Keywords: paralog processing, DDM1, RNA-Seq

Latest 10 Papers

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

phylogenomic discordance polyploidy paralog processing Packera historical biogeography

Major alleles of CDCA7α shape CG-methylation in Arabidopsis thaliana

Authors: Bourguet, P., Lorkovic, Z. J., Casado, D. K., Bapteste, V., Cho, C. H., Igolkina, A., Lee, C.-R., Nordborg, M., Berger, F., Sasaki, E.

Date: 2025-09-07 · Version: 1

DOI: 10.1101/2025.09.03.673934

Model Organism: Arabidopsis thaliana

DNA methylation CG methylation (mCG)CDCA7 DDM1 local adaptation

DECREASE IN DNA METHYLATION 1-mediated epigenetic regulation maintains gene expression balance required for heterosis in Arabidopsis thaliana

Authors: Matsuo, K., Wu, R., Yonechi, H., Murakami, T., Takahashi, S., Kamio, A., Akter, M. A., Kamiya, Y., Nishimura, K., Matsuura, T., Tonosaki, K., Shimizu, M., Ikeda, Y., Kobayashi, H., Seki, M., Dennis, E. S., Fujimoto, R.

Date: 2025-08-26 · Version: 1

DOI: 10.1101/2025.08.21.671646

Model Organism: Arabidopsis thaliana

heterosis DNA methylation DDM1 Arabidopsis thaliana transcriptomics

Investigating Cannabis sativa L. gene expression through housekeeping genes and gene coexpression networks

Authors: Barbosa-Xavier, K., Venancio, T. M.

Date: 2025-07-20 · Version: 1

DOI: 10.1101/2025.07.16.665086

Model Organism: Cannabis sativa

Cannabis sativa housekeeping genes qRT-PCR normalization gene coexpression network RNA-Seq

Drought-associated genes exhibit high constitutive expression in Quercus douglasii, a drought tolerant California oak

Authors: Steele, S., Peck, L. D., Sork, V. L.

Date: 2025-07-08 · Version: 1

DOI: 10.1101/2025.07.07.663554

Model Organism: Quercus douglasii

drought tolerance constitutive gene expression plasticity RNA-Seq Quercus douglasii

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

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

Loss of RdDM-independent CHH methylation is sufficient for disruption of chromosome-specific rRNA gene silencing

Authors: McKinlay, A., Enganti, R., Puppala, N. V., Saradadevi, G. P., Blevins, T., Mohannath, G.

Date: 2025-02-20 · Version: 3

DOI: 10.1101/2023.02.03.526984

Model Organism: Arabidopsis thaliana

CHH methylation rRNA gene silencing Nucleolus organizer region (NOR)CMT2 DDM1

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