China Animal Husbandry and Veterinary Medicine ›› 2022, Vol. 49 ›› Issue (1): 197-207.doi: 10.16431/j.cnki.1671-7236.2022.01.021
• Genetics and Breeding • Previous Articles Next Articles
SHI Yuanjun, MI Siyuan, YU Ying
Received:2021-09-06
Online:2022-01-05
Published:2021-12-29
CLC Number:
SHI Yuanjun, MI Siyuan, YU Ying. Research Progress on m6A Epigenetic Modification and Its Regulation Mechanism[J]. China Animal Husbandry and Veterinary Medicine, 2022, 49(1): 197-207.
| [1] MAURANO M T,HUMBERT R,RYNES E,et al.Systematic localization of common disease-associated variation in regulatory DNA[J].Science,2012,337(6099):1190-1195. [2] WELTER D,MACARTHUR J,MORALES J,et al.The NHGRI GWAS catalog,a curated resource of SNP-trait associations[J].Nucleic Acids Research,2013,42(D1):D1001-D1006. [3] TRYNKA G,WESTRA H,SLOWIKOWSKI K,et al.Disentangling the effects of colocalizing genomic annotations to functionally prioritize non-coding variants within complex-trait loci[J].The American Journal of Human Genetics,2015,97(1):139-152. [4] BOCCALETTO P,MACHNICKA M A,PURTA E,et al.MODOMICS:A database of RNA modification pathways.2017 update[J].Nucleic Acids Research,2018,46(D1):D303-D307. [5] DOMINISSINI D,NACHTERGAELE S,MOSHITCH-MOSHKOVITZ S,et al.The dynamic N(1)-methyladenosine methylome in eukaryotic messenger RNA[J].Nature,2016,530(7591):441-446. [6] YANG X,YANG Y,SUN B,et al.5-methylcytosine promotes mRNA export——NSUN2 as the methyltransferase and ALYREF as an m5C reader[J].Cell Research,2017,27(5):606-625. [7] ZACCARA S,RIES R J,JAFFREY S R.Reading,writing and erasing mRNA methylation[J].Nature Reviews Molecular Cell Biology,2019,20(10):608-624. [8] DESROSIERS R,FRIDERICI K,ROTTMAN F.Identification of methylated nucleosides in messenger RNA from Novikoff hepatoma cells[J].Proceedings of the National Academy of Sciences of the United States of America,1974,71(10):3971-3975. [9] DOMINISSINI D,MOSHITCH-MOSHKOVITZ S,SCHWARTZ S,et al.Topology of the human and mouse m6A RNA methylomes revealed by m6A-Seq[J].Nature,2012,485(7397):201-206. [10] MEYER K D,SALETORE Y,ZUMBO P,et al.Comprehensive analysis of mRNA methylation reveals enrichment in 3' UTRs and near stop codons[J].Cell,2012,149(7):1635-1646. [11] ZHANG Z,LUO K,ZOU Z,et al.Genetic analyses support the contribution of mRNA N6-methyladenosine (m6A) modification to human disease heritability[J].Nature Genetics,2020,52(9):939-949. [12] HUANG H,WENG H,CHEN J.The biogenesis and precise control of RNA m6A methylation[J].Trends in Genetics,2020,36(1):44-52. [13] SCHÖLLER E,WEICHMANN F,TREIBER T,et al.Interactions,localization,and phosphorylation of the m6A generating METTL3-METTL14-WTAP complex[J].RNA,2018,24(4):499-512. [14] ŚLEDŹ P,JINEK M.Structural insights into the molecular mechanism of the m6A writer complex[J].eLife,2016,5:e18434. [15] HORIUCHI K,KAWAMURA T,IWANARI H,et al.Identification of Wilms' tumor 1-associating protein complex and its role in alternative splicing and the cell cycle[J].Journal of Biological Chemistry,2013,288(46):33292-33302. [16] FU Y,DOMINISSINI D,RECHAVI G,et al.Gene expression regulation mediated through reversible m6A RNA methylation[J].Nature Reviews Genetics,2014,15(5):293-306. [17] IMAM H,KHAN M,GOKHALE N S,et al.N6 -methyladenosine modification of Hepatitis B virus RNA differentially regulates the viral life cycle[J].Proceedings of the National Academy of Sciences of the United States of America,2018,115(35):8829-8834. [18] DINA C,MEYRE D,GALLINA S,et al.Variation in FTO contributes to childhood obesity and severe adult obesity[J].Nature Genetics,2007,39(6):724-726. [19] GERKEN T,GIRARD C A,TUNG Y C,et al.The obesity-associated FTO gene encodes a 2-oxoglutarate-dependent nucleic acid demethylase[J].Science,2007,318(5855):1469-1472. [20] ZHENG G,DAHL J A,NIU Y,et al.ALKBH5 is a mammalian RNA demethylase that impacts RNA metabolism and mouse fertility[J].Molecular Cell,2013,49(1):18-29. [21] AIK W,SCOTTI J S,CHOI H,et al.Structure of human RNA N6-methyladenine demethylase ALKBH5 provides insights into its mechanisms of nucleic acid recognition and demethylation[J].Nucleic Acids Research,2014,42(7):4741-4754. [22] FU Y,JIA G,PANG X,et al.FTO-mediated formation of N6-hydroxymethyladenosine and N6-formyladenosine in mammalian RNA[J].Nature Communications,2013,4:1798. [23] BARTOSOVIC M,MOLARES H C,GREGOROVA P,et al.N6-methyladenosine demethylase FTO targets pre-mRNAs and regulates alternative splicing and 3'-end processing[J].Nucleic Acids Research,2017,45(19):11356-11370. [24] JIA G,FU Y,ZHAO X,et al.N6-methyladenosine in nuclear RNA is a major substrate of the obesity-associated FTO[J].Nature Chemical Biology,2011,7(12):885-887. [25] WANG X,LU Z,GOMEZ A,et al.N6-methyladenosine-dependent regulation of messenger RNA stability[J].Nature,2014,505(7481):117-120. [26] HAN D,LIU J,CHEN C,et al.Anti-tumour immunity controlled through mRNA m6A methylation and YTHDF1 in dendritic cells[J].Nature,2019,566(7743):270-274. [27] SHI H,WEI J,HE C.Where,when,and how:Context-dependent functions of RNA methylation writers,readers,and erasers[J].Molecular Cell,2019,74(4):640-650. [28] MEYER K D,SALETORE Y,ZUMBO P,et al.Comprehensive analysis of mRNA methylation reveals enrichment in 3' UTRs and near stop codons[J].Cell,2012,149(7):1635-1646. [29] CHOE J,LIN S,ZHANG W,et al.mRNA circularization by METTL3-eIF3h enhances translation and promotes oncogenesis[J].Nature,2018,561(7724):556-560. [30] HSU P J,ZHU Y,MA H,et al.YTHDC2 is an N6-methyladenosine binding protein that regulates mammalian spermatogenesis[J].Cell Research,2017,27(9):1115-1127. [31] DU H,ZHAO Y,HE J,et al.YTHDF2 destabilizes m6A-containing RNA through direct recruitment of the CCR4-NOT deadenylasecomplex[J].Nature Communications,2016,7(1):12626. [32] ZHOU J,WAN J,GAO X,et al.Dynamic m(6)A mRNA methylation directs translational control of heat shock response[J].Nature,2015,526(7574):591-594. [33] WAN Y,QU K,ZHANG Q C,et al.Landscape and variation of RNA secondary structure across the human transcriptome[J].Nature,2014,505(7485):706-709. [34] LIU N,DAI Q,ZHENG G,et al.N(6)-methyladenosine-dependent RNA structural switches regulate RNA-protein interactions[J].Nature,2015,518(7540):560-564. [35] NAGARAJAN A,JANOSTIAK R,WAJAPEYEE N.Dot blot analysis for Measuring Global N6-methyladenosine Modification of RNA[M].New York:Springer,2018. [36] KELLNER S,BURHENNE J,HELM M.Detection of RNA modifications[J].RNA Biology,2014,7(2):237-247. [37] ZHANG L,XIONG Q,PEA PEREZ S,et al.ALKBH7-mediated demethylation regulates mitochondrial polycistronic RNA processing[J].Nature Cell Biology,2021,23(7):684-691. [38] LINDER B,GROZHIK A V,OLARERIN-GEORGE A O,et al.Single-nucleotide-resolution mapping of m6A and m6Am throughout the transcriptome[J].Nature Methods,2015,12(8):767-772. [39] LIU N,PARISIEN M,DAI Q,et al.Probing N6-methyladenosine RNA modification status at single nucleotide resolution in mRNA and long noncoding RNA[J].RNA,2013,19(12):1848-1856. [40] XIAO Y,WANG Y,TANG Q,et al.An elongation- and ligation-based qPCR amplification method for the radiolabeling-free detection of locus-specific N6-methyladenosine modification[J].Angewandte Chemie International Edition,2018,57(49):15995-16000. [41] WANG Y,XIAO Y,DONG S,et al.Antibody-free enzyme-assisted chemical approach for detection of N6-methyladenosine[J].Nature Chemical Biology,2020,16(8):896-903. [42] CHEN Y,HAO C,LIU A X,et al.Appearance-consistent video object segmentation based on a multinomial event model[J].ACM Transactions on Multimedia Computing,Communications,and Applications,2019,15(2):1-15. [43] VILFAN I D,TSAI Y C,CLARK T A,et al.Analysis of RNA base modification and structural rearrangement by single-molecule Real-time detection of reverse transcription[J].Journal of Nanobiotechnology,2013,11:8. [44] GARALDE D R,SNELL E A,JACHIMOWICZ D,et al.Highly parallel direct RNA sequencing on an array of nanopores[J].Nature Methods,2018,15(3):201-206. [45] WANG X,WU R,LIU Y,et al.m6A mRNA methylation controls autophagy and adipogenesis by targeting Atg5 and Atg7[J].Autophagy,2020,16(7):1221-1235. [46] HENG J,WU Z,TIAN M,et al.Excessive BCAA regulates fat metabolism partially through the modification of m6A RNA methylation in weanling piglets[J].Nutrition & Metabolism,2020,17(1):10. [47] ZHANG X,YAO Y,HAN J,et al.Longitudinal epitranscriptome profiling reveals the crucial role of N6-methyladenosine methylation in porcine prenatal skeletal muscle development[J].Journal of Genetics and Genomics,2020,47(8):466-476. [48] XI L,CARROLL T,MATOS I,et al.m6A RNA methylation impacts fate choices during skin morphogenesis[J].eLife,2020,9:e56980. [49] WANG Y,ZHENG Y,GUO D,et al.m6A methylation analysis of differentially expressed genes in skin tissues of coarse and fine type liaoningcashmere goats[J].Frontiers in Genetics,2020,10:1318. [50] CHANG Y,BRITO L F,ALVARENGA A B,et al.Incorporating temperament traits in dairy cattle breeding programs:Challenges and opportunities in the phenomicsera[J].Animal Frontiers,2020,10(2):29-36. [51] SHAFIK A M,ZHANG F,GUO Z,et al.N6-methyladenosine dynamics in neurodevelopment and aging,and its potential role in Alzheimer's disease[J].Genome Biology,2021,22(1):17. [52] WU R,LIU Y,ZHAO Y,et al.m6A methylation controls pluripotency of porcine induced pluripotent stem cells by targeting SOCS3/JAK2/STAT3 pathway in a YTHDF1/YTHDF2-orchestrated manner[J].Cell Death & Disease,2019,10(3):171. [53] KIDDER G M,VANDERHYDEN B C.Bidirectional communication between oocytes and follicle cells:Ensuring oocyte developmental competence[J].Canadian Journal of Physiology and Pharmacology,2010,88(4):399-413. [54] CAO Z,ZHANG D,WANG Y,et al.Identification and functional annotation of m6A methylation modification in granulosa cells during antral follicle development in pigs[J].Animal Reproduction Science,2020,219:106510. [55] LU Z,LIU J,YUAN C,et al.m6A mRNA methylation analysis provides novel insights into heat stress responses in the liver tissue of sheep[J].Genomics,2021,113(1):484-492. [56] YU J,LI Y,WANG T,et al.Modification of N6-methyladenosine RNA methylation on heat shock protein expression[J].PLoS One,2018,13(6):e198604. [57] LU Z,MA Y,LI Q,et al.The role of N6-methyladenosine RNA methylation in the heat stress response of sheep (Ovis aries)[J].Cell Stress and Chaperones,2019,24(2):333-342. [58] HENG J,TIAN M,ZHANG W,et al.Maternal heat stress regulates the early fat deposition partly through modification of m6A RNA methylation in neonatal piglets[J].Cell Stress and Chaperones,2019,24(3):635-645. [59] KISLIOUK T,ROSENBERG T,BEN-NUN O,et al.Early-life m6A RNA demethylation by fat mass and obesity-associated protein (FTO) influences resilience or vulnerability to heat stress later in life[J].eNeuro,2020,7(3):519-549. [60] WETMORE C,OLSON L,BEAN A J.Regulation of brain-derived neurotrophic factor (BDNF) expression and release from hippocampal neurons is mediated by non-NMDA type glutamate receptors[J].The Journal of Neuroscience,1994,14(3):1688-1700. [61] ALDERSON R F,ALTERMAN A L,BARDE Y A,et al.Brain-derived neurotrophic factor increases survival and differentiated functions of rat septal cholinergic neurons in culture[J].Neuron,1990,5(3):297-306. [62] BOHLEN UND H O,MINICHIELLO L,UNSICKER K.Haploinsufficiency for trkB and trkC receptors induces cell loss and accumulation of alpha-synuclein in the substantia nigra[J].The FASEB Journal,2005,19(12):1740-1742. [63] MCFADDEN M J,MCINTYRE A B R,MOURELATOS H,et al.Post-transcriptional regulation of antiviral gene expression by N6-methyladenosine[J].Cell Reports,2021,34(9):108798. [64] QIU W,ZHANG Q,ZHANG R,et al.N6-methyladenosine RNA modification suppresses antiviral innate sensing pathways via reshaping double-stranded RNA[J].Nature Communications,2021,12(1):1582. [65] WANG L,WEN M,CAO X.Nuclear hnRNPA2B1 initiates and amplifies the innate immune response to DNA viruses[J].Science,2019,365(6454):v758. [66] CHEN J,JIN L,WANG Z,et al.N6-methyladenosine regulates PEDV replication and host gene expression[J].Virology,2020,548:59-72. [67] LI N,HUI H,BRAY B,et al.METTL3 regulates viral m6A RNA modification and host cell innate immune responses during SARS-CoV-2 infection[J].Cell Reports,2021,35(6):109091. [68] HU J,LIN Y.Fusarium infection alters the m6A-modified transcript landscape in the cornea[J].Experimental Eye Research,2020,200:108216. [69] ZONG X,WANG H,XIAO X,et al.Enterotoxigenic Escherichia coli infection promotes enteric defensin expression via FOXO6-METTL3-m6A-GPR161 signalling axis[J].RNA Biology,2021,18(4):576-586. [70] HUANG H,WENG H,CHEN J.m6A modification in coding and non-coding RNAs:Roles and therapeutic implications in cancer[J].Cancer Cell,2020,37(3):270-288. [71] LI Z,WENG H,SU R,et al.FTO plays an oncogenic role in acute myeloid leukemia as a N6-methyladenosine RNA demethylase[J].Cancer cell,2017,31(1):127-141. [72] SU R,DONG L,LI Y,et al.Targeting FTO suppresses cancer stem cell maintenance and immune evasion[J].Cancer Cell,2020,38(1):79-96. [73] YANKOVA E,BLACKABY W,ALBERTELLA M,et al.Small molecule inhibition of METTL3 as a strategy against myeloid leukaemia[J].Nature,2021,593(7860):597-601. [74] RAHAYU A P,HARTATIK T,PURNOMOADI A,et al.Association of single nucleotide polymorphisms in the fatty acid synthase,LOC514211,and fat mass and obesity-associated genes with milk traits in Indonesian-Holstein dairy cattle[J].Veterinary World,2019,12(7):1160-1166. [75] XIANG R,VAN DEN BERG I,MACLEOD I M,et al.Effect direction meta-analysis of GWAS identifies extreme,prevalent and shared pleiotropy in a large mammal[J].Communications Biology,2020,3(1):88. [76] IBEAGHA-AWEMU E M,PETERS S O,AKWANJI K A,et al.High density genome wide genotyping-by-sequencing and association identifies common and low frequency SNPs,and novel candidate genes influencing cow milk traits[J].Scientific Reports,2016,6(1):31109. [77] WANG S,LIU S,YUAN T,et al.Genetic effects of FTO gene insertion/deletion (InDel) on fat-tail measurements and growth traits in Tong sheep[J].Animal Biotechnology,2021,32(2):229-239. [78] WANG H,ZHANG L,CAO J,et al.Genome-wide specific selection in three domestic sheep breeds[J].PLoS One,2015,10(6):e128688. [79] SEBERT S P,HYATT M A,CHAN L L,et al.Influence of prenatal nutrition and obesity on tissue specific fat mass and obesity-associated (FTO) gene expression[J].Reproduction,2010,139(1):265-274. [80] FAN Y,ZHANG C,ZHU G.Profiling of RNA N6-methyladenosine methylation during follicle selection in chicken ovary[J].Poultry Science,2019,98(11):6117-6124. [81] HU Y,FENG Y,ZHANG L,et al.GR-mediated FTO transactivation induces lipid accumulation in hepatocytes via demethylation of m6A on lipogenic mRNAs[J].RNA Biology,2020,17(7):930-942. [82] HUANG H,LIU L,LI C,et al.Fat mass- and obesity-associated (FTO) gene promoted myoblast differentiation through the focal adhesion pathway in chicken[J].3 Biotech,2020,10(9):403. [83] SONG C,SONG W T,SHU J T,et al.Tissue-and breed-specific expression of the chicken fat mass- and obesity-associated gene (FTO)[J].Genetics and Molecular Research,2015,14(3):10500-10506. [84] MATHIYALAGAN P,ADAMIAK M,MAYOURIAN J,et al.FTO-dependent N6-methyladenosine regulates cardiac function during remodeling and repair[J].Circulation,2019,139(4):518-532. [85] WANG Y,YU X,LIU Y,et al.Reduced nucleic acid methylation impairs meiotic maturation and developmental potency of pig oocytes[J].Theriogenology,2018,121:160-167. [86] FU Y,LI L,REN S.Effect of FTO expression and polymorphism on fat deposition in Suzhong pigs[J].Asian-Australasian Journal of Animal Sciences,2013,26(10):1365-1373. [87] HOU G,ZHAO X,LI L,et al.SUMOylation of YTHDF2 promotes mRNA degradation and cancer progression by increasing its binding affinity with m6A-modified mRNAs[J].Nucleic Acids Research,2021,49(5):2859-2877. [88] YU F,WEI J,CUI X,et al.Post-translational modification of RNA m6A demethylase ALKBH5 regulates ROS-induced DNA damage response[J].Nucleic Acids Research,2021,49(10):5779-5797. [89] ALARCÓN C R,GOODARZI H,LEE H,et al.HNRNPA2B1 is a mediator of m6A-dependent nuclear RNA processing events[J].Cell,2015,162(6):1299-1308. [90] HUANG H,WENG H,ZHOU K,et al.Histone H3 trimethylation at lysine 36 guides m6A RNA modification co-transcriptionally[J].Nature,2019,567(7748):414-419. [91] WU C,CHEN W,HE J,et al.Interplay of m6A and H3K27 trimethylation restrains inflammation during bacterial infection[J].Science Advances,2020,6(34):a647. |
| [1] | LI Jie, CHEN Chuwen, ZHAO Ruipeng, LIU Yuan, LI Zhixiong. Research Progress on Long Non-coding RNA of Muscle Development in Livestock and Poultry [J]. China Animal Husbandry and Veterinary Medicine, 2023, 50(6): 2427-2438. |
| [2] | GAO Yang, DU Xin, MA Xue, ZHANG Yingmei, HUO Changqing. Regulation of Resveratrol on Nrf2,NF-κB and Wnt Signaling Pathways and Its Application in Animals Production [J]. China Animal Husbandry and Veterinary Medicine, 2023, 50(2): 512-518. |
| [3] | XU Jing, YANG Guang, JIANG Meiqi, DING Xiangbin, GUO Yiwen, HU Debao, LI Xin, GUO Hong, ZHANG Linlin. Research Advances on CRISPR/Cas9 Technology in Livestock and Poultry Breeding [J]. China Animal Husbandry and Veterinary Medicine, 2022, 49(4): 1374-1383. |
| [4] | QIAO Chunyu, LIU Jiahe, ZHANG Boxi, HE Yuxi, ZHENG Yuwei, LYU Hongming. Research Progress on Pathogenic Mechanism and Control of Aflatoxin B1 [J]. China Animal Husbandry and Veterinary Medicine, 2022, 49(2): 765-775. |
| [5] | YANG Xinbo, ZHANG Xiaoxuan, CAI Yanan, NI Hongbo, ZHAO Quan, MA He. Progress on Microbial Fermented Traditional Chinese Medicine and Its Application in Breeding Industry [J]. China Animal Husbandry and Veterinary Medicine, 2022, 49(1): 169-178. |
| [6] | CHEN Jifa. Nutritional Characteristic of Tenebrio molitor and Its Application in Livestock and Poultry Diets [J]. China Animal Husbandry and Veterinary Medicine, 2021, 48(7): 2424-2430. |
| [7] | JING Zhenzhu, QIN Panpan, CHEN Bingjie, HOU Dan, WEI Chengjie, LI Tong, HAN Ruili, LIU Xiaojun, TIAN Yadong, KANG Xiangtao, LI Zhuanjian. Research Progress of Copy Number Variation in Livestock and Poultry [J]. China Animal Husbandry and Veterinary Medicine, 2021, 48(7): 2512-2522. |
| [8] | HE Weizhao, ZHANG Huiyan, WANG Hao, ZHAO Qingyu, TANG Chaohua, ZHANG Junmin. Extraction Methods of Yolk Antibody and Its Application in Prevention and Treatment of Bacterial Intestinal Diseases in Livestock and Poultry [J]. China Animal Husbandry and Veterinary Medicine, 2021, 48(2): 640-649. |
| [9] | SHANG Fangzheng, HAN Wenjing, WU Zhihong, HAI Erhan, MA Rong, ZHANG Yanjun, LI Jinquan. Research Advance on Application of Non-coding RNA in Livestock and Poultry [J]. China Animal Husbandry and Veterinary Medicine, 2021, 48(1): 235-247. |
| [10] | FAN Lixia, YUAN Xuexia, LI Yuanyang, WU Yuanjuan, ZHAO Shancang, ZHANG Bingchun, WANG Wenbo. LAMP Detection and Drug Resistance Analysis to Staphylococcus aureus and Escherichia coli in Livestock and Poultry Manure [J]. China Animal Husbandry and Veterinary Medicine, 2020, 47(7): 2325-2335. |
| [11] | QIAO Guoyan, YUAN Chao, GUO Tingting, LIU Jianbin, YUE Yaojing, NIU Chune, SUN Xiaoping, LI Wenhui, YANG Bohui. A Comparison of Different Data Structures and Animal Models for Genetic Parameter Estimation of Economic Traits of Alpine Merino Sheep [J]. China Animal Husbandry and Veterinary Medicine, 2020, 47(2): 531-543. |
| [12] | BAO Jingjing, ZHANG Li. Research Progress on Genomic Selection Methods in Livestock and Poultry [J]. China Animal Husbandry and Veterinary Medicine, 2020, 47(10): 3297-3304. |
| [13] | DOU Caixia, WANG Qian, AN Jianyong, QIAO Jiayun. The Reasearch Progress of Keap1-Nrf2/ARE Signaling Pathway and Its Role in the Antioxidation of Livestock and Poultry [J]. China Animal Husbandry and Veterinary Medicine, 2019, 46(9): 2567-2574. |
| [14] | HOU Fang, ZANG Changjiang, WANG Lianqun, ZHAO Bingru, AIZEZI·Simayi, KAHAER·Kadier, HUANG Xixia, TIAN Kechuan. Effect of Non-genetic Factors on Main Economic Traits in Chinese Merino Sheep Chinese Merino Sheep (Xinjiang Type) [J]. , 2018, 45(6): 1608-1617. |
| [15] | ZHONG Shuhong, FENG Shiwen, LI Jun, ZHOU Qingan, CHEN Zexiang, XU Lishi, LIU Feng, MA Chunxia, HU Shuai, PAN Yan. Investigation on Serotype, Drug Resistance and Drug Resistance Gene of Salmonella in Livestock and Poultry Products of Guangxi [J]. , 2018, 45(3): 770-780. |
| Viewed | ||||||||||||||||||||||||||||||||||||||||||||||||||
|
Full text 97
|
|
|||||||||||||||||||||||||||||||||||||||||||||||||
|
Abstract 276
|
|
|||||||||||||||||||||||||||||||||||||||||||||||||
