Lens odemensis: IG 72623 Genome Assembly 1.0
Overview
| Assembly Genome Size |
3.55 Gb
|
|---|---|
| Number Of Scaffolds |
1367
|
| Scaffold N50 length |
469 Mb
|
| Contig N50 Length |
3.269 Mb
|
Description
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 (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
|
Analysis Method
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.
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Data Release
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 (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