ArticleDNA research : an international journal for rapid publication of reports on genes and genomes2011
Genome-wide identification, classification, and expression analysis of autophagy-associated gene homologues in rice (Oryza sativa L.).
Article in DNA research : an international journal for rapid publication of reports on genes and genomes, 2011. 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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79 citing papers in PubMed, 146 citations in OpenAlex.
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- Identification of ATG18s in Triticeae reveals wheat TaATG18-5's crucial role in Fusarium crown rot resistance.Plant cell reports · 2025Article
- Genome-Wide Identification of Autophagy-Related Gene Family and Gene Expression Analysis of theInternational journal of molecular sciences · 2025Article
- Can autophagy enhance crop resilience to environmental stress?Philosophical transactions of the Royal Society of London. Series B, Biological sciences · 2025Review
- Genome-Wide and Transcriptome Analysis of Autophagy-Related ATG Gene Family and Their Response to Low-Nitrogen Stress in Sugar Beet.International journal of molecular sciences · 2024Article
- Comprehensive Analysis of Autophagy-Related Genes in Rice Immunity againstPlants (Basel, Switzerland) · 2024Article
- Systematic analysis and expression of Gossypium ATG8 family reveals the roles of GhATG8f responding to salt stress in cotton.Plant cell reports · 2024Article
- Autophagy in plants.Autophagy reports · 2024Review
- Transcriptional and post-translational regulation of plant autophagy.Journal of experimental botany · 2023Review
- Integrated Multi-Omics Analyses Reveal That Autophagy-Mediated Cellular Metabolism Is Required for the Initiation of Pollen Germination.International journal of molecular sciences · 2023Article
- Genome-Wide Identification and Expression Analysis ofBiomolecules · 2023Article
- SlMYB72 affects pollen development by regulating autophagy in tomato.Horticulture research · 2023Article
- Article
- Genome-Wide Identification of ATG Gene Family Members in Fagopyrum tataricum and Their Expression during Stress ResponsesInternational journal of molecular sciences · 2022Article
- Autophagy in the Lifetime of Plants: From Seed to Seed.International journal of molecular sciences · 2022Review
- Systematic identification of miRNA-regulatory networks unveils their potential roles in sugarcane response to Sorghum mosaic virus infection.BMC plant biology · 2022Article
- Linking Autophagy to Potential Agronomic Trait Improvement in Crops.International journal of molecular sciences · 2022Review
- Transporters and transcription factors gene families involved in improving nitrogen use efficiency (NUE) and assimilation in rice (Oryza sativa L.).Transgenic research · 2022Review
- The Landscape of Autophagy-Related (ATG) Genes and Functional Characterization ofInternational journal of molecular sciences · 2022Article
19 more citing papers are in PubMed but not listed here.
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Authors and funding
6 authors at 4 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Autophagy is an intracellular degradation process for recycling macromolecules and organelles. It plays important roles in plant development and in response to nutritional demand, stress, and senescence. Organisms from yeast to plants contain many autophagy-associated genes (ATG). In this study, we found that a total of 33 ATG homologues exist in the rice [Oryza sativa L. (Os)] genome, which were classified into 13 ATG subfamilies. Six of them are alternatively spliced genes. Evolutional analysis showed that expansion of 10 OsATG homologues occurred via segmental duplication events and that the occurrence of these OsATG homologues within each subfamily was asynchronous. The Ka/Ks ratios suggested purifying selection for four duplicated OsATG homologues and positive selection for two. Calculating the dates of the duplication events indicated that all duplication events might have occurred after the origin of the grasses, from 21.43 to 66.77 million years ago. Semi-quantitative RT-PCR analysis and mining the digital expression database of rice showed that all 33 OsATG homologues could be detected in at least one cell type of the various tissues under normal or stress growth conditions, but their expression was tightly regulated. The 10 duplicated genes showed expression divergence. The expression of most OsATG homologues was regulated by at least one treatment, including hormones, abiotic and biotic stresses, and nutrient limitation. The identification of OsATG homologues showing constitutive expression or responses to environmental stimuli provides new insights for in-depth characterization of selected genes of importance in rice.
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