Noncoding RNA-Mediated Regulation of DNA Methylation: Insights into Plant Epigenetic Mechanisms
Integrity signals
Registry
Cites
Statistics
Claims the paper makes
Claims other papers make about this one
Each is checked against this paper’s own text: does it say what the citing paper says it does?
Understanding these factors is crucial for commercial micropropagation to reduce somaclonal variation and maintain genetic uniformity.
“Understanding these factors is crucial for commercial micropropagation to reduce somaclonal variation and maintain genetic uniformity [64,65].”
From Somaclonal Variation and Clonal Fidelity in Commercial Micropropagation: Challenges and Perspectives (2025) · cites this paper as [64]
Somaclonal variation in micropropagated plants arises from complex interaction of genetic and epigenetic alterations, influenced by genotype, explant type, culture conditions, and medium compositions.
“Somaclonal variation in micropropagated plants arises from a complex interaction of genetic and epigenetic alterations, influenced by several key factors such as genotype, explant type, culture conditions, and medium compositions (Table 1) [64].”
From Somaclonal Variation and Clonal Fidelity in Commercial Micropropagation: Challenges and Perspectives (2025) · cites this paper as [64]
Cites
Double-slit photoelectron interference in strong-field ionization of the neon dimer
Kunitski, M., Eicke, N., Huber, P., Köhler, J., Zeller, S., Voigtsberger, J., Schlott, N., Henrichs, K., Sann, H., Trinter, F., et al. (2019) · Nature Communications · doi:10.1038/s41467-018-07882-8 · Cited by 8,162 · see citing works
U1 snRNP regulates cancer cell migration and invasion in vitro
Oh, J.-M., Venters, C. C., Di, C., Pinto, A. M., Wan, L., Younis, I., Cai, Z., Arai, C., So, B. R., Duan, J., et al. (2020) · Nature Communications · doi:10.1038/s41467-019-13993-7 · Cited by 7,157 · see citing works
Long non-coding RNAs: insights into functions
Mercer, T. R., Dinger, M. E., & Mattick, J. S. (2009) · Nature Reviews Genetics · doi:10.1038/nrg2521 · Cited by 5,654 · see citing works
Establishing, maintaining and modifying DNA methylation patterns in plants and animals
Law, J. A., & Jacobsen, S. E. (2010) · Nature Reviews Genetics · doi:10.1038/nrg2719 · Cited by 3,868 · see citing works
Epigenetic modifications and human disease
Portela, A., & Esteller, M. (2010) · Nature Biotechnology · doi:10.1038/nbt.1685 · Cited by 2,843 · see citing works
Many roads to maturity: microRNA biogenesis pathways and their regulation
Winter, J. J., Jung, S., Keller, S., Gregory, R. I., & Diederichs, S. (2009) · Nature Cell Biology · doi:10.1038/ncb0309-228 · Cited by 2,646 · see citing works
Cui, P., Zhang, S., Ding, F. H., Ali, S., & Xiong, L. (2014) · Genome biology · doi:10.1186/gb-2014-15-1-r1 · Cited by 2,282 · see citing works
Self-citationOrigin, Biogenesis, and Activity of Plant MicroRNAs
Voinnet, O. (2009) · Cell · doi:10.1016/j.cell.2009.01.046 · Cited by 2,215 · see citing works
Stability and flexibility of epigenetic gene regulation in mammalian development
Reik, W. (2007) · Nature · doi:10.1038/nature05918 · Cited by 1,963 · cited 1× · see citing works
“…DNA methylation, histone modifications, histone variants, and gene expression regulation by noncoding RNAs, these epigenetic modifications play a vital role in developmental processes (Reik 2007; Rodrigues and Zilberman 2015) and stress-related responses (Ali et al. 2022; Wang et al. 2023a, b).”
Dynamics and function of DNA methylation in plants
Zhang, H., Lang, Z., & Zhu, J. (2018) · Nature Reviews Molecular Cell Biology · doi:10.1038/s41580-018-0016-z · Cited by 1,829 · see citing works
Vernalization-Mediated Epigenetic Silencing by a Long Intronic Noncoding RNA
Heo, J. B., & Sung, S. (2010) · Science · doi:10.1126/science.1197349 · Cited by 1,230 · see citing works
PIWI-interacting RNAs: small RNAs with big functions
Özata, D. M., Gainetdinov, I. V., Zoch, A., O’Carroll, D., & Zamore, P. D. (2018) · Nature Reviews Genetics · doi:10.1038/s41576-018-0073-3 · Cited by 1,157 · see citing works
ARGONAUTE4 Control of Locus-Specific siRNA Accumulation and DNA and Histone Methylation
Zilberman, D., Cao, X., & Jacobsen, S. E. (2003) · Science · doi:10.1126/science.1079695 · Cited by 1,049 · see citing works
DNA methylation pathways and their crosstalk with histone methylation
Du, J., Johnson, L. M., Jacobsen, S. E., & Patel, D. J. (2015) · Nature Reviews Molecular Cell Biology · doi:10.1038/nrm4043 · Cited by 1,000 · see citing works
RNA-mediated epigenetic regulation of gene expression
Holoch, D., & Moazed, D. (2015) · Nature Reviews Genetics · doi:10.1038/nrg3863 · Cited by 994 · see citing works
Epigenetic Reprogramming and Small RNA Silencing of Transposable Elements in Pollen
Slotkin, R. K., Vaughn, M. W., Borges, F., Tanurdžić, M., Becker, J. D., Feijó, J. A., & Martienssen, R. A. (2009) · Cell · doi:10.1016/j.cell.2008.12.038 · Cited by 993 · see citing works
Biogenesis, Turnover, and Mode of Action of Plant MicroRNAs
Rogers, K. M., & Chen, X. (2013) · The Plant Cell · doi:10.1105/tpc.113.113159 · Cited by 938 · see citing works
Histone methylation in transcriptional control
Kouzarides, T. (2002) · Current Opinion in Genetics & Development · doi:10.1016/s0959-437x(02)00287-3 · Cited by 908 · see citing works
Cold-induced silencing by long antisense transcripts of an Arabidopsis Polycomb target
Świeżewski, S., Liu, F., Magusin, A., & Dean, C. (2009) · Nature · doi:10.1038/nature08618 · Cited by 879 · see citing works
Epigenetic inheritance in plants
Henderson, I. R., & Jacobsen, S. E. (2007) · Nature · doi:10.1038/nature05917 · Cited by 838 · see citing works
Post-transcriptional small RNA pathways in plants: mechanisms and regulationsPreprint
Vaucheret, H. (2006) · Genes & Development · doi:10.1101/gad.1410506 · Cited by 754 · see citing works
A pathway for the biogenesis of trans -acting siRNAs in ArabidopsisPreprint
Yoshikawa, M., Peragine, A., Park, M. Y., & Poethig, R. S. (2005) · Genes & Development · doi:10.1101/gad.1352605 · Cited by 738 · see citing works
A Two-Hit Trigger for siRNA Biogenesis in Plants
Axtell, M. J., Jan, C. H., Rajagopalan, R. M., & Bartel, D. P. (2006) · Cell · doi:10.1016/j.cell.2006.09.032 · Cited by 664 · see citing works
Genome-Wide Demethylation of Arabidopsis Endosperm
Hsieh, T., Ibarra, C. A., Silva, P., Zemach, A., Williams, L. E., Fischer, R. L., & Zilberman, D. (2009) · Science · doi:10.1126/science.1172417 · Cited by 652 · see citing works
Ding, J., Lu, Q., Ouyang, Y., Mao, H., Zhang, P., Yao, J., Xu, C., Li, X., Xiao, J., & Zhang, Q. (2012) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.1121374109 · Cited by 642 · see citing works
DNA Methylation Mediated by a MicroRNA Pathway
Wu, L., Zhou, H., Zhang, Q., Zhang, J., Ni, F., Liu, C., & Qi, Y. (2010) · Molecular Cell · doi:10.1016/j.molcel.2010.03.008 · Cited by 638 · see citing works
Gasciolli, V., Mallory, A. C., Bartel, D. P., & Vaucheret, H. (2005) · Current Biology · doi:10.1016/j.cub.2005.07.024 · Cited by 629 · see citing works
Beyond Watson and Crick: DNA Methylation and Molecular Enzymology of DNA Methyltransferases
Jeltsch, A. (2002) · ChemBioChem · doi:10.1002/1439-7633(20020402)3:4 · Cited by 614 · see citing works
Vaucheret, H. (2008) · Trends in Plant Science · doi:10.1016/j.tplants.2008.04.007 · Cited by 597 · see citing works
Non-CG methylation patterns shape the epigenetic landscape in Arabidopsis
Stroud, H., Do, T., Du, J.-M., Zhong, X., Feng, S.-H., Johnson, L., Patel, D., & Jacobsen, S. (2013) · Nature Structural & Molecular Biology · doi:10.1038/nsmb.2735 · Cited by 589 · see citing works
Phased, Secondary, Small Interfering RNAs in Posttranscriptional Regulatory Networks
Fei, Q., Xia, R., & Meyers, B. C. (2013) · The Plant Cell · doi:10.1105/tpc.113.114652 · Cited by 557 · see citing works
Yousef-Yousef, M., Alba-Ramírez, C., Garrido‐Jurado, I., Mateu, J., Raya–Díaz, S., Valverde‐Garcia, P., & Quesada‐Moraga, E. (2018) · Frontiers in Plant Science · doi:10.3389/fpls.2018.00001 · Cited by 521 · see citing works
Genome-wide discovery and characterization of maize long non-coding RNAs
Li, L., Eichten, S. R., Shimizu, R., Petsch, K. A., Yeh, C., Wu, W., Chettoor, A. M., Givan, S. A., Cole, R. A., Fowler, J. E., et al. (2014) · Genome biology · doi:10.1186/gb-2014-15-2-r40 · Cited by 482 · see citing works
Antisense COOLAIR mediates the coordinated switching of chromatin states at FLC during vernalization
Csorba, T., Questa, J. I., Sun, Q., & Dean, C. (2014) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.1419030111 · Cited by 470 · see citing works
Novel long non-protein coding RNAs involved in Arabidopsis differentiation and stress responsesPreprint
Amor, B. B., Wirth, S. A., Merchán, F., Laporte, P., d’Aubenton-Carafa, Y., Hirsch, J., Maizel, A., Mallory, A. C., Lucas, A., Deragon, J., et al. (2008) · Genome Research · doi:10.1101/gr.080275.108 · Cited by 424 · see citing works
Sun, T.-T., He, J., Liang, Q., Ren, L.-L., Yan, T.-T., Yu, T.-C., Tang, J., Bao, Y.-J., Hu, Y., Lin, Y., et al. (2016) · Cancer Discovery · doi:10.1158/2159-8290.cd-15-0921 · Cited by 398 · see citing works
Erdmann, R. M., & Picard, C. L. (2020) · PLoS Genetics · doi:10.1371/journal.pgen.1009034 · Cited by 392 · see citing works
Local DNA hypomethylation activates genes in rice endosperm
Zemach, A., Kim, M. Y., Silva, P., Rodrigues, J. A., Dotson, B. R., Brooks, M. D., & Zilberman, D. (2010) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.1009695107 · Cited by 385 · see citing works
Zhao, X., Li, J., Lian, B., Gu, H., Li, Y., & Qi, Y. (2018) · Nature Communications · doi:10.1038/s41467-018-07500-7 · Cited by 372 · see citing works
Wang, H., Chung, P. J., Liu, J., Jang, I., Kean, M. J., Xu, J. Q., & Chua, N. (2014) · Genome Research · doi:10.1101/gr.165555.113 · Cited by 354 · see citing works
DEMETER and REPRESSOR OF SILENCING 1 encode 5-methylcytosine DNA glycosylases
Morales‐Ruíz, T., Ortega-Galisteo, A. P., Ponferrada-Marín, M. I., Martínez-Macías, M. I., Ariza, R. R., & Roldán‐Arjona, T. (2006) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.0601109103 · Cited by 346 · see citing works
Vernalization-Triggered Intragenic Chromatin Loop Formation by Long Noncoding RNAs
Kim, D., & Sung, S. (2017) · Developmental Cell · doi:10.1016/j.devcel.2016.12.021 · Cited by 328 · see citing works
Conserved sequence motifs in plant S-adenosyl-L-methionine-dependent methyltransferases
Joshi, C. P., & Chiang, V. L. (1998) · Plant Molecular Biology · doi:10.1023/a:1006035210889 · Cited by 326 · see citing works
miRNAs trigger widespread epigenetically activated siRNAs from transposons in Arabidopsis
Krainer, K. M. C., Zhai, J., Borges, F., Ex, F. V., Regulski, M., Meyers, B. C., & Martienssen, R. A. (2014) · Nature · doi:10.1038/nature13069 · Cited by 322 · see citing works
Clusters and superclusters of phased small RNAs in the developing inflorescence of ricePreprint
Johnson, C. S., Kasprzewska, A., Tennessen, K., Fernandes, J., Nan, G.-L., Walbot, V., Sundaresan, V., Vance, V. B., & Bowman, L. (2009) · Genome Research · doi:10.1101/gr.089854.108 · Cited by 294 · see citing works
R-Loop Mediated trans Action of the APOLO Long Noncoding RNA
Ariel, F., Lucero, L. E., Christ, A., Mammarella, M. F., Jégu, T., Veluchamy, A., Mariappan, K. G., Latrasse, D., Blein, T., Liu, C., et al. (2020) · Molecular Cell · doi:10.1016/j.molcel.2019.12.015 · Cited by 291 · see citing works
Wang, Y., Luo, X., Sun, F., Hu, J., Zha, X., Su, W., & Yang, J. (2018) · Nature Communications · doi:10.1038/s41467-018-05829-7 · Cited by 262 · see citing works
He, X., Hsu, Y. Y., Zhu, S., Wierzbicki, A. T., Pontes, O., Pikaard, C. S., Liu, H., Wang, C., Jin, H., & Zhu, J. (2009) · Cell · doi:10.1016/j.cell.2009.04.028 · Cited by 254 · see citing works
Lelandais‐Brière, C., Naya, L., Sallet, E., Calenge, F., Frugier, F., Hartmann, C., Gouzy, J., & Crespi, M. D. (2009) · The Plant Cell · doi:10.1105/tpc.109.068130 · Cited by 252 · see citing works
RNA-directed DNA methylation in Arabidopsis
Aufsatz, W., Mette, M. F., van der Winden, J., Matzke, A. J. M., & Matzke, M. A. (2002) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.162371499 · Cited by 249 · see citing works
Jain, A. K., Xi, Y., McCarthy, R. L., Allton, K. L., Akdemir, K. C., Patel, L. R., Aronow, B. J., Lin, C., Li, W., Yang, L., et al. (2016) · Molecular Cell · doi:10.1016/j.molcel.2016.10.039 · Cited by 243 · see citing works
Law, J. A., Vashisht, A., Wohlschlegel, J., & Jacobsen, S. (2011) · PLoS Genetics · doi:10.1371/journal.pgen.1002195 · Cited by 233 · see citing works
International Conference on Pervasive Computing
(2002) · Computers & Graphics · doi:10.1016/s0097-8493(02)00074-2 · Cited by 218 · see citing works
A SWI/SNF Chromatin-Remodeling Complex Acts in Noncoding RNA-Mediated Transcriptional Silencing
Zhu, Y., Rowley, M. J., Böhmdorfer, G., & Wierzbicki, A. T. (2012) · Molecular Cell · doi:10.1016/j.molcel.2012.11.011 · Cited by 209 · see citing works
Roles and Programming of Arabidopsis ARGONAUTE Proteins during Turnip Mosaic Virus Infection
García-Ruíz, H., Carbonell, A., Hoyer, J. S., Fahlgren, N., Gilbert, K. B., Takeda, A., Giampetruzzi, A., Ruiz, M. T. G., McGinn, M. G., Lowery, N., et al. (2015) · PLoS Pathogens · doi:10.1371/journal.ppat.1004755 · Cited by 206 · see citing works
Wei, L., Gu, L.-F., Song, X.-W., Cui, X.-K., Lu, Z.-K., Zhou, M., Wang, L.-L., Hu, F., Zhai, J., Meyers, B., et al. (2014) · Proceedings of the National Academy of Sciences of the United States of America · doi:10.1073/pnas.1318131111 · Cited by 203 · see citing works
Jiang, D., Kong, N. C., Gu, X., Li, Z., & He, Y. (2011) · PLoS Genetics · doi:10.1371/journal.pgen.1001330 · Cited by 191 · see citing works
Dynamics and Context-Dependent Roles of DNA Methylation
Ambrosi, C. M., Manzo, M., & Baubec, T. (2017) · Journal of Molecular Biology · doi:10.1016/j.jmb.2017.02.008 · Cited by 184 · see citing works
siRNAs from miRNA sites mediate DNA methylation of target genes
Chellappan, P., Xia, J., Zhou, X., Gao, S., Zhang, X., Coutino, G., Vazquez, F., Zhang, W., & Jin, H. (2010) · Nucleic Acids Research · doi:10.1093/nar/gkq590 · Cited by 176 · see citing works
Long Non-coding RNA in Plants in the Era of Reference Sequences
Budak, H., Kaya, S., & Cagirici, H. B. (2020) · Frontiers in Plant Science · doi:10.3389/fpls.2020.00276 · Cited by 163 · see citing works
Post-transcriptional control of DGCR8 expression by the Microprocessor
Triboulet, R., Chang, H.-M., LaPierre, R. J., & Gregory, R. I. (2009) · RNA · doi:10.1261/rna.1591709 · Cited by 146 · see citing works
Evolution and function of genomic imprinting in plantsPreprint
Rodrigues, J. A., & Zilberman, D. (2015) · Genes & Development · doi:10.1101/gad.269902.115 · Cited by 143 · see citing works
A Dicer-Independent Route for Biogenesis of siRNAs that Direct DNA Methylation in Arabidopsis
Ye, R., Chen, Z., Lian, B., Rowley, M. J., Xia, N., Chai, J., Li, Y., He, X., Wierzbicki, A. T., & Qi, Y. (2015) · Molecular Cell · doi:10.1016/j.molcel.2015.11.015 · Cited by 142 · see citing works
Wu, L., Mao, L., & Qi, Y. (2012) · PLANT PHYSIOLOGY · doi:10.1104/pp.112.200279 · Cited by 137 · see citing works
Redfern, A. D., Colley, S. M., Beveridge, D. J., Ikeda, N., Epis, M. R., Li, X., Foulds, C. E., Stuart, L. M., Barker, A. J., Russell, V. J., et al. (2013) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.1301620110 · Cited by 129 · see citing works
Genetic Interactions between DNA Demethylation and Methylation in Arabidopsis
Penterman, J. N., Uzawa, R., & Fischer, R. L. (2007) · PLANT PHYSIOLOGY · doi:10.1104/pp.107.107730 · Cited by 123 · see citing works
IDN1 and IDN2 are required for de novo DNA methylation in Arabidopsis thaliana
Ausín, I., Mockler, T. C., Chory, J., & Jacobsen, S. E. (2009) · Nature Structural & Molecular Biology · doi:10.1038/nsmb.1690 · Cited by 108 · see citing works
Drosha in Primary MicroRNA ProcessingPreprint
Lee, Y., Han, J., Yeom, K., Jin, H., & Kim, V. N. (2006) · Cold Spring Harbor Symposia on Quantitative Biology · doi:10.1101/sqb.2006.71.041 · Cited by 107 · see citing works
Biogenesis and regulatory hierarchy of phased small interfering RNAs in plants
Deng, P., Muhammad, S., Cao, M., & Wu, L. (2018) · Plant Biotechnology Journal · doi:10.1111/pbi.12882 · Cited by 101 · see citing works
The parent-of-origin lncRNA MISSEN regulates rice endosperm development
Zhou, Y.-F., Zhang, Y., Sun, Y., Yu, Y., Lei, M.-Q., Yang, Y., Lian, J., Feng, Y., Zhang, Z., Yang, L., et al. (2021) · Nature Communications · doi:10.1038/s41467-021-26795-7 · Cited by 100 · see citing works
Active DNA Demethylation in Plants
Parrilla-Doblas, J. T., Roldán‐Arjona, T., Ariza, R. R., & Córdoba‐Cañero, D. (2019) · International Journal of Molecular Sciences · doi:10.3390/ijms20194683 · Cited by 94 · see citing works
21-nt phasiRNAs direct target mRNA cleavage in rice male germ cells
Jiang, P., Lian, B., Liu, C., Fu, Z., Shen, Y. X., Cheng, Z., & Qi, Y. (2020) · Nature Communications · doi:10.1038/s41467-020-19034-y · Cited by 94 · see citing works
R-loops at microRNA encoding loci promote co-transcriptional processing of pri-miRNAs in plants
Gonzalo, L., Tossolini, I., Gulanicz, T., Cambiagno, D. A., Kasprowicz‐Maluśki, A., Smoliński, D. J., Mammarella, M. F., Ariel, F., Marquardt, S., Szweykowska-Kulińska, Z., et al. (2022) · Nature Plants · doi:10.1038/s41477-022-01125-x · Cited by 88 · see citing works
Dynamic Regulation of ARGONAUTE4 within Multiple Nuclear Bodies in Arabidopsis thaliana
Li, C. F., Henderson, I. R., Song, L., Fedoroff, N. V., Lagrange, T., & Jacobsen, S. E. (2008) · PLoS Genetics · doi:10.1371/journal.pgen.0040027 · Cited by 85 · see citing works
Epigenetic memory marks determine epiallele stability at loci targeted by de novo DNA methylation
Li, J., Yang, D., Huang, H., Zhang, G., He, L. S., Pang, J., Lozano‐Durán, R., Lang, Z., & Zhu, J. (2020) · Nature Plants · doi:10.1038/s41477-020-0671-x · Cited by 84 · see citing works
Involvement of a GHKL ATPase in RNA-Directed DNA Methylation in Arabidopsis thaliana
Lorković, Z. J., Naumann, U., Matzke, A. J. M., & Matzke, M. A. (2012) · Current Biology · doi:10.1016/j.cub.2012.03.061 · Cited by 84 · see citing works
Control of 1D parabolic PDEs with Volterra nonlinearities, Part II: Analysis
Vázquez, R., & Krstić, M. (2008) · Automatica · doi:10.1016/j.automatica.2008.04.007 · Cited by 80 · see citing works
A novel Transposable element‐derived microRNA participates in plant immunity to rice blast disease
Campo, S., Sánchez‐Sanuy, F., Camargo‐Ramírez, R., Gómez‐Ariza, J., Baldrich, P., Campos‐Soriano, L., Suárez, M. S., & Segundo, B. S. (2021) · Plant Biotechnology Journal · doi:10.1111/pbi.13592 · Cited by 79 · see citing works
Shin, J., & Chekanova, J. A. (2014) · PLoS Genetics · doi:10.1371/journal.pgen.1004612 · Cited by 75 · see citing works
Integrated annotations and analyses of small RNA–producing loci from 47 diverse plantsPreprint
Lunardon, A., Johnson, N., Hagerott, E., Phifer, T., Polydore, S., Çoruh, C., & Axtell, M. J. (2020) · Genome Research · doi:10.1101/gr.256750.119 · Cited by 75 · see citing works
A Novel LncRNA, MuLnc1, Associated With Environmental Stress in Mulberry (Morus multicaulis)
Gai, Y., Yuan, S., Zhao, Y., Zhao, H.-N., Zhang, H.-L., & Ji, X. (2018) · Frontiers in Plant Science · doi:10.3389/fpls.2018.00669 · Cited by 70 · see citing works
The lncRNA MARS modulates the epigenetic reprogramming of the marneral cluster in response to ABA
Roulé, T., Christ, A., Hussain, N., Huang, Y., Hartmann, C., Benhamed, M., Gutierrez‐Marcos, J., Ariel, F., Crespi, M. D., & Blein, T. (2022) · Molecular Plant · doi:10.1016/j.molp.2022.02.007 · Cited by 66 · see citing works
Wang, T., Xing, J., Liu, Z., Zheng, M., Yao, Y., Hu, Z., Peng, H., Xin, M., Zhou, D., & Ni, Z. (2019) · Journal of Experimental Botany · doi:10.1093/jxb/erz359 · Cited by 66 · see citing works
You, C., He, W., Hang, R., Zhang, C., Cao, X., Guo, H., Chen, X., Cui, J., & Mo, B. (2019) · Nature Communications · doi:10.1038/s41467-019-12379-z · Cited by 65 · see citing works
Ma, Y., Chai, N., Jiang, Q., Chang, Z., Chai, Y., Li, X., Sun, H., Hou, J., & Linghu, E. (2020) · Pharmacological Research · doi:10.1016/j.phrs.2020.105071 · Cited by 63 · see citing works
Novel Meiotic miRNAs and Indications for a Role of PhasiRNAs in Meiosis
Dukowic‐Schulze, S., Sundararajan, A., Ramaraj, T., Kianian, S. F., Pawlowski, W. P., Mudge, J., & Chen, C. (2016) · Frontiers in Plant Science · doi:10.3389/fpls.2016.00762 · Cited by 63 · see citing works
Actions of plant Argonautes: predictable or unpredictable?
Ma, Z., & Zhang, X. (2018) · Current Opinion in Plant Biology · doi:10.1016/j.pbi.2018.05.007 · Cited by 62 · see citing works
Kumari, P., Khan, S. A., Wani, I. A., Gupta, R., Verma, S., Alam, P., & Alaklabi, A. (2022) · Frontiers in Genetics · doi:10.3389/fgene.2022.819941 · Cited by 59 · see citing works
Borges, F., Donoghue, M. T. A., LeBlanc, C., Wear, E. E., Tanurdžić, M., Berube, B., Brooks, A. M., Thompson, W. F., Hanley-Bowdoin, L. K., & Martienssen, R. A. (2020) · Current Biology · doi:10.1016/j.cub.2020.10.098 · Cited by 58 · see citing works
Plant ARGONAUTEs: Features, Functions, and Unknowns
Carbonell, A. (2017) · Methods in molecular biology · doi:10.1007/978-1-4939-7165-7_1 · Cited by 57 · see citing works
Blocking Osa‐miR1871 enhances rice resistance against Magnaporthe oryzae and yield
Li, Y., Li, T., He, X., Zhu, Y. L., Feng, Q., Yang, X., Zhou, X., Li, G., Ji, Y., Zhao, J., et al. (2021) · Plant Biotechnology Journal · doi:10.1111/pbi.13743 · Cited by 54 · see citing works
Zubko, E., Gentry, M., Kunova, A., & Meyer, P. (2012) · The Plant Journal · doi:10.1111/j.1365-313x.2012.05051.x · Cited by 53 · see citing works
Pradhan, M., Pandey, P., Baldwin, I. T., & Pandey, S. P. (2020) · PLANT PHYSIOLOGY · doi:10.1104/pp.20.00171 · Cited by 53 · see citing works
When junk DNA turns functional: transposon-derived non-coding RNAs in plants
Ariel, F., & Manavella, P. A. (2021) · Journal of Experimental Botany · doi:10.1093/jxb/erab073 · Cited by 53 · see citing works
RNA-directed DNA methylation in plants
Movahedi, A., Sun, W., Zhang, J., Wu, X., Mousavi, M., Mohammadi, K., Yin, T., & Zhuge, Q. (2015) · Plant Cell Reports · doi:10.1007/s00299-015-1839-0 · Cited by 52 · see citing works
miR3954 is a trigger of phasi RNA s that affects flowering time in citrus
Liu, Y., Ke, L., Wu, G., Xu, Y., Wu, X., Xia, R., Deng, X., & Xu, Q. (2017) · The Plant Journal · doi:10.1111/tpj.13650 · Cited by 51 · see citing works
LncRNAs: genetic and epigenetic effects in plants
Karlık, E., Arı, Ş., & Gözükırmızı, N. (2019) · Biotechnology & Biotechnological Equipment · doi:10.1080/13102818.2019.1581085 · Cited by 51 · see citing works
Arabidopsis MORC proteins function in the efficient establishment of RNA directed DNA methylation
Xue, Y., Zhong, Z., Harris, C. J., Gallego‐Bartolomé, J., Wang, M., Picard, C. L., Cao, X., Hua, S., Kwok, I. Y., Feng, S., et al. (2021) · Nature Communications · doi:10.1038/s41467-021-24553-3 · Cited by 51 · see citing works
Histone H1 prevents non-CG methylation-mediated small RNA biogenesis in Arabidopsis heterochromatin
Choi, J., Lyons, D. B., & Zilberman, D. (2021) · eLife · doi:10.7554/elife.72676 · Cited by 50 · see citing works
Wang, Y., Fan, Y., Fan, D., Zhou, X., Jiao, Y., Deng, X. W., & Zhu, D. (2022) · The Plant Cell · doi:10.1093/plcell/koac334 · Cited by 50 · see citing works
Dou, K., Huang, C., Ma, Z., Zhang, C., Zhou, J.-X., Huang, H.-W., Cai, T., Tang, K., Zhu, J., & He, X. (2013) · Nucleic Acids Research · doi:10.1093/nar/gkt639 · Cited by 46 · see citing works
Azizi, P., Hanafi, M. M., Sahebi, M., Harikrishna, J. A., Taheri, S., Yassoralipour, A., & Nasehi, A. (2020) · Functional Plant Biology · doi:10.1071/fp19077 · Cited by 46 · see citing works
Plant siRNAs from introns mediate DNA methylation of host genes
Chen, D., Meng, Y., Yuan, C., Bai, L., Huang, D., Lv, S., Wu, P., Chen, L., & Chen, M. (2011) · RNA · doi:10.1261/rna.2589011 · Cited by 45 · see citing works
Small RNA-mediated DNA methylation during plant reproduction
Chow, H. T., & Mosher, R. A. (2023) · The Plant Cell · doi:10.1093/plcell/koad010 · Cited by 45 · see citing works
Wang, F., & Axtell, M. J. (2016) · The Plant Journal · doi:10.1111/tpj.13463 · Cited by 44 · see citing works
Epigenetic marks for mitigating abiotic stresses in plants
Ali, S., Khan, N., & Tang, Y. (2022) · Journal of Plant Physiology · doi:10.1016/j.jplph.2022.153740 · Cited by 38 · see citing works
Self-citationRNA ‐based regulation of transposon expression
Gebert, D., & Rosenkranz, D. (2015) · Wiley Interdisciplinary Reviews - RNA · doi:10.1002/wrna.1310 · Cited by 37 · see citing works
RNA-directed DNA methylation in plants
Zhang, H., He, X., & Zhu, J. (2013) · RNA Biology · doi:10.4161/rna.26312 · Cited by 35 · see citing works
Prevalent cytidylation and uridylation of precursor miRNAs in Arabidopsis
Song, J., Wang, X., Song, B., Gao, L., Mo, X., Yue, L., Yang, H., Lu, J., Ren, G., Mo, B., et al. (2019) · Nature Plants · doi:10.1038/s41477-019-0562-1 · Cited by 35 · see citing works
Broad noncoding transcription suggests genome surveillance by RNA polymerase V
Tsuzuki, M., Sethuraman, S., Coke, A. N., Rothi, M. H., Boyle, A. P., & Wierzbicki, A. T. (2020) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.2014419117 · Cited by 34 · see citing works
Ren, Y., Song, Y. Q., Zhang, L., Guo, D., He, J., Wang, L., Song, S., Xu, W., Zhang, C., Lers, A., et al. (2021) · Frontiers in Plant Science · doi:10.3389/fpls.2021.641351 · Cited by 33 · see citing works
Ubiquitylome analysis reveals the involvement of ubiquitination in the bast fiber growth of ramie
He, Q., Zeng, Z., Li, F., Huang, R., Wang, Y., & Liu, T. (2021) · Planta · doi:10.1007/s00425-021-03652-x · Cited by 33 · see citing works
Generation and characterization of a tomato DCL3-silencing mutant
Kravchik, M., Damodharan, S., Stav, R., & Arazi, T. (2014) · Plant Science · doi:10.1016/j.plantsci.2014.02.007 · Cited by 31 · see citing works
Functional characterization of Arabidopsis ARGONAUTE 3 in reproductive tissues
Jullien, P. E., Grob, S., Marchais, A., Pumplin, N., Chevalier, C., Bonnet, D. M. V., Otto, C., Schott, G., & Voinnet, O. (2020) · The Plant Journal · doi:10.1111/tpj.14868 · Cited by 29 · see citing works
MicroRNA mediates DNA methylation of target genes
Hu, W., Wang, T., Xu, J., & Li, H. (2014) · Biochemical and Biophysical Research Communications · doi:10.1016/j.bbrc.2014.01.171 · Cited by 28 · see citing works
Sanobar, N., Lin, P.-C., Pan, Z.-J., Fang, R.-Y., Tjita, V., Chen, F., Wang, H., Tsai, H.-L., Wu, S., Shen, T., et al. (2021) · Viruses · doi:10.3390/v13091837 · Cited by 28 · see citing works
Alonso, C., Medrano, M., Pérez, R., Canto, A., Parra‐Tabla, V., & Herrera, C. M. (2019) · New Phytologist · doi:10.1111/nph.16046 · Cited by 28 · see citing works
Transposon Reactivation in the Germline May Be Useful for Both Transposons and Their Host Genomes
Maupetit‐Mehouas, S., & Vaury, C. (2020) · Cells · doi:10.3390/cells9051172 · Cited by 28 · see citing works
MicroRNA-mediated DNA methylation in plants
Jia, X., Yan, J., & Tang, G. (2011) · Frontiers in Biology · doi:10.1007/s11515-011-1136-4 · Cited by 25 · see citing works
miRNAting control of DNA methylation
Jha, A., & Shankar, R. (2014) · Journal of Biosciences · doi:10.1007/s12038-014-9437-9 · Cited by 23 · see citing works
Structure and Mechanism of Plant DNA Methyltransferases
Leichter, S. M., Du, J., & Zhong, X. (2022) · Advances in experimental medicine and biology · doi:10.1007/978-3-031-11454-0_6 · Cited by 23 · see citing works
RNA Splicing Factors and RNA-Directed DNA Methylation
Huang, C., & Zhu, J. (2014) · Biology · doi:10.3390/biology3020243 · Cited by 22 · see citing works
Wang, W., Zhang, T., Liu, C., Liu, C., Jiang, Z., Zhang, Z., Ali, S., Li, Z., Wang, J., Sun, S., et al. (2024) · Communications Biology · doi:10.1038/s42003-024-06306-2 · Cited by 20 · see citing works
Self-citationSmall RNA pathways responsible for non-cell-autonomous regulation of plant reproduction
Nonomura, K. (2018) · Plant Reproduction · doi:10.1007/s00497-018-0321-x · Cited by 20 · see citing works
Epigenetic modification associated with climate regulates betulin biosynthesis in birch
Wang, J., Chen, B., Ali, S., Zhang, T., Wang, Y., Zhang, H., Wang, L., Zhang, Y., Xie, L., Jiang, T., et al. (2021) · Journal of Forestry Research · doi:10.1007/s11676-021-01424-7 · Cited by 19 · see citing works
Self-citationBaljinnyam, T., Sowers, M. L., Hsu, C. W., Conrad, J. W., Herring, J. L., Hackfeld, L. C., & Sowers, L. C. (2022) · PLoS ONE · doi:10.1371/journal.pone.0273509 · Cited by 19 · see citing works
DNA Methylation in Plants by microRNAs
Teotia, S., Singh, D., & Tang, G. (2017) · RNA technologies · doi:10.1007/978-3-319-55520-1_13 · Cited by 14 · see citing works
DNA methylation in Marchantia polymorpha
Aguilar‐Cruz, A., Grimanelli, D., Haseloff, J. P., & Arteaga-Vazquez, M. A. (2019) · New Phytologist · doi:10.1111/nph.15818 · Cited by 12 · see citing works
Wang, B., Liu, J., Chu, L., Jing, X., Wang, H., Guo, J., & Yi, B. (2019) · International Journal of Molecular Sciences · doi:10.3390/ijms20184478 · Cited by 11 · see citing works
Loss of chromatin remodeler DDM1 causes segregation distortion in Arabidopsis thaliana
Ali, S., Zhang, T., Lambing, C., Wang, W., Zhang, P., Xie, L., Wang, J., Khan, N., & Zhang, Q. (2021) · Planta · doi:10.1007/s00425-021-03763-5 · Cited by 10 · see citing works
Self-citationClimate‐related naturally occurring epimutation and their roles in plant adaptation in A. thaliana
Chen, B., Wang, M., Guo, Y., Zhang, Z., Zhou, W., Cao, L., Zhang, T., Ali, S., Xie, L., Li, Y., et al. (2024) · Molecular Ecology · doi:10.1111/mec.17356 · Cited by 8 · see citing works
Self-citationGrowing Diversity of Plant MicroRNAs and MIR-Derived Small RNAs
Gozmanova, M., Baev, V., Apostolova, E., Sablok, G., & Yahubyan, G. T. (2017) · RNA technologies · doi:10.1007/978-3-319-55520-1_3 · Cited by 7 · see citing works
León‐Ruiz, J. A., Espinal‐Centeno, A., Blilou, I., Scheres, B., Arteaga-Vazquez, M. A., & Cruz‐Ramírez, A. (2023) · Planta · doi:10.1007/s00425-023-04135-x · Cited by 5 · see citing works
Qin, J., Ma, X., Yi, Z., Meng, Y., & Tang, Z. (2015) · Journal of Experimental Botany · doi:10.1093/jxb/eru542 · Cited by 4 · see citing works
Flagged first, then by citations
Cited by
Sorted by citations
Somaclonal Variation and Clonal Fidelity in Commercial Micropropagation: Challenges and Perspectives
Majumder, S., Igamberdiev, A. U., & Debnath, S. C. (2025) · Agronomy · doi:10.3390/agronomy15061489 · Cited by 46 · see citing works
Adapting Crops to Rising Temperatures: Understanding Heat Stress and Plant Resilience Mechanisms
Kumar, A., Muthuramalingam, P., Kumar, R., Tiwari, S., Verma, L., Park, S., & Shin, H. (2025) · International Journal of Molecular Sciences · doi:10.3390/ijms262110426 · Cited by 31 · see citing works
Nishanth, J. B., Gaddala, B., Somasundaram, S., Fathima, P. R., Premkumar, A., Karavadi, B., Kumar, R. S. A. S., Iyyappan, J., & Dinakarkumar, Y. (2025) · Discover Plants. · doi:10.1007/s44372-025-00432-9 · Cited by 14 · see citing works
Small RNA and Epigenetic Control of Plant Immunity
Wagh, S. G., Patil, A. M., Patil, G. B., Mankar, S. P., Rastogi, K., & Nishiguchi, M. (2025) · DNA · doi:10.3390/dna5040047 · Cited by 11 · see citing works
MicroRNAs‐mediated heat stress regulations in plants: Mechanisms and targets
Farooq, M. A., Tanveer, H., Rehman, H. M., Cheema, R. A., Nawaz, S., Ijaz, A., Arif, M., & Lam, H. (2025) · The Plant Genome · doi:10.1002/tpg2.70112 · Cited by 11 · see citing works
Das, A., & Adak, M. K. (2025) · Journal of Plant Growth Regulation · doi:10.1007/s00344-025-11791-8 · Cited by 9 · see citing works
Dedifferentiation and redifferentiation: the developing cell fate transition of plants
Maqbool, A., Lu, M., Muhammad, N., Baz, N. M., Liu, M., Liu, Z., & Wang, L. (2025) · Horticultural Plant Journal · doi:10.1016/j.hpj.2025.08.005 · Cited by 9 · see citing works
Regulation of Plant Genes with Exogenous RNAs
Dubrovina, A. S., Suprun, A. R., & Kiselev, K. V. (2025) · International Journal of Molecular Sciences · doi:10.3390/ijms26146773 · Cited by 8 · see citing works
Alhammad, B. A., Zafar, M. M., Alasimi, S. M., & Seleiman, M. F. (2026) · Plant Cell Reports · doi:10.1007/s00299-026-03771-3 · Cited by 4 · see citing works
Xiao, J., Huang, Y., Cao, W., Liu, Q., Long, J., & Gu, R. (2025) · Industrial Crops and Products · doi:10.1016/j.indcrop.2025.121034 · Cited by 3 · see citing works
Long non-coding RNAs in plant secondary metabolite biosynthesis: mechanisms and applications
Li, H., Yang, N., Zhang, H., & Xu, D. (2025) · Phytomedicine · doi:10.1016/j.phymed.2025.157710 · Cited by 2 · see citing works
From chromatin to crop: epigenetic innovations in bioenergy systems
Vela, S., & Steadman, C. R. (2026) · Frontiers in Plant Science · doi:10.3389/fpls.2025.1687164 · Cited by 2 · see citing works
Mechanisms of Trichoderma-induced plant immunity: An RNA-epigenetic perspective
Dong, Y., & Ahammed, G. J. (2026) · Plant Science · doi:10.1016/j.plantsci.2026.113030 · Cited by 2 · see citing works
Small RNAs as systemic signals in plant defense: mechanisms, challenges, and future directions
Wekesa, C., Kiprotich, K., Muoma, J. V. O., & Mithöfer, A. (2026) · Molecular Biology Reports · doi:10.1007/s11033-026-11817-8 · Cited by 2 · see citing works
MicroRNA regulation in sugarcane: Biological functions and breeding perspectives
Wang, M., Li, A.-M., Liao, F., Qin, C.-X., Chen, Z.-L., Zhou, L., Pan, Y.-Q., & Huang, D. (2025) · Industrial Crops and Products · doi:10.1016/j.indcrop.2025.122508 · Cited by 1 · see citing works
Junaid, M. D., Iqbal, M. S., Nasir, M. W., & Akhter, M. W. (2026) · Frontiers in Epigenetics and Epigenomics · doi:10.3389/freae.2026.1827933 · Cited by 1 · see citing works
Panahi, B., Holasou, H. A., Hamid, R., Shahriari, A. G., & Ghorbanzadeh, Z. (2026) · Current Plant Biology · doi:10.1016/j.cpb.2026.100624 · Cited by 1 · see citing works
Gene Expression Regulation of Plants Under Stress Conditions
Bibi, H., Rasheed, T., Iqbal, J., Abbasi, B. A., Anas, M., & Zahra, S. A. (2025) · CABI eBooks · doi:10.1079/9781800628823.0003
Singh, R., Dash, S. S., & Kumar, V. S. (2026) · Plant Molecular Biology Reporter · doi:10.1007/s11105-025-01666-3
Genetic and epigenetic mechanisms underlying cadmium (Cd) stress responses in soybean cultivars
Ali, S., Huang, Y., Khan, R., Khan, K., Chi, Y. X., Shah, M. A., Naseer, M. A., Ahmad, H., Chen, W. J., & Zhou, X. B. (2026) · Plant Cell Reports · doi:10.1007/s00299-026-03770-4
Self-citationCRISPR-tool box and its applications in tomato: From stress resilience to trait improvement
Reddy, C. S., Patel, V., Kondala, S., Alavalapati, T., Gracia-Rodriguez, C., & Reddy, U. K. (2026) · Plant Stress · doi:10.1016/j.stress.2026.101432
Ibrahim, K. S., Praveena, V., Lavanya, M., Prabakaran, R., Thirumurugan, T., Trisha, S. S., Fathima, S. A. N., & Anand, A. V. (2026) · CABI biotechnology series. · doi:10.1079/9781836994572.0016
ZHANG, Y., Feng, C., Xia, S., Wang, Q., Niu, L., Wang, X., & Jiaohai, Z. (2026) · Plant Stress · doi:10.1016/j.stress.2026.101488
MicroRNA Gatekeepers: Integrating Growth, Development, and Stress Adaptation in Cotton
Li, J., Wang, X., Qin, J., Wu, Y., Wei, M., Li, C., & Jia, Y. (2026) · Plants · doi:10.3390/plants15213268
- Authors
- Ali, S., & Tang, Y.
- Affiliations
- Guangxi University (CN)
- Shenzhen University (CN)
- Corresponding author
- Tang, Yulin
- ORCID
- Tang, Yulin
- Venue
- Journal of Plant Growth Regulation
- Published
- 2024-09-26
- Volume
- 44
- Issue
- 2
- Pages
- 373-388
- ISSN
- 0721-7595 (ISSN-L)
- 1435-8107
- OpenAlex
- W4402840717
- Cited by
- 24
- References
- 134
- Citations by year
- 2026: 12 · 2025: 12
- FWCI
- 3.27
- Type
- journal article
- Language
- en
- Open access
- closed
- Licence
- Locations
- Journal of Plant Growth Regulation (publishedVersion)
- Topics
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Epigenetics and DNA Methylation
- Life Sciences › Agricultural and Biological Sciences › Plant Science › Plant Molecular Biology Research
- Life Sciences › Agricultural and Biological Sciences › Plant Science › Chromosomal and Genetic Variations
- Keywords
- DNA methylation, non-coding RNA, long non-coding RNA, siRNA, microRNA, plant epigenetics, DNA methyltransferases, heterochromatin, genome stability, chromatin structure, stress response, plant development
About these checks
Registry, retraction, Cites and statistics results are computed, not judged, with one exception: a printed reference that no index lists is read once by a model before it counts as a citation error. Claims are extracted by a model and kept only when their quote appears verbatim in the text; each cited source is then checked, with a model’s help, for whether it says what the claim relies on. Those verdicts can be wrong — read the claim’s quote and the cited source before relying on one.
Statistics and arithmetic are recomputed, not judged.
Confidence bands are shown only for fields calibrated on our annotated test set. None is calibrated yet, so no band is shown.
What counts as a claim ›How we measure confidence ›How we check this ›
Are you an author, or do you see a problem with this page? Request a review