We here firstly assembled a complete genome sequence of the rice reference genome (Nipponbare), named T2T-NIP, derived from a total of 36 Gb Hi-C dataset, 1043 Gb PacBio HIFI reads, 173 Gb Nanopore ONT reads, 23 Gb Illumina Paired-End reads, 11 Gb Illumina Paired-End RNA-Seq reads and 10 Gb Full-length RNA-Seq reads.
More...We here firstly assembled a complete genome sequence of the rice reference genome (Nipponbare), named T2T-NIP, derived from a total of 36 Gb Hi-C dataset, 1043 Gb PacBio HIFI reads, 173 Gb Nanopore ONT reads, 23 Gb Illumina Paired-End reads, 11 Gb Illumina Paired-End RNA-Seq reads and 10 Gb Full-length RNA-Seq reads. By evaluating and verifying the quality of the genome in terms of assembly statistics, gap and assembly errors, gene distribution and segmental repeats, we proved the advantage of this new reference genome on assembly completeness, sequence accuracy and functional elements annotation.
Less...| Accession | PRJNA953663 |
| Data Type | Raw sequence reads |
| Scope | Multispecies |
| Publications (total 5) Less... | - Shang L et al., "A complete assembly of the rice Nipponbare reference genome.", Mol Plant, 2023 Aug 7;16(8):1232-1236
More...- Shang L et al., "A complete assembly of the rice Nipponbare reference genome.", Mol Plant, 2023 Aug 7;16(8):1232-1236
- Notsu Y et al., "The complete sequence of the rice (Oryza sativa L.) mitochondrial genome: frequent DNA sequence acquisition and loss during the evolution of flowering plants.", Mol Genet Genomics, 2002 Dec;268(4):434-45
- Morton BR et al., "A chloroplast DNA mutational hotspot and gene conversion in a noncoding region near rbcL in the grass family (Poaceae).", Curr Genet, 1993 Oct;24(4):357-65
- Shimada H et al., "Fine structural features of the chloroplast genome: comparison of the sequenced chloroplast genomes.", Nucleic Acids Res, 1991 Mar 11;19(5):983-95
- Hiratsuka J et al., "The complete sequence of the rice (Oryza sativa) chloroplast genome: intermolecular recombination between distinct tRNA genes accounts for a major plastid DNA inversion during the evolution of the cereals.", Mol Gen Genet, 1989 Jun;217(2-3):185-94
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| Submission | Registration date: 9-Apr-2023
Agricultural Genomics Institute at Shenzhen, Chinese Academy of Agricultural Sciences |
Project Data:
| Resource Name | Number
of Links |
|---|
| Sequence data |
| Nucleotide (Genomic DNA) | 12 |
| SRA Experiments | 10 |
| Publications |
| PubMed | 5 |
| PMC | 1 |
| Other datasets |
| BioSample | 4 |
| Assembly | 1 |
Related Project Category: RefseqGenbank