
@article {166232,
	title = {Histone variant H2A.X represses deposition of active H3K4me3 marks and restricts H2A.W incorporation},
	journal = {Nucleic Acids Research},
	volume = {54},
	year = {2026},
	month = {05},
	pages = {gkag476},
	abstract = {<p>Histone variant H2A.X is a well-conserved histone that plays crucial roles in mediating DNA damage response across eukaryotes. Although H2A.X expresses and decorates gene bodies of actively expressed genes even without stress, it is not known if H2A.X has functions beyond DNA damage repair. Using genetic, high-throughput genomics, and molecular approaches, we identified a previously unappreciated role of H2A.X in regulating development-associated genes. Using custom-made antibodies specific to the rice H2A.X variant, we show that it repressed the deposition of active H3K4me3 marks over gene bodies and transposable elements (TEs), specifically regulating root development, photosynthesis, and pigmentation-related genes, as seen by the impairment of these processes in rice h2a.x knockout (ko) plants. H2A.X also repressed global deposition of repressive mark H3K9me2 by restricting the activity of H2A variant H2A.W. In agreement with this, there was a genome-wide relocalization of H2A.W to TEs and a few genes in ko plants. H2A.X-overexpressing plants exhibited stress phenotypes, including increased anthocyanin levels, mimicking the transcriptome of DNA-damaged wild-type (WT) plants. The transcriptome of knockdown (kd) lines of facilitates chromatin transcription (FACT) complex, a known chaperone of H2A.X, was largely similar to that of h2a.x ko plants, suggesting that the development-associated functions of FACT are at least partially due to H2A.X. These results suggest a specific role of H2A.X in regulating competing histone marks, a function that might also be conserved across plants.</p>
},
	issn = {1362-4962},
	doi = {10.1093/nar/gkag476},
	url = {https://doi.org/10.1093/nar/gkag476},
	author = {Madhu, Aravind and Gandhivel, Vivek Hari-Sundar and Raju, Steffi and Dey, Riju and Shivaprasad, Padubidri V}
}
@article {137345,
	title = {Plant histone variants at the nexus of chromatin readouts, stress and development.},
	journal = {Biochim Biophys Acta Gen Subj},
	volume = {1868},
	year = {2024},
	month = {2023 Dec 10},
	pages = {130539},
	abstract = {<p>Histones are crucial proteins that are involved in packaging the DNA as condensed chromatin inside the eukaryotic cell nucleus. Rather than being static packaging units, these molecules undergo drastic variations spatially and temporally to facilitate accessibility of DNA to replication, transcription as well as wide range of gene regulatory machineries. In addition, incorporation of paralogous variants of canonical histones in the chromatin is ascribed to specific functions. Given the peculiar requirement of plants to rapidly modulate gene expression levels on account of their sessile nature, histones and their variants serve as additional layers of gene regulation. This review summarizes the mechanisms and implications of distribution, modifications and differential incorporation of histones and their variants across plant genomes, and outlines emerging themes.</p>
},
	issn = {1872-8006},
	doi = {10.1016/j.bbagen.2023.130539},
	author = {G Vivek Hari Sundar and Madhu, Aravind and Archana, A and Shivaprasad, P V}
}
