title: Sequencing and assembly of low copy and genic regions of isolated Triticum aestivum chromosome arm 7DS.
abstract: The genome of bread wheat (Triticum aestivum) is predicted to be greater than 16 Gbp in size and consist predominantly of repetitive elements, making the sequencing and assembly of this genome a major challenge. We have reduced genome sequence complexity by isolating chromosome arm 7DS and applied second-generation technology and appropriate algorithmic analysis to sequence and assemble low copy and genic regions of this chromosome arm. The assembly represents approximately 40% of the chromosome arm and all known 7DS genes. Comparison of the 7DS assembly with the sequenced genomes of rice (Oryza sativa) and Brachypodium distachyon identified large regions of conservation. The syntenic relationship between wheat, B. distachyon and O. sativa, along with available genetic mapping data, has been used to produce an annotated draft 7DS syntenic build, which is publicly available at http://www.wheatgenome.info. Our results suggest that the sequencing of isolated chromosome arms can provide valuable information of the gene content of wheat and is a step towards whole-genome sequencing and variation discovery in this important crop.
authors.affiliation: School of Land, Crop and Food Sciences and Australian Centre for Plant Functional Genomics, University of Queensland, Brisbane, QLD, Australia.
authors.forename: Paul J
authors.initials: PJ
authors.lastname: Berkman
authors.forename: Adam
authors.initials: A
authors.lastname: Skarshewski
authors.forename: Michał T
authors.initials: MT
authors.lastname: Lorenc
authors.forename: Kaitao
authors.initials: K
authors.lastname: Lai
authors.forename: Chris
authors.initials: C
authors.lastname: Duran
authors.forename: Edmund Y S
authors.initials: EY
authors.lastname: Ling
authors.forename: Jiri
authors.initials: J
authors.lastname: Stiller
authors.forename: Lars
authors.initials: L
authors.lastname: Smits
authors.forename: Michael
authors.initials: M
authors.lastname: Imelfort
authors.forename: Sahana
authors.initials: S
authors.lastname: Manoli
authors.forename: Megan
authors.initials: M
authors.lastname: McKenzie
authors.forename: Marie
authors.initials: M
authors.lastname: Kubaláková
authors.forename: Hana
authors.initials: H
authors.lastname: Šimková
authors.forename: Jacqueline
authors.initials: J
authors.lastname: Batley
authors.forename: Delphine
authors.initials: D
authors.lastname: Fleury
authors.forename: Jaroslav
authors.initials: J
authors.lastname: Doležel
authors.forename: David
authors.initials: D
authors.lastname: Edwards
mesh_terms: D000465:Algorithms; D058431:Brachypodium / Q000235:genetics; D032461:Chromosomes, Plant / Q000235:genetics; D018744:DNA, Plant / Q000737:chemistry / Q000235:genetics; D018745:Genome, Plant / Q000235:genetics*; D059014:High-Throughput Nucleotide Sequencing; D018519:Meristem / Q000235:genetics; D058977:Molecular Sequence Annotation; D012275:Oryza / Q000235:genetics; D020161:Physical Chromosome Mapping; D036226:Seedlings / Q000235:genetics; D017422:Sequence Analysis, DNA; D026801:Synteny / Q000235:genetics*; D014908:Triticum / Q000235:genetics*
chemical_list: D018744:DNA, Plant