Cis-regulatory sequences in plants: their importance, discovery, and future challenges

RJ Schmitz, E Grotewold, M Stam - The plant cell, 2022 - academic.oup.com
The identification and characterization of cis-regulatory DNA sequences and how they
function to coordinate responses to developmental and environmental cues is of paramount …

Sugarcane for bioenergy production: an assessment of yield and regulation of sucrose content

AJ Waclawovsky, PM Sato, CG Lembke… - Plant biotechnology …, 2010 - Wiley Online Library
An increasing number of plant scientists, including breeders, agronomists, physiologists and
molecular biologists, are working towards the development of new and improved energy …

PlantTFDB 4.0: toward a central hub for transcription factors and regulatory interactions in plants

J **, F Tian, DC Yang, YQ Meng, L Kong… - Nucleic acids …, 2016 - academic.oup.com
With the goal of providing a comprehensive, high-quality resource for both plant transcription
factors (TFs) and their regulatory interactions with target genes, we upgraded plant TF …

PlantTFDB 3.0: a portal for the functional and evolutionary study of plant transcription factors

J **, H Zhang, L Kong, G Gao, J Luo - Nucleic acids research, 2014 - academic.oup.com
With the aim to provide a resource for functional and evolutionary study of plant transcription
factors (TFs), we updated the plant TF database PlantTFDB to version 3.0 (http://planttfdb …

Integration of omic networks in a developmental atlas of maize

JW Walley, RC Sartor, Z Shen, RJ Schmitz, KJ Wu… - Science, 2016 - science.org
Coexpression networks and gene regulatory networks (GRNs) are emerging as important
tools for predicting functional roles of individual genes at a system-wide scale. To enable …

PlnTFDB: updated content and new features of the plant transcription factor database

P Pérez-Rodríguez, DM Riano-Pachon… - Nucleic acids …, 2010 - academic.oup.com
ABSTRACT The Plant Transcription Factor Database (PlnTFDB; http://plntfdb. bio. uni-
potsdam. de/v3. 0/) is an integrative database that provides putatively complete sets of …

An expanded maize gene expression atlas based on RNA sequencing and its use to explore root development

SC Stelpflug, RS Sekhon, B Vaillancourt… - The plant …, 2016 - Wiley Online Library
Comprehensive and systematic transcriptome profiling provides valuable insight into
biological and developmental processes that occur throughout the life cycle of a plant. We …

Evolutionarily informed machine learning enhances the power of predictive gene-to-phenotype relationships

CY Cheng, Y Li, K Varala, J Bubert, J Huang… - Nature …, 2021 - nature.com
Inferring phenotypic outcomes from genomic features is both a promise and challenge for
systems biology. Using gene expression data to predict phenotypic outcomes, and …

Comparative analyses of C4 and C3 photosynthesis in develo** leaves of maize and rice

L Wang, A Czedik-Eysenberg, RA Mertz, Y Si… - Nature …, 2014 - nature.com
C4 and C3 photosynthesis differ in the efficiency with which they consume water and
nitrogen. Engineering traits of the more efficient C4 photosynthesis into C3 crops could …

A key to totipotency: Wuschel‐like homeobox 2a unlocks embryogenic culture response in maize (Zea mays L.)

FL McFarland, R Collier, N Walter… - Plant Biotechnology …, 2023 - Wiley Online Library
The ability of plant somatic cells to dedifferentiate, form somatic embryos and regenerate
whole plants in vitro has been harnessed for both clonal propagation and as a key …