Keywords: paralog processing, comparative transcriptomics, DNA methylation, tomato

Latest 47 Papers

Antirrhinum flower shape: unravelling gene expression across developmental axes and boundaries

Authors: Cunha, A. M., Raimundo, J., Verweij, A., Bradley, D., Coen, E., Costa, M. M. R.

Date: 2025-11-11 · Version: 1

DOI: 10.1101/2025.11.10.687484

Antirrhinum majus dorsoventral axis patterning comparative transcriptomics AmCYC/AmDIV transcription factors NGATHA‑LIKE1‑miR164 regulatory module

Methionine Triggers Metabolic, Transcriptional, and Epigenetic Reprogramming in Arabidopsis Leaves

Authors: Yerushalmy, Y., Dafni, M., Rabach, N., Hacham, Y., Amir, R.

Date: 2025-11-03 · Version: 1

DOI: 10.1101/2025.11.02.686087

Model Organism: Arabidopsis thaliana

methionine metabolism Arabidopsis thaliana DNA methylation transcriptome reprogramming stress hormone pathways

Symbiotic diversification relies on an ancestral gene network in plants

Authors: Castanedo, L., Melkonian, K., Vernie, T., Chauderon, L., Pellen, T., Bianconi, M., Lefort, C., Libourel, C., Le Ru, A., Aziz, S., Latorre, C., Thiercelin, O., Rodde, N., Cauet, S., Callot, C., Forrest, L., Nishiyama, T., Wickell, D., Li, F.-W., Keller, J., Delaux, P.-M.

Date: 2025-11-03 · Version: 2

DOI: 10.1101/2025.04.01.646537

Model Organism: Marchantia paleacea

ericoid mycorrhizae intracellular symbiosis ancestral gene module liverwort comparative transcriptomics

Integrative epigenomic analysis uncovers asymmetry of enhancer activity in Brassica napus

Authors: Zanini, S. F., Rockenbach, K., Nguyen, A., Arslan, K., Yildiz, G., Snowdon, R., Golicz, A. A.

Date: 2025-10-31 · Version: 1

DOI: 10.1101/2025.10.31.685802

Model Organism: Brassica napus

cis-regulatory elements super-enhancers Brassica napus chromatin accessibility DNA methylation

DNA methylome responses to biotic and abiotic stress in Arabidopsis thaliana: A multi-study analysis

Authors: Behl, R., Gallo-Franco, J. J., Hazarika, R. R., Zhang, Z., Wilming, F., Schnitzler, J.-P., Lindermayr, C., Johannes, F.

Date: 2025-10-20 · Version: 1

DOI: 10.1101/2025.10.20.682861

Model Organism: Arabidopsis thaliana

DNA methylation stress response Arabidopsis thaliana transposable elements epimutations

Drought-Induced Epigenetic Memory in the cambium of Poplar Trees persists and primes future stress responses

Authors: DUPLAN, A., FENG, Y. Q., LASKAR, G., CAI, B. D., SEGURA, V., DELAUNAY, A., LE JAN, I., DAVIAUD, C., TOUMI, A., LAURANS, F., SOW, M. D., ROGIER, O., POURSAT, P., DURUFLE, H., JORGE, V., SANCHEZ, L., COCHARD, H., ALLONA, I., TOST, J., FICHOT, R., MAURY, S.

Date: 2025-10-15 · Version: 1

DOI: 10.1101/2025.10.14.681991

Model Organism: Populus spp.

drought stress memory DNA methylation Populus cambium epigenetic priming

Discovery of tomato UDP-glucosyltransferases involved in bioactive jasmonate homeostasis using limited proteolysis-coupled mass spectrometry

Authors: Venegas-Molina, J., Mohnike, L., Selma Garcia, S., Janssens, H., Colembie, R., Kimpe, I., Jaramillo-Madrid, A. C., Lacchini, E., Winne, J. M., Van Damme, P., Feussner, I., Goossens, A., Sola, K.

Date: 2025-10-15 · Version: 1

DOI: 10.1101/2025.10.15.682356

Model Organism: Solanum lycopersicum

jasmonic acid limited proteolysis‑coupled mass spectrometry UDP‑glucuronosyltransferase JA catabolism tomato

Phylogenomic challenges in polyploid-rich lineages: Insights from paralog processing and reticulation methods using the complex genus Packera (Asteraceae: Senecioneae)

Authors: Moore-Pollard, E. R., Ellestad, P., Mandel, J.

Date: 2025-10-13 · Version: 2

DOI: 10.1101/2025.09.14.676143

Model Organism: Multi-species

phylogenomic discordance polyploidy paralog processing Packera historical biogeography

Mammalian growth-regulating factors enhance regeneration of recalcitrant transgenic tomato accessions

Authors: Garchery, C., Benejam, J., Grau, A., Gricourt, J., Pelpoir, E., Causse, M.

Date: 2025-09-29 · Version: 1

DOI: 10.1101/2025.09.25.678568

Model Organism: Solanum lycopersicum

CRISPR-Cas9 plant regeneration mammalian growth factors cytokines tomato

SlATG8f enhances tomato thermotolerance and fruit quality via autophagy and HS pathways

Authors: Cheng, q., Xu, w., wen, c., He, Z., Song, L.

Date: 2025-09-25 · Version: 1

DOI: 10.1101/2025.09.23.678159

Model Organism: Solanum lycopersicum

SlATG8f autophagy high-temperature stress tomato fruit quality

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