Lens culinaris: CDC Greenstar Genome Assembly v1.0

Overview
Authors

Ramsay L, Koh K, Bett KE

Assembly Genome Size
3,838,553,842
Number Of Scaffolds
40
Scaffold N50 length
190,334,849
Contig N50 Length
37,934,641
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.
Methodology
Genus
Lens
Scientific Name
Lens culinaris
Data Source Version
Sequencing 2022
Data Source Name
CDC Greenstar
Abbreviation
Lcu.1GRN
Program, Pipeline, Workflow or Method Name
USASK BettLab HiFi genome assembly workflow
Program Version
2023

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.

Download

This genome is available in pre-release form. For access, send a detailed request by email to Dr. Kirstin Bett (k.bett(at)usask.ca).

Please contact Dr. Kirstin Bett for permission to publish an analysis using this genome assembly. Once permission is obtained, you can cite this assembly as

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://knowpulse2.usask.ca/genome-assembly/Lcu.1GRN