Resource Type:
Genome Assembly
Name:
Carrot Genome Assembly DH1 v3.0
Description:
Pacific Bioscience, Oxford Nanopore, Illumina Paired-End (PE) and Hi-C sequencing data were used to develop an improved genome assembly and annotation of the doubled haploid orange Nantes-type carrot DH1, NCBI BioSample SAMN03216637. The new DH1 v3 assembly spans 440.7 Mb, assembled into nine chromosomes which represent ~93% of the estimated nuclear genome size (473 Mb).
This genome is available in the CarrotOmics Blast Search
File:
| File | Type |
|---|---|
| Carrot Genome Assembly DCARv3 Sequence Original Naming Scheme | FASTA format |
Publication:
Coe K, Bostan H, Rolling W, Turner-Hissong S, Macko-Podgórni A, Senalik D, Liu S, Seth R, Curaba J, Mengist MF, Grzebelus D, Van Deynze A, Dawson J, Ellison S, Simon P, Iorizzo M. Population genomics identifies genetic signatures of carrot domestication and improvement and uncovers the origin of high-carotenoid orange carrots.. Nature plants. 2023 Oct; 9(10):1643-1658.
Relationship:
Cross Reference:
Project:
| Name | Description |
|---|---|
The project goals are to improve the assembly of the genome of cultivated carrot, and improve gene predictions using this improved assembly. |
Organism:
| Name | Common Name | Comment |
|---|---|---|
Carrot | For a general overview of carrot, see the Carrot Facts Page |
Biomaterial:
| Name | Description |
|---|---|
This biosample is also known by its germplasm accession of DH1, please see this record for more details. |
Stock:
| Name | Uniquename | Stock Type |
|---|---|---|
DH1 | breeding_research_material |
Feature:
Program, Pipeline, Workflow or Method Name:
FALCON 0.3.0; CANU 1.5; Pilon 1.23; SALSA2; PBjelly 15.8.24; RaGOO; LR_Gapcloser
Program Version:
Genome assembly version 3.0
Algorithm:
de-novo assembly
Date Performed:
Tuesday, October 8, 2019 - 00:00
Data Source:
- Source Name
- : PRJNA798760
- Source URI
- : https://www.ncbi.nlm.nih.gov/bioproject/PRJNA798760