title: Construction and evaluation of cDNA libraries for large-scale expressed sequence tag sequencing in wheat (Triticum aestivum L.).
abstract: A total of 37 original cDNA libraries and 9 derivative libraries enriched for rare sequences were produced from Chinese Spring wheat (Triticum aestivum L.), five other hexaploid wheat genotypes (Cheyenne, Brevor, TAM W101, BH1146, Butte 86), tetraploid durum wheat (T. turgidum L.), diploid wheat (T. monococcum L.), and two other diploid members of the grass tribe Triticeae (Aegilops speltoides Tausch and Secale cereale L.). The emphasis in the choice of plant materials for library construction was reproductive development subjected to environmental factors that ultimately affect grain quality and yield, but roots and other tissues were also included. Partial cDNA expressed sequence tags (ESTs) were examined by various measures to assess the quality of these libraries. All ESTs were processed to remove cloning system sequences and contaminants and then assembled using CAP3. Following these processing steps, this assembly yielded 101,107 sequences derived from 89,043 clones, which defined 16,740 contigs and 33,213 singletons, a total of 49,953 "unigenes." Analysis of the distribution of these unigenes among the libraries led to the conclusion that the enrichment methods were effective in reducing the most abundant unigenes and to the observation that the most diverse libraries were from tissues exposed to environmental stresses including heat, drought, salinity, or low temperature.
authors.affiliation: Department of Plant and Soil Science, Texas Tech University, Lubbock, Texas 79409, USA.
authors.forename: D
authors.initials: D
authors.lastname: Zhang
authors.forename: D W
authors.initials: DW
authors.lastname: Choi
authors.forename: S
authors.initials: S
authors.lastname: Wanamaker
authors.forename: R D
authors.initials: RD
authors.lastname: Fenton
authors.forename: A
authors.initials: A
authors.lastname: Chin
authors.forename: M
authors.initials: M
authors.lastname: Malatrasi
authors.forename: Y
authors.initials: Y
authors.lastname: Turuspekov
authors.forename: H
authors.initials: H
authors.lastname: Walia
authors.forename: E D
authors.initials: ED
authors.lastname: Akhunov
authors.forename: P
authors.initials: P
authors.lastname: Kianian
authors.forename: C
authors.initials: C
authors.lastname: Otto
authors.forename: K
authors.initials: K
authors.lastname: Simons
authors.forename: K R
authors.initials: KR
authors.lastname: Deal
authors.forename: V
authors.initials: V
authors.lastname: Echenique
authors.forename: B
authors.initials: B
authors.lastname: Stamova
authors.forename: K
authors.initials: K
authors.lastname: Ross
authors.forename: G E
authors.initials: GE
authors.lastname: Butler
authors.forename: L
authors.initials: L
authors.lastname: Strader
authors.forename: S D
authors.initials: SD
authors.lastname: Verhey
authors.forename: R
authors.initials: R
authors.lastname: Johnson
authors.forename: S
authors.initials: S
authors.lastname: Altenbach
authors.forename: K
authors.initials: K
authors.lastname: Kothari
authors.forename: C
authors.initials: C
authors.lastname: Tanaka
authors.forename: M M
authors.initials: MM
authors.lastname: Shah
authors.forename: D
authors.initials: D
authors.lastname: Laudencia-Chingcuanco
authors.forename: P
authors.initials: P
authors.lastname: Han
authors.forename: R E
authors.initials: RE
authors.lastname: Miller
authors.forename: C C
authors.initials: CC
authors.lastname: Crossman
authors.forename: S
authors.initials: S
authors.lastname: Chao
authors.forename: G R
authors.initials: GR
authors.lastname: Lazo
authors.forename: N
authors.initials: N
authors.lastname: Klueva
authors.forename: J P
authors.initials: JP
authors.lastname: Gustafson
authors.forename: S F
authors.initials: SF
authors.lastname: Kianian
authors.forename: J
authors.initials: J
authors.lastname: Dubcovsky
authors.forename: M K
authors.initials: MK
authors.lastname: Walker-Simmons
authors.forename: K S
authors.initials: KS
authors.lastname: Gill
authors.forename: J
authors.initials: J
authors.lastname: Dvorák
authors.forename: O D
authors.initials: OD
authors.lastname: Anderson
authors.forename: M E
authors.initials: ME
authors.lastname: Sorrells
authors.forename: P E
authors.initials: PE
authors.lastname: McGuire
authors.forename: C O
authors.initials: CO
authors.lastname: Qualset
authors.forename: H T
authors.initials: HT
authors.lastname: Nguyen
authors.forename: T J
authors.initials: TJ
authors.lastname: Close
mesh_terms: D020224:Expressed Sequence Tags / Q000737:chemistry*; D015723:Gene Library; D005822:Genetic Vectors; D017422:Sequence Analysis, DNA; D013382:Subtraction Technique; D014908:Triticum / Q000235:genetics*