Acta Veterinaria et Zootechnica Sinica ›› 2022, Vol. 53 ›› Issue (10): 3287-3295.doi: 10.11843/j.issn.0366-6964.2022.10.002
• REVIEW • Previous Articles Next Articles
GAN Jianyu, ZHANG Xin, CAI Gengyuan, HONG Linjun*, HUANG Sixiu*
Received:
2022-04-20
Online:
2022-10-23
Published:
2022-10-26
CLC Number:
GAN Jianyu, ZHANG Xin, CAI Gengyuan, HONG Linjun, HUANG Sixiu. Research Progress of DNA Methylation during Porcine Embryonic Development[J]. Acta Veterinaria et Zootechnica Sinica, 2022, 53(10): 3287-3295.
[1] | PRATHER R S, LORSON M, ROSS J W, et al.Genetically engineered pig models for human diseases[J].Annu Rev Anim Biosci, 2013, 1:203-219. |
[2] | BICK J T, FLÖTER V L, ROBINSON M D, et al.Small RNA-seq analysis of single porcine blastocysts revealed that maternal estradiol-17beta exposure does not affect miRNA isoform (isomiR) expression[J].BMC Genomics, 2018, 19(1):590. |
[3] | BAZER F W, JOHNSON G A.Pig blastocyst-uterine interactions[J].Differentiation, 2014, 87(1-2):52-65. |
[4] | BIDARIMATH M, TAYADE C.Pregnancy and spontaneous fetal loss:A pig perspective[J].Mol Reprod Dev, 2017, 84(9):856-869. |
[5] | WU G, BAZER F W, WALLACE J M, et al.BOARD-INVITED REVIEW:Intrauterine growth retardation:implications for the animal sciences[J].J Anim Sci, 2006, 84(9):2316-2337. |
[6] | POPE W F.Uterine asynchrony:A cause of embryonic loss[J].Biol Reprod, 1988, 39(5):999-1003. |
[7] | EGGER G, LIANG G N, APARICIO A, et al.Epigenetics in human disease and prospects for epigenetic therapy[J].Nature, 2004, 429(6990):457-463. |
[8] | JAENISCH R, BIRD A.Epigenetic regulation of gene expression:How the genome integrates intrinsic and environmental signals[J].Nat Genet, 2003, 33 Suppl:245-254. |
[9] | FENG S H, JACOBSEN S E, REIK W.Epigenetic reprogramming in plant and animal development[J].Science, 2010, 330(6004):622-627. |
[10] | ALBERIO R.Regulation of cell fate decisions in early mammalian embryos[J].Annu Rev Anim Biosci, 2020, 8:377-393. |
[11] | ARRELL V L, DAY B N, PRATHER R S.The transition from maternal to zygotic control of development occurs during the 4-cell stage in the domestic pig, Sus scrofa:quantitative and qualitative aspects of protein synthesis[J].Biol Reprod, 1991, 44(1):62-68. |
[12] | BAZER F W, SPENCER T E, JOHNSON G A, et al.Uterine receptivity to implantation of blastocysts in mammals[J].Front Biosci (Schol Ed), 2011, 3(2):745-767. |
[13] | TAYADE C, BLACK G P, FANG Y, et al.Differential gene expression in endometrium, endometrial lymphocytes, and trophoblasts during successful and abortive embryo implantation[J].J Immunol, 2006, 176(1):148-156. |
[14] | KACZMAREK M M, NAJMULA J, GUZEWSKA M M, et al.miRNAs in the peri-implantation period:Contribution to embryo-maternal communication in pigs[J].Int J Mol Sci, 2020, 21(6):2229. |
[15] | 胡 群, 叶 南, 史泽宇, 等.猪妊娠过程中胎盘发育及其调控基因研究进展[J].中国畜牧兽医, 2018, 45(6):1633-1638.HU Q, YE N, SHI Z Y, et al.Research advance on placenta development and its regulated genes in pig[J].China Animal Husbandry & Veterinary Medicine, 2018, 45(6):1633-1638.(in Chinese) |
[16] | LAW J A, JACOBSEN S E.Establishing, maintaining and modifying DNA methylation patterns in plants and animals[J].Nat Rev Genet, 2010, 11(3):204-220. |
[17] | BESTOR T H.The DNA methyltransferases of mammals[J].Hum Mol Genet, 2000, 9(16):2395-2402. |
[18] | LI Y, ZHANG Z, CHEN J, et al.Stella safeguards the oocyte methylome by preventing de novo methylation mediated by DNMT1[J].Nature, 2018, 564(7734):136-140. |
[19] | SCHNEIDER E, PLIUSHCH G, EL HAJJ N, et al.Spatial, temporal and interindividual epigenetic variation of functionally important DNA methylation patterns[J].Nucleic Acids Res, 2010, 38(12):3880-3890. |
[20] | MEDVEDEVA Y A, KHAMIS A M, KULAKOVSKIY I V, et al.Effects of cytosine methylation on transcription factor binding sites[J].BMC Genomics, 2014, 15:119. |
[21] | DURCOVA-HILLS G, HAJKOVA P, SULLIVAN S, et al.Influence of sex chromosome constitution on the genomic imprinting of germ cells[J].Proc Natl Acad Sci U S A, 2006, 103(30):11184-11188. |
[22] | VARLEY K E, GERTZ J, BOWLING K M, et al.Dynamic DNA methylation across diverse human cell lines and tissues[J].Genome Res, 2013, 23(3):555-567. |
[23] | LI M Z, WU H L, LUO Z G, et al.An atlas of DNA methylomes in porcine adipose and muscle tissues[J].Nat Commun, 2012, 3:850. |
[24] | GOWHER H, JELTSCH A.Enzymatic properties of recombinant Dnmt3a DNA methyltransferase from mouse:the enzyme modifies DNA in a non-processive manner and also methylates non-CpA sites[J].J Mol Biol, 2001, 309(5):1201-1208. |
[25] | RAMSAHOYE B H, BINISZKIEWICZ D, LYKO F, et al.Non-CpG methylation is prevalent in embryonic stem cells and may be mediated by DNA methyltransferase 3a[J].Proc Natl Acad Sci U S A, 2000, 97(10):5237-5242. |
[26] | LAURENT L, WONG E, LI G L, et al.Dynamic changes in the human methylome during differentiation[J].Genome Res, 2010, 20(3):320-331. |
[27] | LISTER R, PELIZZOLA M, DOWEN R H, et al.Human DNA methylomes at base resolution show widespread epigenomic differences[J].Nature, 2009, 462(7271):315-322. |
[28] | SANTOS F, HENDRICH B, REIK W, et al.Dynamic reprogramming of DNA methylation in the early mouse embryo[J].Dev Biol, 2002, 241(1):172-182. |
[29] | LEE H J, HORE T A, REIK W.Reprogramming the methylome:Erasing memory and creating diversity[J].Cell Stem Cell, 2014, 14(6):710-719. |
[30] | LI E.Chromatin modification and epigenetic reprogramming in mammalian development[J].Nat Rev Genet, 2002, 3(9):662-673. |
[31] | SMITH Z D, CHAN M M, MIKKELSEN T S, et al.A unique regulatory phase of DNA methylation in the early mammalian embryo[J].Nature, 2012, 484(7394):339-344. |
[32] | KAFRI T, ARIEL M, BRANDEIS M, et al.Developmental pattern of gene-specific DNA methylation in the mouse embryo and germ line[J].Genes Dev, 1992, 6(5):705-714. |
[33] | MONK M, BOUBELIK M, LEHNERT S.Temporal and regional changes in DNA methylation in the embryonic, extraembryonic and germ cell lineages during mouse embryo development[J].Development, 1987, 99(3):371-382. |
[34] | FULKA J, FULKA H, SLAVIK T, et al.DNA methylation pattern in pig in vivo produced embryos[J].Histochem Cell Biol, 2006, 126(2):213-217. |
[35] | JEONG Y S, YEO S, PARK J S, et al.DNA methylation state is preserved in the sperm-derived pronucleus of the pig zygote[J].Int J Dev Biol, 2007, 51(8):707-714. |
[36] | ZHU Q F, SANG F, WITHEY S, et al.Specification and epigenomic resetting of the pig germline exhibit conservation with the human lineage[J].Cell Rep, 2021, 34(6):108735. |
[37] | HYLDIG S M W, OSTRUP O, VEJLSTED M, et al.Changes of DNA methylation level and spatial arrangement of primordial germ cells in embryonic day 15 to embryonic day 28 pig embryos[J].Biol Reprod, 2011, 84(6):1087-1093. |
[38] | GÓMEZ-REDONDO I, PLANELLS B, CÁNOVAS S, et al.Genome-wide DNA methylation dynamics during epigenetic reprogramming in the porcine germline[J].Clin Epigenet, 2021, 13(1):27. |
[39] | REIK W.Stability and flexibility of epigenetic gene regulation in mammalian development[J].Nature, 2007, 447(7143):425-432. |
[40] | HAJKOVA P, JEFFRIES S J, LEE C, et al.Genome-wide reprogramming in the mouse germ line entails the base excision repair pathway[J].Science, 2010, 329(5987):78-82. |
[41] | MORGAN H D, DEAN W, COKER H A, et al.Activation-induced cytidine deaminase deaminates 5-methylcytosine in DNA and is expressed in pluripotent tissues:implications for epigenetic reprogramming[J].J Biol Chem, 2004, 279(50):52353-52360. |
[42] | POPP C, DEAN W, FENG S H, et al.Genome-wide erasure of DNA methylation in mouse primordial germ cells is affected by AID deficiency[J].Nature, 2010, 463(7284):1101-1105. |
[43] | GUIBERT S, FORNÉ T, WEBER M.Global profiling of DNA methylation erasure in mouse primordial germ cells[J].Genome Res, 2012, 22(4):633-641. |
[44] | LUO Z G, ZHANG K, CHEN L, et al.Molecular characterization and tissue expression profile of the Dnmts gene family in pig[J].J Integr Agric, 2017, 16(6):1367-1374. |
[45] | SHARIF J, MUTO M, TAKEBAYASHI S I, et al.The SRA protein Np95 mediates epigenetic inheritance by recruiting Dnmt1 to methylated DNA[J].Nature, 2007, 450(7171):908-912. |
[46] | OKANO M, XIE S P, LI E.Cloning and characterization of a family of novel mammalian DNA (cytosine-5) methyltransferases[J]. Nat Genet, 1998, 19(3):219-220. |
[47] | WION D, CASADESÚS J.N6-methyl-adenine:An epigenetic signal for DNA-protein interactions[J].Nat Rev Microbiol, 2006, 4(3):183-192. |
[48] | RATEL D, RAVANAT J L, BERGER F, et al.N6-methyladenine:the other methylated base of DNA[J].Bioessays, 2006, 28(3):309-315. |
[49] | HE S M, ZHANG G Q, WANG J J, et al.6 mA-DNA-binding factor Jumu controls maternal-to-zygotic transition upstream of Zelda[J].Nat Commun, 2019, 10(1):2219. |
[50] | LIU J Z, ZHU Y X, LUO G Z, et al.Abundant DNA 6 mA methylation during early embryogenesis of zebrafish and pig[J].Nat Commun, 2016, 7:13052. |
[51] | FERNANDES S B, GROVA N, ROTH S, et al.N6-methyladenine in eukaryotic DNA:Tissue distribution, early embryo development, and neuronal toxicity[J].Front Genet, 2021, 12:657171. |
[52] | LI Z, ZHAO S, NELAKANTI R V, et al.N6-methyladenine in DNA antagonizes SATB1 in early development[J].Nature, 2020, 583(7817):625-630. |
[53] | WU T P, WANG T, SEETIN M G, et al.DNA methylation on N6-adenine in mammalian embryonic stem cells[J].Nature, 2016, 532(7599):329-333. |
[54] | BOULIAS K, GREER E L.Means, mechanisms and consequences of adenine methylation in DNA[J].Nat Rev Genet, 2022, 23(7):411-428. |
[55] | ZHU Q F, STÖGER R, ALBERIO R.A Lexicon of DNA modifications:Their roles in embryo development and the germline[J].Front Cell Dev Biol, 2018, 6:24. |
[56] | ZHAO J G, WHYTE J, PRATHER R S.Effect of epigenetic regulation during swine embryogenesis and on cloning by nuclear transfer[J].Cell Tissue Res, 2010, 341(1):13-21. |
[57] | PRATHER R S, SHEN M D, DAI Y F.Genetically modified pigs for medicine and agriculture[J].Biotechnol Genet Eng Rev, 2008, 25:245-265. |
[58] | LIU Y, LI J, LØVENDAHL P, et al.In vitro manipulation techniques of porcine embryos:A meta-analysis related to transfers, pregnancies and piglets[J].Reprod Fertil Dev, 2015, 27(3):429-439. |
[59] | DESHMUKH R S, ØSTRUP O, ØSTRUP E, et al.DNA methylation in porcine preimplantation embryos developed in vivo and produced by in vitro fertilization, parthenogenetic activation and somatic cell nuclear transfer[J].Epigenetics, 2011, 6(2):177-187. |
[60] | SONG X X, LIU Z H, HE H B, et al.Dnmt1s in donor cells is a barrier to SCNT-mediated DNA methylation reprogramming in pigs[J].Oncotarget, 2017, 8(21):34980-34991. |
[61] | WANG X W, SHI J S, CAI G Y, et al.Overexpression of MBD3 improves reprogramming of cloned pig embryos[J].Cell Reprogram, 2019, 21(5):221-228. |
[62] | LI Z C, HE X Y, CHEN L W, et al.Bone marrow mesenchymal stem cells are an attractive donor cell type for production of cloned pigs as well as genetically modified cloned pigs by somatic cell nuclear transfer[J].Cell Reprogram, 2013, 15(5):459-470. |
[63] | ZHAI Y H, LI W, ZHANG Z R, et al.Epigenetic states of donor cells significantly affect the development of somatic cell nuclear transfer (SCNT) embryos in pigs[J].Mol Reprod Dev, 2018, 85(1):26-37. |
[64] | HUAN Y J, ZHU J, HUANG B, et al.Trichostatin A rescues the disrupted imprinting induced by somatic cell nuclear transfer in pigs[J].PLoS One, 2015, 10(5):e0126607. |
[65] | XU W H, LI Z C, YU B, et al.Effects of DNMT1 and HDAC inhibitors on gene-specific methylation reprogramming during porcine somatic cell nuclear transfer[J].PLoS One, 2013, 8(5):e64705. |
[66] | ZHAI Y H, ZHANG M, AN X L, et al.TRIM28 maintains genome imprints and regulates development of porcine SCNT embryos[J].Reproduction, 2021, 161(4):411-424. |
[67] | YU D W, WANG J, ZOU H Y, et al.Silencing of retrotransposon-derived imprinted gene RTL1 is the main cause for postimplantational failures in mammalian cloning[J].Proc Natl Acad Sci U S A, 2018, 115(47):E11071-E11080. |
[68] | WANG P, LI X P, CAO L H, et al.MicroRNA-148a overexpression improves the early development of porcine somatic cell nuclear transfer embryos[J].PLoS One, 2017, 12(6):e0180535. |
[69] | QU J D, WANG X Y, JIANG Y J, et al.Optimizing 5-aza-2'-deoxycytidine treatment to enhance the development of porcine cloned embryos by inhibiting apoptosis and improving DNA methylation reprogramming[J].Res Vet Sci, 2020, 132:229-236. |
[70] | JEONG P S, YANG H J, PARK S H, et al.Combined chaetocin/trichostatin A treatment improves the epigenetic modification and developmental competence of porcine somatic cell nuclear transfer embryos[J].Front Cell Dev Biol, 2021, 9:709574. |
[71] | ZHAI Y H, ZHANG Z R, YU H, et al.Dynamic methylation changes of DNA and H3K4 by RG108 improve epigenetic reprogramming of somatic cell nuclear transfer embryos in pigs[J].Cell Physiol Biochem, 2018, 50(4):1376-1397. |
[72] | JIN J X, LEE S, TAWEECHAIPAISANKUL A, et al.The HDAC inhibitor LAQ824 enhances epigenetic reprogramming and in vitro development of porcine SCNT embryos[J].Cell Physiol Biochem, 2017, 41(3):1255-1266. |
[73] | JEONG P S, SIM B W, PARK S H, et al.Chaetocin improves pig cloning efficiency by enhancing epigenetic reprogramming and autophagic activity[J].Int J Mol Sci, 2020, 21(14):4836. |
[74] | WATERLAND R A.Assessing the effects of high methionine intake on DNA methylation[J].J Nutr, 2006, 136(6 Suppl):1706S-1710S. |
[75] | ZGLEJC K, FRANCZAK A.Peri-conceptional under-nutrition alters the expression of TRIM28 and ZFP57 in the endometrium and embryos during peri-implantation period in domestic pigs[J].Reprod Domest Anim, 2017, 52(4):542-550. |
[76] | ALTMANN S, MURANI E, SCHWERIN M, et al.Maternal dietary protein restriction and excess affects offspring gene expression and methylation of non-SMC subunits of condensin I in liver and skeletal muscle[J].Epigenetics, 2012, 7(3):239-252. |
[77] | OSTER M, TRAKOOLJUL N, REYER H, et al.Sex-specific muscular maturation responses following prenatal exposure to methylation-related micronutrients in pigs[J].Nutrients, 2017, 9(1):74. |
[78] | FRANCZAK A, ZGLEJC-WASZAK K, MARTYNIAK M, et al.Peri-conceptional nutritional restriction alters transcriptomic profile in the peri-implantation pig embryos[J].Anim Reprod Sci, 2018, 197:305-316. |
[79] | ZGLEJC-WASZAK K, WASZKIEWICZ E M, FRANCZAK A.Periconceptional undernutrition affects the levels of DNA methylation in the peri-implantation pig endometrium and in embryos[J].Theriogenology, 2019, 123:185-193. |
[80] | FRANCZAK A, ZGLEJC K, WASZKIEWICZ E, et al.Periconceptional undernutrition affects in utero methyltransferase expression and steroid hormone concentrations in uterine flushings and blood plasma during the peri-implantation period in domestic pigs[J].Reprod Fertil Dev, 2017, 29(8):1499-1508. |
[81] | LI Z C, YUE Z M, AO Z, et al.Maternal dietary supplementation of arginine increases the ratio of total cloned piglets born to total transferred cloned embryos by improving the pregnancy rate of recipient sows[J].Anim Reprod Sci, 2018, 196:211-218. |
[82] | CEDAR H, BERGMAN Y.Linking DNA methylation and histone modification:Patterns and paradigms[J].Nat Rev Genet, 2009, 10(5):295-304. |
[1] | NIU Naiqi, ZHAO Runze, ZONG Wencheng, LIU Xiance, LIU Hai, SHI Guohua, JING Xitao, ZHANG Longchao. Association of Polymorphisms of GREB1L and MIB1 Genes with Rib Number and Carcass Traits in Beijing Black Pigs [J]. Acta Veterinaria et Zootechnica Sinica, 2024, 55(1): 79-86. |
[2] | ZHU Xueli, ZHANG Longchao, WANG Lixian, PU Lei, LIU Xin. Association Analysis of AQP9 and RPS10 Gene Polymorphisms with Backfat Thickness in Beijing Black Pigs [J]. Acta Veterinaria et Zootechnica Sinica, 2024, 55(1): 87-98. |
[3] | SHI Shengjie, WANG Liguang, GAO Lei, CAI Chuanjiang, HE Weixian, CHU Guiyan. Effect of miR-24-3p on Estradiol Synthesis in Porcine Granulosa Cells [J]. Acta Veterinaria et Zootechnica Sinica, 2024, 55(1): 169-178. |
[4] | MA Yajun, JIAO Zhihui, LIU Xiaoning, LU Xiangyu, LIU Tao, WANG Yue, PIAO Chenxi, WANG Hongbin. Effects of Adipose-derived Mesenchymal Stem Cells on Pyroptosis of Miniature Pigs with Hepatic Ischemia-Reperfusion Combined with Hepatectomy [J]. Acta Veterinaria et Zootechnica Sinica, 2024, 55(1): 355-364. |
[5] | RU Meng, ZENG Wenhui, PENG Jianling, ZENG Qingjie, YIN Chao, CUI Yong, WEI Qing, LIANG Haiping, XIE Xianhua, HUANG Jianzhen. Research Progress on Follicles Development of Hens and Its Epigenetic Regulatory Mechanism [J]. Acta Veterinaria et Zootechnica Sinica, 2023, 54(9): 3613-3622. |
[6] | YUAN Wei, BI Huan, ZHANG Yudan, ZHANG Yiyu, GU Xiaolong, YANG Hongwen, CHEN Wei. Deciphering Genome-wide Selection Signals Reveals Genetic Differences between Jianbai and Congjiang Xiang Pigs [J]. Acta Veterinaria et Zootechnica Sinica, 2023, 54(9): 3631-3641. |
[7] | CHEN Ying, ZHONG Ruqing, CHEN Liang, ZHANG Hongfu. Utilization of Dietary Fiber and Its Impact on Nutrient Digestion of Pigs [J]. Acta Veterinaria et Zootechnica Sinica, 2023, 54(9): 3745-3757. |
[8] | ZHANG Zhaobo, HOU Liming, LI Pinghua, DU Taoran, WANG Zhongyu, WU Chengwu, HUANG Ruihua. Screening Candidate Metabolites of Dietary Fiber Affecting Meat Quality Traits of Erhualian Pigs Based on Plasma Metabolomics [J]. Acta Veterinaria et Zootechnica Sinica, 2023, 54(9): 3758-3769. |
[9] | ZHENG Xianrui, ZHUO Mingxue, JI Jinli, JIANG Weihu, DENG Zaishuang, ZHANG Jicheng, TIAN Yali, DING Yueyun, ZHANG Xiaodong, YIN Zongjun. Characteristics of Serum Immune Indices and Intestinal Microbiota of Wannan Black Pigs at Different Growth Stages [J]. Acta Veterinaria et Zootechnica Sinica, 2023, 54(9): 3770-3783. |
[10] | FAN Yandi, YANG Danjiao, YE Zhongming, ZHANG Min, LAN Lan, WANG Jinghao, ZHOU Han, KANG Runmin, YU Jifeng, ZHANG Zhidong, LI Yanmin, ZHOU Long. Metagenomic Analysis of Viruses in Clinical Samples of Respiratory Diseases in Tibetan Pigs [J]. Acta Veterinaria et Zootechnica Sinica, 2023, 54(9): 3836-3847. |
[11] | LIANG Rui, FAN Xiaorui, ZHANG Jinqiang, PANG Quanhai. Effects of Mouse Melanocyte Silencing and Overexpression of Pigment Epithelium-Derived Factor on Melanin Synthesis [J]. Acta Veterinaria et Zootechnica Sinica, 2023, 54(9): 3916-3930. |
[12] | JIAO Guangming, LÜ Yingguang, SANG Jinfang, KOU Zhipeng, LIU Tao, WANG Yue, LU Xiangyu, PIAO Chenxi, MA Yajun, ZHANG Jiantao, WANG Hongbin. Effect of Adipose Mesenchymal Stem Cells in Combination with Methylprednisolone on Allogeneic Skin Grafts in Minipigs [J]. Acta Veterinaria et Zootechnica Sinica, 2023, 54(8): 3533-3545. |
[13] | LIAN Yuju, ZHANG Zhiyuan, LIAO Xiaobo, WEI Hongjiang, YIN Yulong, LIU Mei. Breeding Methods and Application Progress of Medical Miniature Pigs [J]. Acta Veterinaria et Zootechnica Sinica, 2023, 54(7): 2667-2682. |
[14] | LU Chang, DONG Lei, ZHANG Wanfeng, GAO Pengfei, GUO Xiaohong, CAI Chunbo, CAO Guoqing, LI Bugao. Identification and Screening of Single Nucleotide Polymorphism Loci in Jinfen White Pigs Based on Whole Genome Resequencing [J]. Acta Veterinaria et Zootechnica Sinica, 2023, 54(7): 2761-2771. |
[15] | WANG Jinglin, LIU Yangguang, XU Qilong, CHEN Shuo, DENG Zaishuang, CHENG Shiyu, DING Yueyun, ZHENG Xianrui, YIN Zongjun, ZHANG Xiaodong. Genome Structures Variant Analysis and Feature SNPs Screening of Wanyue Black Pig [J]. Acta Veterinaria et Zootechnica Sinica, 2023, 54(7): 2783-2793. |
Viewed | ||||||
Full text |
|
|||||
Abstract |
|
|||||