ArticleScientific data2016
Building two indica rice reference genomes with PacBio long-read and Illumina paired-end sequencing data.
Article in Scientific data, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 30 papers, 1 of them a synthesis that pooled it.
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Who cites it
30 citing papers in PubMed, 1 synthesis or guideline pooled it.
- Neotropical palms: from their conservation to economic potential.Frontiers in plant science · 2024Pooled it
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- A single-cell rice atlas integrates multi-species data to reveal cis-regulatory evolution.Nature plants · 2025Article
- Antagonistic Ghd7-OsNAC42 Complexes Modulate Carbon and Nitrogen Metabolism to Achieves Superior Quality and High Yield in Rice.Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2025Article
- Epiallelic Variation of TILLER ANGLE CONTROL 5 (TAC5) Regulates Tiller Angle by Modulating Gravitropism in Rice.Rice (New York, N.Y.) · 2025Article
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- The ribosomal protein P0A is required for embryo development in rice.BMC plant biology · 2023Article
- Transposons are important contributors to gene expression variability under selection in rice populations.eLife · 2023Article
- A chromosome-level genome assembly of an early matured aromaticFrontiers in plant science · 2023Article
- Development of an inclusive 580K SNP array and its application for genomic selection and genome-wide association studies in rice.Frontiers in plant science · 2022Article
- Global whole-genome comparison and analysis to classify subpopulations and identify resistance genes in weedy rice relevant for improving crops.Frontiers in plant science · 2022Article
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- Reference-Guided De Novo Genome Assembly to Dissect a QTL Region for Submergence Tolerance Derived from Ciherang-Sub1.Plants (Basel, Switzerland) · 2021Article
- Development of a genome-wide InDel marker set for allele discrimination between rice (Oryza sativa) and the other seven AA-genome Oryza species.Scientific reports · 2021Article
- Utilizing PacBio Iso-Seq for Novel Transcript and Gene Discovery of Abiotic Stress Responses inInternational journal of molecular sciences · 2020Article
- A platinum standard pan-genome resource that represents the population structure of Asian rice.Scientific data · 2020Article
- Development of Whole-Genome Agarose-Resolvable LInDel Markers in Rice.Rice (New York, N.Y.) · 2020Article
- Potential of Platinum Standard Reference Genomes to Exploit Natural Variation in the Wild Relatives of Rice.Frontiers in plant science · 2020Review
- An Improved Recombineering Toolset for Plants.The Plant cell · 2020Article
- Evaluation of Whole-Genome Sequence, Genetic Diversity, and Agronomic Traits of Basmati Rice (Frontiers in genetics · 2020Article
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30 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Over the past 30 years, we have performed many fundamental studies on two Oryza sativa subsp. indica varieties, Zhenshan 97 (ZS97) and Minghui 63 (MH63). To improve the resolution of many of these investigations, we generated two reference-quality reference genome assemblies using the most advanced sequencing technologies. Using PacBio SMRT technology, we produced over 108 (ZS97) and 174 (MH63) Gb of raw sequence data from 166 (ZS97) and 209 (MH63) pools of BAC clones, and generated ~97 (ZS97) and ~74 (MH63) Gb of paired-end whole-genome shotgun (WGS) sequence data with Illumina sequencing technology. With these data, we successfully assembled two platinum standard reference genomes that have been publicly released. Here we provide the full sets of raw data used to generate these two reference genome assemblies. These data sets can be used to test new programs for better genome assembly and annotation, aid in the discovery of new insights into genome structure, function, and evolution, and help to provide essential support to biological research in general.
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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.