Lens odemensis: IG 72623 Genome Assembly 1.0

Overview
Authors

Ramsay L, Koh K, Bett KE

Assembly Genome Size
3.55 Gb
Number Of Scaffolds
1367
Scaffold N50 length
469 Mb
Contig N50 Length
3.269 Mb

This assembly of IG 72623 (Lens odemensis) was constructed with long-read data (41x Oxford nanopore reads). There were a total of 3305 contigs with the longest contig spanning 20.3 Mb. The contiguity of the assembly was further validated and improved using HiC data and a genetic map (LR-141; IG 72543 x IG 72623 intraspecific RIL). The finished assembly is 3.55 Gb arranged in 7 pseudo-molecules and 1360 unplaced unitigs (96.5% anchored).

Methodology
Genus
Lens
Scientific Name
Lens odemensis
Data Source Version
Sequencing 2021
Data Source Name
IG 72623
Abbreviation
Lod.1TUR
Program, Pipeline, Workflow or Method Name
GenomeFocus long read genome assembly workflow for large and highly repetitive genomes
Program Version
Oct 2021

Using the GenomeFocus workflow, long reads were assembled with smartdenovo and polished with racon. Due to the high degree of telomere tethering observed in Lens species, a genetic map was used to form the initial clusters for HiC data incorporation. ALLHiC is then used to order and orient contigs within each pseudomolecule cluster. Any corrections and a final manual check are made with Juicebox.

Download

This genome is available in pre-release form below. Specifically, you will receive a compressed archive of the genome assembly and associated files including a README with basic information.

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 (2022 Jun 23) Lens odemensis: IG 72623 genome assembly (Lod.1TUR, version 1.0) [dataset]. University of Saskatchewan. Retrieved from https://knowpulse.usask.ca/genome-assembly/Lod.1TUR

Genome Assembly: Lod.1TUR.zip

  • File Size: 945 MB
  • Md5 Checksum: e730e04bc25f36ee4767454c65d0cfbf
  • Last updated: Sep 2, 2026