ArticlePlanta2014
Genome re-sequencing suggested a weedy rice origin from domesticated indica-japonica hybridization: a case study from southern China.
Article in Planta, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 21 papers.
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Who cites it
21 citing papers in PubMed, 53 citations in OpenAlex.
- Porous borders at the wild-crop interface promote weed adaptation in Southeast Asia.Nature communications · 2024Article
- Genetic Diversity of Weedy Rice and Its Potential Application as a Novel Source of Disease Resistance.Plants (Basel, Switzerland) · 2023Review
- Genomic revolution of US weedy rice in response to 21st century agricultural technologies.Communications biology · 2022Article
- Whole-Genome Sequencing and RNA-Seq Reveal Differences in Genetic Mechanism for Flowering Response between Weedy Rice and Cultivated Rice.International journal of molecular sciences · 2022Article
- Key Roles of De-Domestication and Novel Mutation in Origin and Diversification of Global Weedy Rice.Biology · 2021Article
- A genome-wide investigation of the effect of farming and human-mediated introduction on the ubiquitous seaweed Undaria pinnatifida.Nature ecology & evolution · 2021Article
- Novel Expressed Sequence Tag-Derived and Other Genomic Simple Sequence Repeat Markers Revealed Genetic Diversity in Ethiopian Finger Millet Landrace Populations and Cultivars.Frontiers in plant science · 2021Article
- Article
- Something old, something new: Evolution of Colombian weedy rice (Evolutionary applications · 2020Article
- Italian weedy rice-A case of de-domestication?Ecology and evolution · 2020Article
- Whole-genome sequencing reveals uniqueness of black-hulled and straw-hulled weedy rice genomes.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2020Article
- Analysis of evolutionary relationships provides new clues to the origins of weedy rice.Ecology and evolution · 2020Article
- Studies of rice Hd1 haplotypes worldwide reveal adaptation of flowering time to different environments.PloS one · 2020Article
- Genetic variation and possible origins of weedy rice found in California.Ecology and evolution · 2019Article
- Genome-wide discovery of DNA polymorphisms by whole genome sequencing differentiates weedy and cultivated rice.Scientific reports · 2018Article
- Comparative Mapping of Seed Dormancy Loci Between Tropical and Temperate Ecotypes of Weedy Rice (G3 (Bethesda, Md.) · 2017Article
- Genomic variation associated with local adaptation of weedy rice during de-domestication.Nature communications · 2017Article
- Signatures of adaptation in the weedy rice genome.Nature genetics · 2017Article
- Genetic variation architecture of mitochondrial genome reveals the differentiation in Korean landrace and weedy rice.Scientific reports · 2017Article
- Population genomics identifies the origin and signatures of selection of Korean weedy rice.Plant biotechnology journal · 2017Article
Corrections and comments
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Authors and funding
13 authors at 4 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
MAIN
conclusionWhole-genome re-sequencing of weedy rice from southern China reveals that weedy rice can originate from hybridization of domesticated indica and japonica rice. Weedy rice (Oryza sativa f. spontanea Rosh.), which harbors phenotypes of both wild and domesticated rice, has become one of the most notorious weeds in rice fields worldwide. While its formation is poorly understood, massive amounts of rice genomic data may provide new insights into this issue. In this study, we determined genomes of three weedy rice samples from the lower Yangtze region, China, and investigated their phylogenetics, population structure and chromosomal admixture patterns. The phylogenetic tree and principle component analysis based on 46,005 SNPs with 126 other Oryza accessions suggested that the three weedy rice accessions were intermediate between japonica and indica rice. An ancestry inference study further demonstrated that weedy rice had two dominant genomic components (temperate japonica and indica). This strongly suggests that weedy rice originated from indica-japonica hybridization. Furthermore, 22,443 novel fixed single nucleotide polymorphisms were detected in the weedy genomes and could have been generated after indica-japonica hybridization for environmental adaptation.
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