Carrot Genome Assembly DH1 v3.0

Core Data
integrated_assembly
Name
Carrot Genome Assembly DH1 v3.0
Type
Sequence assembly (genome assembly)
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

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
Data Source Name
PRJNA798760
Data Source URI

https://www.ncbi.nlm.nih.gov/bioproject/PRJNA798760

Relationship
Database Reference Annotations
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.
Project
Improved Hybrid de novo Genome Assembly, Gene Prediction and Annotation of Carrot
Biological Sample
SAMN03216637
Sequence Feature
  • DCARv3_Chr1
  • DCARv3_Chr2
  • DCARv3_Chr3
  • DCARv3_Chr4
  • DCARv3_Chr5
  • DCARv3_Chr6
  • DCARv3_Chr7
  • DCARv3_Chr8
  • DCARv3_Chr9
  • DCARv3_MT
  • DCARv3_PT
File
File Type
Carrot Genome Assembly DCARv3 Sequence Original Naming Scheme FASTA format
Organism
Daucus carota subsp. sativus
Germplasm
DH1
Date and Time Executed
2019-10-08 05:00:00