Keywords: paralog processing, deep learning, spatial transcriptomics, ascorbate, wheat, GWAS

Latest 53 Papers

Integrating image-based phenotyping and GWAS to map tolerance to Spittlebug nymphs in interspecific Urochloa grasses

Authors: Espitia-Buitrago, P., Perea, C., Mejia-Medina, J. C., Hernandez, L. M., Castiblanco, V., Ryan, C., De Vega, J. J., Jauregui, R. N.

Date: 2025-11-05 · Version: 1

DOI: 10.1101/2025.11.03.686394

Model Organism: Urochloa spp.

Urochloa spittlebug tolerance GWAS QTL image-based phenotyping

Development alters genotype-environment interactions and shapes adaptation in Arabidopsis

Authors: Lawrence-Paul, E. H., Janakiraman, J., Lawrence-Paul, M. R., Ben-Zeev, R., Xu, Y., Penn, A., Lasky, J. R.

Date: 2025-11-03 · Version: 2

DOI: 10.1101/2025.05.13.653704

Model Organism: Arabidopsis thaliana

vegetative phase change drought adaptation genotype-by-environment interaction GWAS developmental trade‑offs

Cross-dataset evaluation of deep learning models for plant pest and disease diagnosis

Authors: Sun, J.

Date: 2025-11-03 · Version: 2

DOI: 10.1101/2024.10.07.617111

Model Organism: Solanum lycopersicum

deep learning cross-dataset generalization tomato pest and disease dataset variability model architecture

Spatiotemporal regulation of arbuscular mycorrhizal symbiosis at cellular resolution

Authors: Chancellor, T., Ferreras-Garrucho, G., Akmakjian, G. Z., Montero, H., Bowden, S. L., Hope, M., Wallington, E., Bhattacharya, S., Korfhage, C., Bailey-Serres, J., Paszkowski, U.

Date: 2025-11-02 · Version: 1

DOI: 10.1101/2025.10.31.685811

Model Organism: Oryza sativa

arbuscular mycorrhizal symbiosis spatial transcriptomics TRAP-seq arbuscule development nutrient transport

Dual recognition of structurally unrelated mildew effectors underlies the broad-spectrum resistance of Pm3e in wheat

Authors: Kunz, L., Bernasconi, Z., Heuberger, M., Isaksson, J., Sotiropoulos, A. G., Stirnemann, U., Jigisha, J., Menardo, F., Wicker, T., Mueller, M. C., Keller, B.

Date: 2025-10-30 · Version: 2

DOI: 10.1101/2025.10.26.683672

Model Organism: Triticum aestivum (wheat)

broad-spectrum resistance NLR receptors Pm3 alleles powdery mildew effectors wheat

Hyperspectral Imaging to Quantify Nodules and Detect Biological Nitrogen Fixation in Legumes

Authors: Wang, Y., de Silva, K., Song, D., Kamruzzaman, M., Brooks, M. D.

Date: 2025-10-24 · Version: 3

DOI: 10.1101/2025.07.25.666867

Model Organism: Multi-species

root nodules biological nitrogen fixation hyperspectral imaging deep learning legume species

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

Botanic Spectrum Analyser: A Deep Learning GUI for Plant Image Segmentation in Hyperspectral and RGB Phenotyping

Authors: Walsh, J. J., Gorgu, L., Cavel, E., Poulain, V., Gutierrez, L., Mangina, E., Negrao, S.

Date: 2025-09-17 · Version: 1

DOI: 10.1101/2025.09.14.676080

Model Organism: Multi-species

plant phenotyping image segmentation U‑Net hyperspectral imaging deep learning

Wild genes to the rescue: High-throughput genomics uncovers the wild source of broomrape resistance in sunflower

Authors: Sisou, D., Ziadne, H., Eizenberg-Weiss, M., Eizenberg, H., Hubner, S.

Date: 2025-09-16 · Version: 1

DOI: 10.1101/2025.09.14.676089

Model Organism: Helianthus annuus

Orobanche cumana Helianthus annuus GWAS k‑mer mapping resistance QTL

Regenerative agriculture effects on biomass, drought resilience and 14C-photosynthate allocation in wheat drilled into ley compared to disc or ploughed arable soil

Authors: Austen, N., Short, E., Tille, S., Johnson, I., Summers, R., Cameron, D. D., Leake, J. R.

Date: 2025-09-07 · Version: 1

DOI: 10.1101/2025.09.04.674292

Model Organism: Triticum aestivum

regenerative agriculture soil macroaggregation wheat 14C pulse labeling drought resilience

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