2020
DOI: 10.1038/s41586-020-2961-x
| View full text |Cite
|
Sign up to set email alerts
|

Abstract: Advances in genomics have expedited the improvement of several agriculturally important crops but similar efforts in wheat (Triticum spp.) have been more challenging. This is largely owing to the size and complexity of the wheat genome1, and the lack of genome-assembly data for multiple wheat lines2,3. Here we generated ten chromosome pseudomolecule and five scaffold assemblies of hexaploid wheat to explore the genomic diversity among wheat lines from global breeding programs. Comparative analysis revealed ext… Show more

Help me understand this report

Search citation statements

Order By: Relevance

Paper Sections

Select...
3
1

Citation Types

11
500
0
1

Year Published

2020
2020
2023
2023

Publication Types

Select...
5
1

Relationship

2
4

Authors

Journals

citations
Cited by 545 publications
(512 citation statements)
references
References 77 publications
(97 reference statements)
11
500
0
1
Order By: Relevance
“…1a). The presence of near-identical sequences (<99.99% sequence identity) is consistent with the expected sequence divergence in wheat haplotypes over the past 10,000 years (99.968%, see "Methods"), whereas the physical intervals with <99.5% sequence identity were consistent with introgressions from more distant wild wheat relatives 7,10,11 . For each set of pairwise alignments between cultivars, we calculated the median sequence identity of alignments in 5-Mbp bins across chromosomes.…”
Section: Resultssupporting
confidence: 75%
See 4 more Smart Citations
“…1a). The presence of near-identical sequences (<99.99% sequence identity) is consistent with the expected sequence divergence in wheat haplotypes over the past 10,000 years (99.968%, see "Methods"), whereas the physical intervals with <99.5% sequence identity were consistent with introgressions from more distant wild wheat relatives 7,10,11 . For each set of pairwise alignments between cultivars, we calculated the median sequence identity of alignments in 5-Mbp bins across chromosomes.…”
Section: Resultssupporting
confidence: 75%
“…As the NUCmer-based approach does not allow for direct comparisons between the five scaffold-level assemblies, we used a complementary method based on a sliding window approach using pairwise BLAST alignments of reference gene model projections to all assemblies 7 (see "Methods" for details). To select parameters for defining haplotype blocks using gene-based BLAST alignments we performed a precision-recall analysis using the NUCmer-defined haplotypes as ground truth, testing a range of sliding window sizes (10, 15, 20, 25 and 30 genes) and flanking sequence surrounding genes (CDS only and gDNA ± 0, 1-, 2-or 5-Kbp) ( Supplementary Fig.…”
Section: Resultsmentioning
confidence: 99%
See 3 more Smart Citations