Lens culinaris: CDC Greenstar Genome Assembly v1.0

Overview
Assembly Details
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Citation
Ramsay L, Koh K, Bett KE (2023 Jan 06) Lens culinaris: CDC Greenstar genome assembly (Lcu.1GRN, version 1.0) [dataset]. University of Saskatchewan. Retrieved from https://knowpulse.usask.ca/genome-assembly/Lcu.1GRN
Overview
Date Released
January 2023
Data Source
Source Name
: CDC Greenstar
Statistics
Assembly Genome Size
3,838,553,842
Number Of Scaffolds
40
Scaffold N50 length
190,334,849
This CDC Greenstar Lens culinaris genome assembly (Lcu.1GRN) was assembled using highly accurate long read sequencing, or HiFi reads (37x coverage) and the assembler LRA, resulting in 1635 contigs. Scaffolding of the contigs was done using Irys optical mapping data and these were aligned to the CDC Redberry 2.0 assembly and ordered relative to that reference. Further validation was done using genetic maps with CDC Greenstar as one of the parents. The finished assembly is 3.839 Gb, 3.799 Gb of which are arranged in 7 pseudomolecules.
Assembly Details
Workflow/Pipeline Name
USASK BettLab HiFi genome assembly workflow
Algorithm
LRA
Program Version
n/a
37x coverage of HiFi reads >10kb in length were assembled using the default parameters of LRA. Irys optical mapping data was used to further scaffold the 1635 contigs. These scaffolds were aligned to the CDC Redberry 2.0 assembly and ordered relative to that reference. This pseudomolecule assembly was checked against genetic maps with CDC Greenstar as one of the parents, as confirmation for scaffold ordering.