MeDIP-seq reveals the features of mitochondrial genomic methylation in immature testis of Chinese mitten crab Eriocheir sinensis

References

• Azhikina TL, Sverdlov ED. 2005. Study of tissue-specific CpG methylation of DNA in extended genomic loci. Biochemistry Mosc. 70:596–603.
   PubMed Web of Science ®Google Scholar
• Bellizzi D, D'Aquila P, Scafone T, Giordano M, Riso V, Riccio A, Passarino G. 2013. The control region of mitochondrial DNA shows an unusual CpG and non-CpG methylation pattern. DNA Res. 20:537–547.
   PubMed Web of Science ®Google Scholar
• Cardon LR, Burge C, Clayton DA, Karlin S. 1994. Pervasive CpG suppression in animal mitochondrial genomes. Proc Natl Acad Sci USA. 91:3799–3803.
   PubMed Web of Science ®Google Scholar
• Du NS, Lai W, Xue LZ. 1987. Studies on the sperm of Chinese mitten-handed crab, Eriocheir sinensis (Crustacea, Decapoda).The morphology and ultrastructrure of mature sperm. Oceanol Limnol Sinica. 18:119–125, 216.
   Google Scholar
• Guardiola M, Oliva I, Guillaumet A, Martín-Trujillo Á, Rosales R, Vallvé JC, Sabench F, Del Castillo D, Zaina S, Monk D, et al. 2014. Tissue-specific DNA methylation profiles regulate liver-specific expression of the APOA1/C3/A4/A5 cluster and can be manipulated with demethylating agents on intestinal cells. Atherosclerosis. 237:528–235.
   PubMed Web of Science ®Google Scholar
• Hong EE, Okitsu CY, Smith AD, Hsieh CL. 2013. Regionally specific and genome-wide analyses conclusively demonstrate the absence of CpG methylation in human mitochondrial DNA. Mol Cell Biol. 33:2683–2690.
   PubMed Web of Science ®Google Scholar
• Jimenez-Useche I, Ke J, Tian Y, Shim D, Howell SC, Qiu X, Yuan C. 2013. DNA methylation regulated nucleosome dynamics. Sci Rep. 3:2121.
   PubMed Web of Science ®Google Scholar
• Langecker M, Ivankin A, Carson S, Kinney SR, Simmel FC, Wanunu M. 2015. Nanopores suggest a negligible influence of CpG methylation on nucleosome packaging and stability. Nano Lett. 15:783–790.
   PubMed Web of Science ®Google Scholar
• Lee JY, Lee J, Yue H, Lee TH. 2015. Dynamics of nucleosome assembly and effects of DNA methylation. J Biol Chem. 290:4291–4303.
   PubMed Web of Science ®Google Scholar
• Li G, Kang X, Mu S. 2010. Induction of acrosome reaction of spermatozoa in Eriocheir sinensis by low temperature. Cytotechnology. 62:101–107.
   PubMed Web of Science ®Google Scholar
• Li G, Zheng Y, Mao X, Xu Y, Chen X, Yang S, Jia L. 2015. Sequencing and analysis of the complete mitochondrial genome of Eriocheir sinensis. Mitochondrial DNA. 28:1–2.
   Web of Science ®Google Scholar
• Li G, Xu J, Wang H, Chen X, Xu Y, Zheng Y, Mao X, Yang S. 2014. Identification and analysis of the complete mitochondrial genome sequence of Eriocheir sinensis. Mitochondrial DNA. 9:1–2.
   Google Scholar
• Li G, Kang X, Mu S, Guo M, Huang S, Chen Q, Nong S, Huang X, Hu H, Sun K. 2016a. H3K9ac involved in the decondensation of spermatozoa nuclei during spermatogenesis in Chinese mitten crab Eriocheir sinensis. Cytotechnology. (Epub ahead of print. doi 10.1007/s10616-016-0038-3).
   Web of Science ®Google Scholar
• Li G, Lu S, Xu Y, Huang J, Huang X, Xiao J, Nong S. 2016b. Application of ultrasonic cell disrupter in high-through put sequencing. J Youjiang Med Uni Natl. 38:466–469.
   Google Scholar
• Liao K, Yan J, Mai K, Ai Q. 2016. Dietary lipid concentration affects liver mitochondrial DNA copy number, gene expression and DNA methylation in large yellow croaker (Larimichthys crocea). Comp Biochem Physiol B Biochem Mol Biol. 193:25–32.
   PubMed Web of Science ®Google Scholar
• Liu B, Du Q, Chen L, Fu G, Li S, Fu L, Zhang X, Ma C, Bin C. 2016. CpG methylation patterns of human mitochondrial DNA. Sci Rep. 6:23421.
   PubMed Web of Science ®Google Scholar
• Liu Z, Jiang X, Qi H, Xiong L, Qiu G. 2016. A novel SoxB2 gene is required for maturation of sperm nucleus during spermiogenesis in the Chinese mitten crab, Eriocheir sinensis. Sci Rep. 6:32139.
   PubMed Web of Science ®Google Scholar
• Lu Y, Wang Q, Wang D, Zhou H, Hu Y, Yang W. 2014. Functional analysis of KIF3A and KIF3B during spermiogenesis of Chinese mitten crab Eriocheir sinensis. PLoS One. 9:e97645.
   PubMed Web of Science ®Google Scholar
• Marzi SJ, Meaburn EL, Dempster EL, Lunnon K, Paya-Cano JL, Smith RG, Volta M, Troakes C, Schalkwyk LC, Mill J. 2016. Tissue-specific patterns of allelically-skewed DNA methylation. Epigenetics. 11:24–35.
   PubMed Web of Science ®Google Scholar
• Rebelo AP, Williams SL, Moraes CT. 2009. In vivo methylation of mtDNA reveals the dynamics of protein-mtDNA interactions. Nucleic Acids Res. 37:6701–6715.
   PubMed Web of Science ®Google Scholar
• Strathdee G, Sim A, Brown R. 2004. Control of gene expression by CpG island methylation in normal cells. Biochem Soc Trans. 32:913–915.
   PubMed Web of Science ®Google Scholar
• Wang J, Huang L, Cheng Q, Lu G, Wang C. 2016. Complete mitochondrial genomes of three mitten crabs, Eriocheir sinensis, E. hepuensis, and E. japonica. Mitochondrial DNA A. 27:1175–1176.
   PubMed Web of Science ®Google Scholar
• Wu J, Mu S, Guo M, Chen T, Zhang Z, Li Z, Li Y, Kang X. 2016. Histone H2B gene cloning, with implication for its function during nuclear shaping in the Chinese mitten crab, Eriocheir sinensis. Gene. 575:276–284.
   PubMed Web of Science ®Google Scholar
• Yang J, Xiao X, Li R, Li Z, Deng M, Zhang G. 2016. Hypermethylation of CpG sites at the promoter region is associated with deregulation of mitochondrial ATPsyn-β and chemoresistance in acute myeloid leukemia. Cancer Biomark. 16:81–88.
   PubMed Web of Science ®Google Scholar
• Yu K, Hou L, Zhu J, Ying X, Yang W. 2009. KIFC1 participates in acrosomal biogenesis, with discussion of its importance for the perforatorium in the Chinese mitten crab Eriocheir sinensis. Cell Tissue Res. 337:113–123.
   PubMed Web of Science ®Google Scholar
• Zhu M, Sun W, Wang Y, Li Q, Yang H, Duan Z, He L, Wang Q. 2015. P38 participates in spermatogenesis and acrosome reaction prior to fertilization in Chinese mitten crab Eriocheir sinensis. Gene. 559:103–111.
   PubMed Web of Science ®Google Scholar