Keywords: decoding modules, transcriptome profiling, transcriptomics, gene regulatory network

Latest 50 Papers

Integrative Multi-Omics Analysis Reveals Stress-Specific Molecular Architectures in Soybean under Drought and Rust Infection

Authors: Husein, G., Castro-Moretti, F. R., Prado, M., Amorim, L., Mazzafera, P., Canales, J., Monteiro-Vitorello, C. B.

Date: 2025-07-08 · Version: 1

DOI: 10.1101/2025.07.07.663534

Model Organism: Glycine max

Asian soybean rust drought stress transcriptomics metabolomics co-expression network

Medicago truncatula CORYNE modulates inflorescence meristem branching, nutrient signaling, and arbuscular mycorrhizal symbiosis

Authors: Orosz, J., Lin, E. X., Torres Ascurra, Y. C., Kappes, M., Lindsay, P. L., Bashyal, S., Everett, H., Gautam, C. K., Jackson, D., Mueller, L. M.

Date: 2025-07-02 · Version: 3

DOI: 10.1101/2024.09.20.614181

Model Organism: Medicago truncatula

CLAVATA signaling CRN pseudokinase arbuscular mycorrhizal symbiosis Meristem branching transcriptomics

Molecular characterization of flower bud dormancy under constrained temperatures unveils a shallow dormancy stage induced by cold deprivation

Authors: Fouche, M., Bonnet, H., Prigent, S., Wenden, B.

Date: 2025-07-01 · Version: 1

DOI: 10.1101/2025.06.27.661981

Model Organism: Prunus avium

winter dormancy temperature stress sweet cherry transcriptomics shallow dormancy phase

Zinc deficiency induces spatially distinct responses in roots and impacts ZIP12-dependent zinc homeostasis in Arabidopsis

Authors: Thiebaut, N., Persson, D. P., Sarthou, M., Stevenne, P., Bosman, B., Carnol, M., Fanara, S., Verbruggen, N., Hanikenne, M.

Date: 2025-06-30 · Version: 1

DOI: 10.1101/2025.06.26.661794

Model Organism: Arabidopsis thaliana

zinc deficiency root apical meristem ZIP12 transcriptomics ionomics

Gene regulatory network analysis of somatic embryogenesis identifies morphogenic genes that increase maize transformation frequency

Authors: Renema, J., Luckicheva, S., Verwaerde, I., Aesaert, S., Coussens, G., De Block, J., Grones, C., Eekhout, T., De Rybel, B., Brew-Appiah, R. A. T., Bagley, C. A., Hoengenaert, L., Vandepoele, K., Pauwels, L.

Date: 2025-06-23 · Version: 1

DOI: 10.1101/2025.06.22.659756

Model Organism: Zea mays

somatic embryogenesis transcription factors Zea mays single-cell transcriptomics gene regulatory network

Ethylene Receptor Gain- and Loss-of-function Mutants Reveal an ETR1-dependent Transcriptional Network in Roots

Authors: White, M. G., Harkey, A., Muhlemann, J. K., Olex, A. L., Pfeffer, N. J., Houben, M., Binder, B., Muday, G. K.

Date: 2025-06-22 · Version: 3

DOI: 10.1101/2024.06.26.600793

Model Organism: Arabidopsis thaliana

ethylene signaling ETR1 root development gene regulatory network Arabidopsis

Molecular and Phenotypic Characterization of Telomere Repeat Binding (TRBs) Proteins in Moss: Evolutionary and Functional Perspectives

Authors: Kusova, A., Hola, M., Goffova Petrova, I., Rudolf, J., Zachova, D., Skalak, J., Hejatko, J., Klodova, B., Prerovska, T., Lycka, M., Sykorova, E., Bertrand, Y. J. K., Fajkus, J., Honys, D., Prochazkova Schrumpfova, P.

Date: 2025-06-17 · Version: 1

DOI: 10.1101/2025.06.11.659030

Model Organism: Physcomitrium patens

Telomere repeat binding proteins Physcomitrium patens knockout mutants telomere maintenance transcriptome profiling

Single-Nucleus Transcriptomics Reveals How Tissue Context Shapes the Circadian Transcriptome of the Arabidopsis Leaf

Authors: Zulfiqar, A., Myers, Z. A., Menon, A., Greenham, K.

Date: 2025-06-16 · Version: 1

DOI: 10.1101/2025.06.12.659411

Model Organism: Arabidopsis thaliana

circadian regulation single-nucleus RNA-seq cell-type-specific expression Arabidopsis thaliana leaf gene regulatory network

Thermotolerance in Chia (Salvia hispanica L.) is Mediated by Rapid Heat-Induced Transcriptomic Reprogramming and Lipid Remodelling in Leaves

Authors: Zare, T., Kehelpannala, C., Bhatnagar, A., Rupasinghe, T., Ebert, B., Fournier-Level, A., Roessner, U.

Date: 2025-06-02 · Version: 1

DOI: 10.1101/2025.05.30.656991

Model Organism: Salvia hispanica

heat stress Salvia hispanica transcriptomics lipidomics calcium signaling

Stage-resolved gene regulatory network analysis reveals developmental reprogramming and genes with robust stem-preferred expression in sorghum

Authors: Fu, J., James, B., Hetti-Arachchilage, M., Lei, Y., McKinley, B., Kurtz, E., Barry, K., Moose, S. P., Mullet, J. E., Swaminathan, K., Marshall-Colon, A.

Date: 2025-05-30 · Version: 1

DOI: 10.1101/2025.05.27.656329

Model Organism: Sorghum bicolor

Sorghum bicolor stem organ-specific expression stem-specific transcription factors gene regulatory network bioenergy feedstock

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