Andrew D. L. Nelson

This study identifies dihydrouridine (DHU) modification as a regulator of transcript turnover and photosynthetic capacity in plants under abiotic stress.

This paper shows that cryptochrome 2 (CRY2) promotes chloroplast degradation and programmed cell death via a blue light-independent pathway, uncoupling 1O2 signaling from cellular stress responses.

This study uses multi-omics analysis to investigate heat stress memory in Arabidopsis, identifying temporal transcriptomic, proteomic, and metabolomic responses during recovery.

HAMRLNC is a computational pipeline for analyzing RNA-seq data to quantify transcript abundance, infer RNA modifications, and annotate lncRNAs, producing labeled figures for visualization.

This study identifies RBP47 family members as negative regulators of heat stress tolerance in Arabidopsis by showing their role in sequestering 40S ribosomal subunits and limiting translational restart.

EssSubgraph improves essential gene prediction by integrating networks and omics data, showing better performance and cross-species generalizability than existing methods.

This study identifies genes regulating lateral root development in tomato under salt stress, revealing ethylene and ROS signaling as key factors.

This study sequenced the genome of Syntrichia ruralis, a desiccation-tolerant moss, and identified a conserved MYB transcription factor that negatively regulates ABA response in both moss and Arabidopsis.

The paper identifies telomerase RNA (TR) in Hymenoptera, finding they are short snRNA-like, transcribed by RNA polymerase III, challenging previous assumptions about TR evolution in animals.

The paper identifies and functionally annotates ~130,000 lincRNAs in four Brassicaceae species using RNA-seq and epigenomic data, highlighting conserved motifs and stress-responsive features.

The paper identifies a long non-coding RNA, FLAIL, that represses flowering in Arabidopsis by directly regulating gene expression.

The paper shows that introgressive hybridization between Arabidopsis relatives leads to biased gene retention, obscuring species relationships due to nuclear introgression.

Evolinc identifies and characterizes sequence-conserved lincRNAs across species to prioritize candidates for functional analysis.