ArticleThe Plant journal : for cell and molecular biology2019
An updated gene atlas for maize reveals organ-specific and stress-induced genes.
Article in The Plant journal : for cell and molecular biology, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 79 papers.
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Who cites it
79 citing papers in PubMed, 167 citations in OpenAlex.
- Discovery of the rosalexin pathway expands the modular network of maize diterpenoid phytoalexins.Research square · 2026Article
- ZmWRKY29 Transcriptionally Represses ZmRBOHC to Attenuate ROS Production and Facilitates Gibberella Stalk Rot Susceptibility in Maize.Plant biotechnology journal · 2026Article
- Genome-wide association study dissects the genetic architecture of kernel rate and its component traits in maize.BMC plant biology · 2026Article
- Brachypodium SPEECHLESS2 Promoter Drives Expression of a Synthetic EPF to Reduce Stomatal Density in Sugarcane Without Pleiotropic Effects.Plant biotechnology journal · 2026Article
- Pathogenic fungus Ustilago maydis exploits the lateral root regulators to induce pluripotency in maize shoots.The New phytologist · 2026Article
- ZmMYB127 Modulates Maize Kernel Texture and Size by Integrating the Synthesis of Starch, Zein Proteins and Auxin.Plant biotechnology journal · 2026Article
- Vegetative to generative1 (Vgt1) is an enhancer affecting flowering time and jasmonate signaling in maize by promoting the expression of Zea mays Related to APETALA 2.7.Plant physiology · 2025Article
- Understanding Callus Types in Maize by Genetic Mapping and Transcriptional Profiling.Plants (Basel, Switzerland) · 2025Article
- Genetic Improvement and Functional Characterization of AAP1 Gene for Enhancing Nitrogen Use Efficiency in Maize.Plants (Basel, Switzerland) · 2025Article
- MDR1 DNA glycosylase regulates the expression of genomically imprinted genes and Helitrons.The Plant journal : for cell and molecular biology · 2025Article
- Heat shock factor ZmHsf17 positively regulates phosphatidic acid phosphohydrolase ZmPAH1 and enhances maize thermotolerance.Journal of experimental botany · 2025Article
- 20 years of the Bio-Analytic Resource for Plant Biology.Nucleic acids research · 2025Article
- Dissecting the genetic architecture of yield-related traits by QTL mapping in maize.Frontiers in plant science · 2025Article
- Genome-wide association studies on leaf midrib architecture in maize.Frontiers in plant science · 2025Article
- Maize unstable factor for orange1 encodes a nuclear protein that affects redox accumulation during kernel development.The Plant cell · 2024Article
- Sugar sensing in C4 source leaves: a gap that needs to be filled.Journal of experimental botany · 2024Review
- Identification of candidate gene associated with maize northern leaf blight resistance in a multi-parent population.Plant cell reports · 2024Article
- Article
- Dual RNA-seq of maize andFrontiers in plant science · 2024Article
- Insights into ZmWAKL in maize kernel development: genome-wide investigation and GA-mediated transcription.BMC genomics · 2023Article
19 more citing papers are in PubMed but not listed here.
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Authors and funding
8 authors at 3 institutions in 2 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Maize (Zea mays L.), a model species for genetic studies, is one of the two most important crop species worldwide. The genome sequence of the reference genotype, B73, representative of the stiff stalk heterotic group was recently updated (AGPv4) using long-read sequencing and optical mapping technology. To facilitate the use of AGPv4 and to enable functional genomic studies and association of genotype with phenotype, we determined expression abundances for replicated mRNA-sequencing datasets from 79 tissues and five abiotic/biotic stress treatments revealing 36 207 expressed genes. Characterization of the B73 transcriptome across six organs revealed 4154 organ-specific and 7704 differentially expressed (DE) genes following stress treatment. Gene co-expression network analyses revealed 12 modules associated with distinct biological processes containing 13 590 genes providing a resource for further association of gene function based on co-expression patterns. Presence-absence variants (PAVs) previously identified using whole genome resequencing data from 61 additional inbred lines were enriched in organ-specific and stress-induced DE genes suggesting that PAVs may function in phenological variation and adaptation to environment. Relative to core genes conserved across the 62 profiled inbreds, PAVs have lower expression abundances which are correlated with their frequency of dispersion across inbreds and on average have significantly fewer co-expression network connections suggesting that a subset of PAVs may be on an evolutionary path to pseudogenization. To facilitate use by the community, we developed the Maize Genomics Resource website (maize.plantbiology.msu.edu) for viewing and data-mining these resources and deployed two new views on the maize electronic Fluorescent Pictograph Browser (bar.utoronto.ca/efp_maize).
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