20.500.12556/DiRROS-19304 Transcriptional and epigenetic changes during tomato yellow leaf curl virus infection in tomato Background Geminiviruses are DNA plant viruses that cause highly damaging diseases affecting crops worldwide. During the infection, geminiviruses hijack cellular processes, suppress plant defenses, and cause a massive reprogramming of the infected cells leading to major changes in the whole plant homeostasis. The advances in sequencing technologies allow the simultaneous analysis of multiple aspects of viral infection at a large scale, generating new insights into the molecular mechanisms underlying plant-virus interactions. However, an integrative study of the changes in the host transcriptome, small RNA profile and methylome during a geminivirus infection has not been performed yet. Using a time-scale approach, we aim to decipher the gene regulation in tomato in response to the infection with the geminivirus, tomato yellow leaf curl virus (TYLCV). Results We showed that tomato undergoes substantial transcriptional and post-transcriptional changes upon TYLCV infection and identified the main altered regulatory pathways. Interestingly, although the principal plant defense-related processes, gene silencing and the immune response were induced, this cannot prevent the establishment of the infection. Moreover, we identified extra- and intracellular immune receptors as targets for the deregulated microRNAs (miRNAs) and established a network for those that also produced phased secondary small interfering RNAs (phasiRNAs). On the other hand, there were no significant genome-wide changes in tomato methylome at 14 days post infection, the time point at which the symptoms were general, and the amount of viral DNA had reached its maximum level, but we were able to identify differentially methylated regions that could be involved in the transcriptional regulation of some of the differentially expressed genes. Conclusion We have conducted a comprehensive and reliable study on the changes at transcriptional, post-transcriptional and epigenetic levels in tomato throughout TYLCV infection. The generated genomic information is substantial for understanding the genetic, molecular and physiological changes caused by TYLCV infection in tomato. geminivirus TYLCV tomato transcriptome miRNA geminivirus TYLCV paradižnik transkriptom mikroRNA true false true Angleški jezik Slovenski jezik Neznano 2024-07-15 09:55:52 2024-07-15 09:55:52 2024-07-16 03:45:12 0000-00-00 00:00:00 2023 0 0 Soavtorji: Marko Petek, Chen Jiao, Maja Križnik, Maja Zagorščak, Zhangjun Fei, Eduardo R. Bejarano, Kristina Gruden & Araceli G. Castillo; Nasl. z nasl. zaslona; Opis vira z dne 22. 12. 2023; str. 1-26 article no. ǂ651 Vol. 23 2023 0000-00-00 Zaloznikova Objavljeno NiDoloceno 0000-00-00 0000-00-00 2023-12-18 632 1471-2229 10.1186/s12870-023-04534-y 178693379 https://bmcplantbiol.biomedcentral.com/articles/10.1186/s12870-023-04534-y 1 a9982e9d-427f-11ef-b487-001a4af901a5 https://dirros.openscience.si/Dokument.php?lang=slv&id=26622 RAZ_Romero-Rodriguez_Beatriz_2023.pdf RAZ_Romero-Rodriguez_Beatriz_2023.pdf 1 4CCC480C3FBDE20BEBA235E35BF04613 69e871989e4958a70d017c757c5209f85bb322b1192a9593018baae25b3092dc 1ba9b2e7-4280-11ef-b487-001a4af901a5 https://dirros.openscience.si/Dokument.php?lang=slv&id=26623 Nacionalni inštitut za biologijo 0 0 0