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For: Liang Z, Anderson SN, Noshay JM, Crisp PA, Enders TA, Springer NM. Genetic and epigenetic variation in transposable element expression responses to abiotic stress in maize. Plant Physiol 2021;186:420-433. [PMID: 33591319 PMCID: PMC8154091 DOI: 10.1093/plphys/kiab073] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/30/2020] [Accepted: 02/05/2021] [Indexed: 06/12/2023]
Number Cited by Other Article(s)
1
Xiao Y, Wang J. Understanding the Regulation Activities of Transposons in Driving the Variation and Evolution of Polyploid Plant Genome. PLANTS (BASEL, SWITZERLAND) 2025;14:1160. [PMID: 40284048 PMCID: PMC12030055 DOI: 10.3390/plants14081160] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/07/2025] [Revised: 04/04/2025] [Accepted: 04/07/2025] [Indexed: 04/29/2025]
2
Zhang D, Gan Y, Le L, Pu L. Epigenetic variation in maize agronomical traits for breeding and trait improvement. J Genet Genomics 2025;52:307-318. [PMID: 38310944 DOI: 10.1016/j.jgg.2024.01.006] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/04/2023] [Revised: 01/28/2024] [Accepted: 01/29/2024] [Indexed: 02/06/2024]
3
Catlin NS, Agha HI, Platts AE, Munasinghe M, Hirsch CN, Josephs EB. Structural Variants Contribute to Phenotypic Variation in Maize. Mol Ecol 2025:e17662. [PMID: 39945381 DOI: 10.1111/mec.17662] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/01/2024] [Revised: 12/04/2024] [Accepted: 12/31/2024] [Indexed: 02/19/2025]
4
Catlin NS, Agha HI, Platts AE, Munasinghe M, Hirsch CN, Josephs EB. Structural variants contribute to phenotypic variation in maize. BIORXIV : THE PREPRINT SERVER FOR BIOLOGY 2024:2024.06.14.599082. [PMID: 38948717 PMCID: PMC11212879 DOI: 10.1101/2024.06.14.599082] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 07/02/2024]
5
Nadal-Molero F, Rosselli R, Garcia-Juan S, Campos-Lopez A, Martin-Cuadrado AB. Unveiling host-parasite relationships through conserved MITEs in prokaryote and viral genomes. Nucleic Acids Res 2024;52:13094-13109. [PMID: 39470691 PMCID: PMC11602168 DOI: 10.1093/nar/gkae906] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/19/2024] [Revised: 08/27/2024] [Accepted: 10/01/2024] [Indexed: 10/30/2024]  Open
6
Zeng R, Zhang X, Song G, Lv Q, Li M, Fu D, Zhang Z, Gao L, Zhang S, Yang X, Tian F, Yang S, Shi Y. Genetic variation in the aquaporin TONOPLAST INTRINSIC PROTEIN 4;3 modulates maize cold tolerance. PLANT BIOTECHNOLOGY JOURNAL 2024;22:3037-3050. [PMID: 39024420 PMCID: PMC11500999 DOI: 10.1111/pbi.14426] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/02/2024] [Revised: 06/18/2024] [Accepted: 06/25/2024] [Indexed: 07/20/2024]
7
Liang Z, Meng X, Schnable JC. A Transferable Machine Learning Framework for Predicting Transcriptional Responses of Genes Across Species. Methods Mol Biol 2023;2698:361-379. [PMID: 37682485 DOI: 10.1007/978-1-0716-3354-0_21] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 09/09/2023]
8
Liang Z, Myers ZA, Petrella D, Engelhorn J, Hartwig T, Springer NM. Mapping responsive genomic elements to heat stress in a maize diversity panel. Genome Biol 2022;23:234. [PMID: 36345007 PMCID: PMC9639295 DOI: 10.1186/s13059-022-02807-7] [Citation(s) in RCA: 10] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/20/2022] [Accepted: 10/29/2022] [Indexed: 11/09/2022]  Open
9
Klein SP, Anderson SN. The evolution and function of transposons in epigenetic regulation in response to the environment. CURRENT OPINION IN PLANT BIOLOGY 2022;69:102277. [PMID: 35961279 DOI: 10.1016/j.pbi.2022.102277] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/14/2022] [Revised: 06/21/2022] [Accepted: 07/07/2022] [Indexed: 06/15/2023]
10
Sun M, Yang Z, Liu L, Duan L. DNA Methylation in Plant Responses and Adaption to Abiotic Stresses. Int J Mol Sci 2022;23:ijms23136910. [PMID: 35805917 PMCID: PMC9266845 DOI: 10.3390/ijms23136910] [Citation(s) in RCA: 62] [Impact Index Per Article: 20.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/22/2022] [Revised: 06/11/2022] [Accepted: 06/15/2022] [Indexed: 02/07/2023]  Open
11
Multi-omics data integration reveals link between epigenetic modifications and gene expression in sugar beet (Beta vulgaris subsp. vulgaris) in response to cold. BMC Genomics 2022;23:144. [PMID: 35176993 PMCID: PMC8855596 DOI: 10.1186/s12864-022-08312-2] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/29/2021] [Accepted: 01/13/2022] [Indexed: 12/19/2022]  Open
12
Chen Z, Galli M, Gallavotti A. Mechanisms of temperature-regulated growth and thermotolerance in crop species. CURRENT OPINION IN PLANT BIOLOGY 2022;65:102134. [PMID: 34749068 DOI: 10.1016/j.pbi.2021.102134] [Citation(s) in RCA: 38] [Impact Index Per Article: 12.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/29/2021] [Revised: 09/24/2021] [Accepted: 09/27/2021] [Indexed: 06/13/2023]
13
Qiu Y, O’Connor CH, Della Coletta R, Renk JS, Monnahan PJ, Noshay JM, Liang Z, Gilbert A, Anderson SN, McGaugh SE, Springer NM, Hirsch CN. Whole-genome variation of transposable element insertions in a maize diversity panel. G3 (BETHESDA, MD.) 2021;11:jkab238. [PMID: 34568911 PMCID: PMC8473971 DOI: 10.1093/g3journal/jkab238] [Citation(s) in RCA: 14] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 04/06/2021] [Accepted: 06/29/2021] [Indexed: 01/09/2023]
14
Predicting transcriptional responses to cold stress across plant species. Proc Natl Acad Sci U S A 2021;118:2026330118. [PMID: 33658387 PMCID: PMC7958178 DOI: 10.1073/pnas.2026330118] [Citation(s) in RCA: 45] [Impact Index Per Article: 11.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/22/2022]  Open
15
Noshay JM, Liang Z, Zhou P, Crisp PA, Marand AP, Hirsch CN, Schmitz RJ, Springer NM. Stability of DNA methylation and chromatin accessibility in structurally diverse maize genomes. G3 (BETHESDA, MD.) 2021;11:6288454. [PMID: 34849810 PMCID: PMC8496265 DOI: 10.1093/g3journal/jkab190] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 03/10/2021] [Accepted: 05/27/2021] [Indexed: 06/13/2023]
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