eprintid: 25447
rev_number: 17
eprint_status: archive
userid: 1589
dir: disk0/00/02/54/47
datestamp: 2018-11-07 17:35:04
lastmod: 2024-04-19 06:57:54
status_changed: 2018-11-07 17:35:04
type: article
metadata_visibility: show
creators_name: Keeble-Gagnère, Gabriel
creators_name: Rigault, Philippe
creators_name: Tibbits, Josquin
creators_name: Pasam, Raj
creators_name: Hayden, Matthew
creators_name: Forrest, Kerrie
creators_name: Frenkel, Zeev
creators_name: Korol, Abraham
creators_name: Huang, B. Emma
creators_name: Cavanagh, Colin
creators_name: Taylor, Jen
creators_name: Abrouk, Michael
creators_name: Sharpe, Andrew
creators_name: Konkin, David
creators_name: Sourdille, Pierre
creators_name: Darrier, Benoît
creators_name: Choulet, Frédéric
creators_name: Bernard, Aurélien
creators_name: Rochfort, Simone
creators_name: Dimech, Adam
creators_name: Watson-Haigh, Nathan
creators_name: Baumann, Ute
creators_name: Eckermann, Paul
creators_name: Fleury, Delphine
creators_name: Juhasz, Angela
creators_name: Boisvert, Sébastien
creators_name: Nolin, Marc-Alexandre
creators_name: Doležel, Jaroslav
creators_name: Šimková, Hana
creators_name: Toegelová, Helena
creators_name: Šafář, Jan
creators_name: Luo, Ming-Cheng
creators_name: Câmara, Francisco
creators_name: Pfeifer, Matthias
creators_name: Isdale, Don
creators_name: Nyström-Persson, Johan
creators_name: Koo, Dal-Hoe
creators_name: Tinning, Matthew
creators_name: Cui, Dangqun
creators_name: Ru, Zhengang
creators_name: Appels, Rudi
corp_creators: International Wheat Genome Sequencing Consortium (IWGSC)
title: Optical and physical mapping with local finishing enables megabase-scale resolution of agronomically important regions in the wheat genome
subjects: ddc-570
divisions: i-721000
abstract: Abstract: Background Numerous scaffold-level sequences for wheat are now being released and, in this context, we report on a strategy for improving the overall assembly to a level comparable to that of the human genome.

Results: Using chromosome 7A of wheat as a model, sequence-finished megabase-scale sections of this chromosome were established by combining a new independent assembly using a bacterial artificial chromosome (BAC)-based physical map, BAC pool paired-end sequencing, chromosome-arm-specific mate-pair sequencing and Bionano optical mapping with the International Wheat Genome Sequencing Consortium RefSeq v1.0 sequence and its underlying raw data. The combined assembly results in 18 super-scaffolds across the chromosome. The value of finished genome regions is demonstrated for two approximately 2.5 Mb regions associated with yield and the grain quality phenotype of fructan carbohydrate grain levels. In addition, the 50 Mb centromere region analysis incorporates cytological data highlighting the importance of non-sequence data in the assembly of this complex genome region.

Conclusions Sufficient genome sequence information is shown to now be available for the wheat community to produce sequence-finished releases of each chromosome of the reference genome. The high-level completion identified that an array of seven fructosyl transferase genes underpins grain quality and that yield attributes are affected by five F-box-only-protein-ubiquitin ligase domain and four root-specific lipid transfer domain genes. The completed sequence also includes the centromere.
date: 2018
publisher: BioMed Central
id_scheme: DOI
ppn_swb: 1657152227
own_urn: urn:nbn:de:bsz:16-heidok-254475
language: eng
bibsort: KEEBLEGAGNOPTICALAND2018
full_text_status: public
publication: Genome Biology
volume: 19
number: 112
place_of_pub: London
pagerange: 1-18
issn: 1474-760X
citation:   Keeble-Gagnère, Gabriel ; Rigault, Philippe ; Tibbits, Josquin ; Pasam, Raj ; Hayden, Matthew ; Forrest, Kerrie ; Frenkel, Zeev ; Korol, Abraham ; Huang, B. Emma ; Cavanagh, Colin ; Taylor, Jen ; Abrouk, Michael ; Sharpe, Andrew ; Konkin, David ; Sourdille, Pierre ; Darrier, Benoît ; Choulet, Frédéric ; Bernard, Aurélien ; Rochfort, Simone ; Dimech, Adam ; Watson-Haigh, Nathan ; Baumann, Ute ; Eckermann, Paul ; Fleury, Delphine ; Juhasz, Angela ; Boisvert, Sébastien ; Nolin, Marc-Alexandre ; Doležel, Jaroslav ; Šimková, Hana ; Toegelová, Helena ; Šafář, Jan ; Luo, Ming-Cheng ; Câmara, Francisco ; Pfeifer, Matthias ; Isdale, Don ; Nyström-Persson, Johan ; Koo, Dal-Hoe ; Tinning, Matthew ; Cui, Dangqun ; Ru, Zhengang ; Appels, Rudi  (2018) Optical and physical mapping with local finishing enables megabase-scale resolution of agronomically important regions in the wheat genome.  Genome Biology, 19 (112).  pp. 1-18.  ISSN 1474-760X     
document_url: https://archiv.ub.uni-heidelberg.de/volltextserver/25447/1/13059_2018_Article_1475.pdf