ArticlePLoS genetics2008
Identification and functional analysis of light-responsive unique genes and gene family members in rice.
Article in PLoS genetics, 2008. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 35 papers.
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Who cites it
35 citing papers in PubMed.
- OsFT coordinates photosynthetic stability and carotenoid metabolism to regulate tillering in rice.Journal of advanced research · 2026Article
- Roles of multiple TEF30-associated intermediate complexes in the repair and reassembly of photosystem II in Chlamydomonas reinhardtii.Nature plants · 2025Article
- Complexome profiling of the Chlamydomonas psb28 mutant reveals TEF5 as an early PSII assembly factor.The Plant cell · 2025Article
- New insights into QTNs and potential candidate genes governing rice yield via a multi-model genome-wide association study.BMC plant biology · 2024Article
- Article
- Overexpression of the WheatInternational journal of molecular sciences · 2023Article
- Plasticity of Arabidopsis rosette transcriptomes and photosynthetic responses in dynamic light conditions.Plant direct · 2023Article
- Differential Regulation of an OsIspH1, the Functional 4-Hydroxy-3-Methylbut-2-Enyl Diphosphate Reductase, for Photosynthetic Pigment Biosynthesis in Rice Leaves and Seeds.Frontiers in plant science · 2022Article
- Structural insights into cyanobacterial photosystem II intermediates associated with Psb28 and Tsl0063.Nature plants · 2021Article
- The Coordinated Upregulated Expression of Genes Involved in MEP, Chlorophyll, Carotenoid and Tocopherol Pathways, Mirrored the Corresponding Metabolite Contents in Rice Leaves during De-Etiolation.Plants (Basel, Switzerland) · 2021Article
- Effect of chlorophyll biosynthesis-related genes on the leaf color in Hosta (Hosta plantaginea Aschers) and tobacco (Nicotiana tabacum L.).BMC plant biology · 2021Article
- Combining Genome and Gene Co-expression Network Analyses for the Identification of Genes Potentially Regulating Salt Tolerance in Rice.Frontiers in plant science · 2021Article
- The Genetic Components of a Natural Color Palette: A Comprehensive List of Carotenoid Pathway Mutations in Plants.Frontiers in plant science · 2021Review
- Red and blue light differentially impact retrograde signalling and photoprotection in rice.Philosophical transactions of the Royal Society of London. Series B, Biological sciences · 2020Article
- The organ-specific differential roles of rice DXS and DXR, the first two enzymes of the MEP pathway, in carotenoid metabolism in Oryza sativa leaves and seeds.BMC plant biology · 2020Article
- The subcellular localization of two isopentenyl diphosphate isomerases in rice suggests a role for the endoplasmic reticulum in isoprenoid biosynthesis.Plant cell reports · 2020Article
- OsbZIP48, a HY5 Transcription Factor Ortholog, Exerts Pleiotropic Effects in Light-Regulated Development.Plant physiology · 2018Article
- Meta-expression analysis of unannotated genes in rice and approaches for network construction to suggest the probable roles.Plant molecular biology · 2018Article
- Article
- Updated Rice Kinase Database RKD 2.0: enabling transcriptome and functional analysis of rice kinase genes.Rice (New York, N.Y.) · 2016Article
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Authors and funding
15 authors.
Funding
Abstract
Functional redundancy limits detailed analysis of genes in many organisms. Here, we report a method to efficiently overcome this obstacle by combining gene expression data with analysis of gene-indexed mutants. Using a rice NSF45K oligo-microarray to compare 2-week-old light- and dark-grown rice leaf tissue, we identified 365 genes that showed significant 8-fold or greater induction in the light relative to dark conditions. We then screened collections of rice T-DNA insertional mutants to identify rice lines with mutations in the strongly light-induced genes. From this analysis, we identified 74 different lines comprising two independent mutant lines for each of 37 light-induced genes. This list was further refined by mining gene expression data to exclude genes that had potential functional redundancy due to co-expressed family members (12 genes) and genes that had inconsistent light responses across other publicly available microarray datasets (five genes). We next characterized the phenotypes of rice lines carrying mutations in ten of the remaining candidate genes and then carried out co-expression analysis associated with these genes. This analysis effectively provided candidate functions for two genes of previously unknown function and for one gene not directly linked to the tested biochemical pathways. These data demonstrate the efficiency of combining gene family-based expression profiles with analyses of insertional mutants to identify novel genes and their functions, even among members of multi-gene families.
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