ArticleCommunications biology2020
SMRT sequencing of the Oryza rufipogon genome reveals the genomic basis of rice adaptation.
Article in Communications biology, 2020. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 18 papers.
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18 citing papers in PubMed, 31 citations in OpenAlex.
- Genome-wide prediction of cloned disease resistance homologues across the Oryza genus.The plant genome · 2026Article
- Revealing Genomic Traits and Evolutionary Insights of Oryza officinalis from Southern China Through Genome Assembly and Transcriptome Analysis.Rice (New York, N.Y.) · 2025Article
- Evolutionary Dynamics and Expression Divergence of thePlants (Basel, Switzerland) · 2025Article
- The male and female genomes of golden pompano (Trachinotus ovatus) provide insights into the sex chromosome evolution and rapid growth.Journal of advanced research · 2024Article
- Examination of the Expression Profile of Resistance Genes in Yuanjiang Common Wild Rice (Genes · 2024Article
- Haplotype-resolved gapless genome and chromosome segment substitution lines facilitate gene identification in wild rice.Nature communications · 2024Article
- Technology-enabled great leap in deciphering plant genomes.Nature plants · 2024Review
- Comparative Genomic Analysis of Asian Cultivated Rice and Its Wild Progenitor (International journal of molecular sciences · 2023Article
- Complete Mitochondrial Genome Assembly of an Upland Wild Rice Species,Life (Basel, Switzerland) · 2023Article
- Insights into the Transcriptomics of Crop Wild Relatives to Unravel the Salinity Stress Adaptive Mechanisms.International journal of molecular sciences · 2023Review
- A chromosome-level genome assembly of an alpine plant Crucihimalaya lasiocarpa provides insights into high-altitude adaptation.DNA research : an international journal for rapid publication of reports on genes and genomes · 2022Article
- Genome Size Variation and Evolution Driven by Transposable Elements in the GenusFrontiers in plant science · 2022Article
- Comparative chloroplast genome and transcriptome analysis on the ancient genusFrontiers in plant science · 2022Article
- Dynamic differential evolution schemes of WRKY transcription factors in domesticated and wild rice.Scientific reports · 2021Article
- A chromosome-level genome assembly of the wild rice Oryza rufipogon facilitates tracing the origins of Asian cultivated rice.Science China. Life sciences · 2021Article
- Genome-Wide Analysis ofFrontiers in plant science · 2021Article
- Tapping Diversity From the Wild: From Sampling to Implementation.Frontiers in plant science · 2021Review
- The draft genome sequence of an upland wild rice species, Oryza granulata.Scientific data · 2020Article
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Authors and funding
22 authors at 3 institutions in 1 country.
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No grant is acknowledged in the PubMed record.
Abstract
Asian cultivated rice is believed to have been domesticated from a wild progenitor, Oryza rufipogon, offering promising sources of alleles for world rice improvement. Here we first present a high-quality chromosome-scale genome of the typical O. rufipogon. Comparative genomic analyses of O. sativa and its two wild progenitors, O. nivara and O. rufipogon, identified many dispensable genes functionally enriched in the reproductive process. We detected millions of genomic variants, of which large-effect mutations could affect agronomically relevant traits. We demonstrate how lineage-specific expansion of gene families may have contributed to the formation of reproduction isolation. We document thousands of genes with signatures of positive selection that are mainly involved in the reproduction and response to biotic- and abiotic stresses. We show that selection pressures may serve as forces to govern substantial genomic alterations that form the genetic basis of rapid evolution of mating and reproductive systems under diverse habitats.
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