ArticleFrontiers in plant science2016
Simultaneous Identification of Multiple Causal Mutations in Rice.
Article in Frontiers in plant science, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 31 papers.
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Who cites it
31 citing papers in PubMed.
- Advances in mutant characterization for detecting causal mutations in crop plants.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2026Review
- Functional allelic diversity of PTGS components revealed by a high-throughput RUBY-based screening.The Plant journal : for cell and molecular biology · 2026Article
- Stomatal signaling under drought: integrating hormonal pathways for crop resilience.Plant cell reports · 2025Review
- Article
- tRNA selectivity during ribosome-associated quality control regulates the critical sterility-inducing temperature in two-line hybrid rice.Proceedings of the National Academy of Sciences of the United States of America · 2025Article
- The E3 ligase OsHel2 impedes readthrough of stalled mRNAs to regulate male fertility in thermosensitive genic male sterile rice.Plant communications · 2025Article
- Application of genome editing in plant reproductive biology: recent advances and challenges.Plant reproduction · 2024Review
- Reference-based genome assembly and comparative genomics of Calamus Brandisii Becc. for unveiling sex-specific genes for early gender detection.Functional & integrative genomics · 2024Article
- AtPRMT3-RPS2B promotes ribosome biogenesis and coordinates growth and cold adaptation trade-off.Nature communications · 2024Article
- OsSNDP4, a Sec14-nodulin Domain Protein, is Required for Pollen Development in Rice.Rice (New York, N.Y.) · 2024Article
- OsABA3 is Crucial for Plant Survival and Resistance to Multiple Stresses in Rice.Rice (New York, N.Y.) · 2024Article
- Construction of a Female Sterility Maintaining System Based on a Novel Mutation of the MEL2 Gene.Rice (New York, N.Y.) · 2024Article
- Establishment and Advances of Third-Generation Hybrid Rice Technology: A Review.Rice (New York, N.Y.) · 2023Review
- Identification and transcriptome data analysis of ARF family genes in five Orchidaceae species.Plant molecular biology · 2023Article
- Enhancing the quality of staple food crops through CRISPR/Cas-mediated site-directed mutagenesis.Planta · 2023Review
- Tubby-like proteins (TLPs) transcription factor in different regulatory mechanism in plants: a review.Plant molecular biology · 2022Review
- Article
- Transgenerational effects of elevated COPlant molecular biology · 2022Article
- Rice DWARF AND LOW-TILLERING and the homeodomain protein OSH15 interact to regulate internode elongation via orchestrating brassinosteroid signaling and metabolism.The Plant cell · 2022Article
- Phytohormones and Transcriptome Analyses Revealed the Dynamics Involved in Spikelet Abortion and Inflorescence Development in Rice.International journal of molecular sciences · 2022Article
Corrections and comments
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Authors and funding
9 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Next-generation sequencing technologies (NGST) are being used to discover causal mutations in ethyl methanesulfonate (EMS)-mutagenized plant populations. However, the published protocols often deliver too many candidate sites and sometimes fail to find the mutant gene of interest. Accurate identification of the causal mutation from massive background polymorphisms and sequencing deficiencies remains challenging. Here we describe a NGST-based method, named SIMM, that can simultaneously identify the causal mutations in multiple independent mutants. Multiple rice mutants derived from the same parental line were back-crossed, and for each mutant, the derived F2 individuals of the recessive mutant phenotype were pooled and sequenced. The resulting sequences were aligned to the Nipponbare reference genome, and single nucleotide polymorphisms (SNPs) were subsequently compared among the mutants. Allele index (AI) and Euclidean distance (ED) were incorporated into the analysis to reduce noises caused by background polymorphisms and re-sequencing errors. Corrections of sequence bias against GC- and AT-rich sequences in the candidate region were conducted when necessary. Using this method, we successfully identified seven new mutant alleles from Huanghuazhan (HHZ), an elite
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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.