2016
DOI: 10.1101/080796
|View full text |Cite
Preprint
|
Sign up to set email alerts
|

An improved assembly and annotation of the allohexaploid wheat genome identifies complete families of agronomic genes and provides genomic evidence for chromosomal translocations

Abstract: Advances in genome sequencing and assembly technologies are generating many high quality genome sequences, but assemblies of large, repeat-rich polyploid genomes, such as that of bread wheat, remain fragmented and incomplete. We have generated a new wheat whole-genome shotgun sequence assembly using a combination of optimised data types and an assembly algorithm designed to deal with large and complex genomes. The new assembly represents more than 78% of the genome with a scaffold N50 of 88.8kbp that has a hig… Show more

Help me understand this report
View published versions

Search citation statements

Order By: Relevance

Paper Sections

Select...
2
2
1

Citation Types

3
92
0

Year Published

2017
2017
2022
2022

Publication Types

Select...
8

Relationship

1
7

Authors

Journals

citations
Cited by 70 publications
(95 citation statements)
references
References 65 publications
3
92
0
Order By: Relevance
“…This new assembly, termed TGAC1, was classified into chromosome arms by alignment to raw reads from the IWGSC-CSS data [1] and represents nearly 80% of the 17 Gbp wheat genome which provides a 60% improvement in genome coverage. In confirmation with previous studies, more than 80% of the TGAC1 assembly comprised of transposable elements of which 70% were retro-elements and 13% DNA transposons [57].…”
Section: New Developmentssupporting
confidence: 71%
See 1 more Smart Citation
“…This new assembly, termed TGAC1, was classified into chromosome arms by alignment to raw reads from the IWGSC-CSS data [1] and represents nearly 80% of the 17 Gbp wheat genome which provides a 60% improvement in genome coverage. In confirmation with previous studies, more than 80% of the TGAC1 assembly comprised of transposable elements of which 70% were retro-elements and 13% DNA transposons [57].…”
Section: New Developmentssupporting
confidence: 71%
“…Clavijo et al (2016) [57] stated that despite all the improvements to date, an accurate and nearly complete assembly of the wheat genome is still out of reach.…”
Section: New Developmentsmentioning
confidence: 99%
“…The authors regret that reference to the wheat genome publication by Clavijo et al (2017) was missing from the original publication. The work made extensive use of TGAC gene models from the Clavijo et al (2017) publication.…”
Section: Acknowledgmentsmentioning
confidence: 99%
“…The work made extensive use of TGAC gene models from the Clavijo et al (2017) publication. The reference below has been added to the pdf and xml versions of the manuscript and resupplied on March 6, 2018.…”
Section: Acknowledgmentsmentioning
confidence: 99%
“…Most modern cultivars are sterile triploids that are composed of AAA genomes (Cavendish bananas, M. acuminata) or AAB genomes (plantains, M. aucuminata × M. balbisiana). A hexaploid wheat whole-genome shotgun assembly has been built from short-insert (250 bp) paired-end Illumina reads and longinsert mate-pair libraries using a new variation-aware contig assembler called w2rap 47 . The sequence assemblies were accurately assigned to the A, B and D genomes, and almost 14 Gb of the 17 Gb genome was represented.…”
Section: Combined Approaches To Genome Sequencing and Assemblymentioning
confidence: 99%