 10.1007/s13131-015-0765-x

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Analysis of DNA methylation in different tissues of Fenneropenaeus chinensis from the wild population and Huanghai No. 1

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