Chromosome‐scale pseudomolecules refined by optical, physical and genetic maps in flax
Chromosome‐scale pseudomolecules refined by optical, physical and genetic maps in flax
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- creativework.keywords - en
- optical mapping
- BioNano technology
- genome sequencing
- physical map
- genetic map
- genome finishing
- flax
- creativework.keywords - fr
- cartographie optique
- nanobiotechnologie
- séquençage du génome
- carte physique
- carte génétique
- lin
- finition du génome
- dc.contributor.author
- You, Frank M.
- Xiao, Jin
- Li, Pingchuan
- Yao, Zhen
- Jia, Gaofeng
- He, Liqiang
- Zhu, Tingting
- Luo, Ming‐Cheng
- Wang, Xiue
- Deyholos, Michael K.
- Cloutier, Sylvie
- dc.date.accessioned
- 2023-04-20T20:31:25Z
- dc.date.available
- 2023-04-20T20:31:25Z
- dc.date.issued
- 2018-04-22
- dc.description - en
- N/A
- dc.description.abstract - en
- Genomes of varying sizes have been sequenced with next-generation sequencing platforms. However, mostreference sequences include draft unordered scaffolds containing chimeras caused by mis-scaffolding. A Bio-Nano genome (BNG) optical map was constructed to improve the previously sequenced flax genome (LinumusitatissimumL., 2n=30, about 373 Mb), which consisted of 3852 scaffolds larger than 1 kb and totalling300.6 Mb. The high-resolution BNG map of cv. CDC Bethune totalled 317 Mb and consisted of 251 BNG con-tigs with an N50 of 2.15 Mb. A total of 622 scaffolds (286.6 Mb, 94.9%) aligned to 211 BNG contigs(298.6 Mb, 94.2%). Of those, 99 scaffolds, diagnosed to contain assembly errors, were refined into 225 newscaffolds. Using the newly refined scaffold sequences and the validated bacterial artificial chromosome-based physical map of CDC Bethune, the 211 BNG contigs were scaffolded into 94 super-BNG contigs (N50of 6.64 Mb) that were further assigned to the 15 flax chromosomes using the genetic map. The pseudo-molecules total about 316 Mb, with individual chromosomes of 15.6 to 29.4 Mb, and cover 97% of the anno-tated genes. Evidence from the chromosome-scale pseudomolecules suggests that flax has undergonepalaeopolyploidization and mesopolyploidization events, followed by rearrangements and deletions orfusion of chromosome arms from an ancient progenitor with a haploid chromosome number of eight.
- dc.identifier.citation
- You, F. M., Xiao, J., Li, P., Yao, Z., Jia, G., He, L., Zhu, T., Luo, M.-C., Wang, X., Deyholos, M. K., & Cloutier, S. (2018). Chromosome-scale pseudomolecules refined by optical, physical and genetic maps in flax. The Plant Journal, 95(2), 371–384. https://doi.org/10.1111/tpj.13944
- dc.identifier.doi
- https://doi.org/10.1111/tpj.13944
- dc.identifier.issn
- 1365-313X
- dc.identifier.uri
- https://open-science.canada.ca/handle/123456789/234
- dc.language.iso
- en
- dc.publisher
- Wiley
- dc.rights.openaccesslevel - en
- Gold
- dc.rights.openaccesslevel - fr
- Or
- dc.subject - en
- Agriculture
- dc.subject - fr
- Agriculture
- dc.subject.en - en
- Agriculture
- dc.subject.fr - fr
- Agriculture
- dc.title - en
- Chromosome‐scale pseudomolecules refined by optical, physical and genetic maps in flax
- dc.title.fosrctranslation - fr
- Chromosome‐scale pseudomolecules refined by optical, physical and genetic maps in flax
- dc.type - en
- Article
- dc.type - fr
- Article
- local.article.journalissue
- 2
- local.article.journaltitle
- The Plant Journal
- local.article.journalvolume
- 95
- local.article.pagination
- 371-384
- local.peerreview - en
- Yes
- local.peerreview - fr
- Oui
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