Keywords: paralog processing, spatial transcriptomics, GWAS, RNA-Seq

Latest 31 Papers

Spatial and single-cell transcriptomics capture two distinct cell states in plant immunity

Authors: Hu, Y., Schaefer, R., Rendleman, M., Slattery, A., Cramer, A., Nahiyan, A., Breitweiser, L., Shah, M., Kaehler, E., Yao, C., Bowling, A., Crow, J., May, G., Tabor, G., Thatcher, S., Uppalapati, S. R., Muppirala, U., Deschamps, S.

Date: 2025-06-06 · Version: 1

DOI: 10.1101/2025.06.03.657683

Model Organism: Glycine max

spatial transcriptomics single-nuclei RNA-seq plant immunity Phakopsora pachyrhizi cell non‑autonomous defense

Imputation integrates single-cell and spatial gene expression data to resolve transcriptional networks in barley shoot meristem development

Authors: Demesa-Arevalo, E., Dorpholz, H., Vardanega, I., Maika, J. E., Pineda-Valentino, I., Eggels, S., Lautwein, T., Kohrer, K., Schnurbusch, T., von Korff, M., Usadel, B., Simon, R.

Date: 2025-05-11 · Version: 1

DOI: 10.1101/2025.05.09.653223

Model Organism: Hordeum vulgare

Barley (Hordeum vulgare)inflorescence meristems single-cell RNA sequencing spatial transcriptomics developmental gene regulation

Identification of immune response genes of cassava during early phases of cassava brown streak virus infection

Authors: Sheat, S., Winter, S., Lillenthal, J., Pucker, B.

Date: 2025-05-03 · Version: 1

DOI: 10.1101/2025.04.29.651173

Model Organism: Manihot esculenta

Cassava brown streak disease CBSV/UCBSV RNA-Seq differential gene expression virus resistance

Spatial heterogeneity of disease infection attributable to neighbor genotypic identity in barley cultivars

Authors: Akram, I., Rohr, L., Shimizu, K. K., Shimizu-Inatsugi, R., Sato, Y.

Date: 2025-04-24 · Version: 1

DOI: 10.1101/2025.04.22.650038

Model Organism: Hordeum vulgare

spatial heterogeneity neighbor genotype effect barley disease resistance GWAS SpATS

High throughput screen of NPQ in sorghum shows highly polygenic architecture of photoprotection

Authors: Vath, R. L., Fernandes, S., Monier, B., Glowacka, K., Walter, J., Lipka, A. E., Ferguson, J. N., Bernacchi, C., Pederson, T., Kromdijk, J.

Date: 2025-04-22 · Version: 1

DOI: 10.1101/2025.04.18.649521

Model Organism: Sorghum bicolor

photoprotection non-photochemical quenching Sorghum bicolor GWAS TWAS

Ethylene and ROS Signaling Are Key Regulators of Lateral Root Development under Salt Stress in Tomato

Authors: Rahmati Ishka, M., Zhao, J., Sussman, H., Mohanty, D., Craft, E., Yu, L., Pineros, M., Tester, M., Kawa, D., Mittler, R., Nelson, A., Fei, Z., Julkowska, M. M.

Date: 2025-04-15 · Version: 2

DOI: 10.1101/2024.06.20.599848

Model Organism: Solanum lycopersicum

root system architecture salt stress GWAS bulk segregant analysis RNA-Seq

Structure-activity relationships of coumarin and its analogs and mechanistic insights into germination inhibition by coumarin

Authors: Fukuda, K., Hyakutake, S., Oishi, T., Yoshida, M., Koga, M., Egami, C., Matsura, H., Ito, R., Tsukahara, K., Noda, M., Tomonaga, K., Chifu, K., Ichimaru, R., Fujito, E., Mori, K., Tokuyama, Y., Yoshida, T., Ryuda, N., Nagano, Y., Matsutaka, K.

Date: 2025-03-28 · Version: 2

DOI: 10.1101/2024.05.23.595645

Model Organism: Arabidopsis thaliana

coumarin germination inhibition structure-activity relationship expansin genes RNA-Seq

Host genotype shapes root mycobiota in durum wheat

Authors: TRINQUIER, M., COLOMBO, M., FREVILLE, H., JACQUES, D., ROCHER, A., LEFEBVRE, B., ROUX, C.

Date: 2025-03-06 · Version: 3

DOI: 10.1101/2024.10.27.616629

Model Organism: Triticum aestivum

wheat genotype root endophytic mycobiota ITS2 barcoding GWAS QTL

MYB59 is linked to natural variation of water use associated with warmer temperatures in Arabidopsis thaliana

Authors: Ferguson, J. N., Brendel, O., Bechtold, U.

Date: 2025-02-28 · Version: 1

DOI: 10.1101/2025.02.27.640580

Model Organism: Arabidopsis thaliana

water-use variation Arabidopsis thaliana climate adaptation GWAS MYB59

The Ustilago maydis transcription factor Nit2 regulates nitrate utilization during biotrophy and influences organic nitrogen metabolism in infected maize leaves under nitrogen limitation

Authors: Lopinski, P. L., Schulz, C., Fischer, A., Reichl, N., Engelsdorf, T., Braun, N., Voll, L. M.

Date: 2025-02-17 · Version: 2

DOI: 10.1101/2025.01.02.631094

Model Organism: Ustilago maydis

Nit2 transcription factor Ustilago maydis nitrogen metabolism RNA-Seq biotrophic infection

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