title: EU-OSTID: a collection of transposon insertional mutants for functional genomics in rice.
abstract: A collection of 1373 unique flanking sequence tags (FSTs), generated from Ac/Ds and Ac transposon lines for reverse genetics studies, were produced in japonica and indica rice, respectively. The Ds and Ac FSTs together with the original T-DNAs were assigned a position in the rice genome sequence represented as assembled pseudomolecules, and found to be distributed evenly over the entire rice genome with a distinct bias for predicted gene-rich regions. The bias of the Ds and Ac transposon inserts for genes was exemplified by the presence of 59% of the inserts in genes annotated on the rice chromosomes and 41% present in genes transcribed as disclosed by their homology to cDNA clones. In a screen for inserts in a set of 75 well annotated transcription factors, including homeobox-containing genes, we found six Ac/Ds inserts. This high frequency of Ds and Ac inserts in genes suggests that saturated knockout mutagenesis in rice using this strategy will be efficient and possible with a lower number of inserts than expected. These FSTs and the corresponding plant lines are publicly available through OrygenesDB database and from the EU consortium members.
authors.affiliation: Plant Research International, Wageningen UR, Wageningen, The Netherlands.
authors.forename: L J G
authors.initials: LJ
authors.lastname: van Enckevort
authors.forename: Gaëtan
authors.initials: G
authors.lastname: Droc
authors.forename: Pietro
authors.initials: P
authors.lastname: Piffanelli
authors.forename: Raffaella
authors.initials: R
authors.lastname: Greco
authors.forename: Cyril
authors.initials: C
authors.lastname: Gagneur
authors.forename: Christele
authors.initials: C
authors.lastname: Weber
authors.forename: Víctor M
authors.initials: VM
authors.lastname: González
authors.forename: Pere
authors.initials: P
authors.lastname: Cabot
authors.forename: Fabio
authors.initials: F
authors.lastname: Fornara
authors.forename: Stefano
authors.initials: S
authors.lastname: Berri
authors.forename: Berta
authors.initials: B
authors.lastname: Miro
authors.forename: Ping
authors.initials: P
authors.lastname: Lan
authors.forename: Marta
authors.initials: M
authors.lastname: Rafel
authors.forename: Teresa
authors.initials: T
authors.lastname: Capell
authors.forename: Pere
authors.initials: P
authors.lastname: Puigdomènech
authors.forename: Pieter B F
authors.initials: PB
authors.lastname: Ouwerkerk
authors.forename: Annemarie H
authors.initials: AH
authors.lastname: Meijer
authors.forename: Enrico
authors.initials: E
authors.lastname: Pe'
authors.forename: Lucia
authors.initials: L
authors.lastname: Colombo
authors.forename: Paul
authors.initials: P
authors.lastname: Christou
authors.forename: Emmanuel
authors.initials: E
authors.lastname: Guiderdoni
authors.forename: Andy
authors.initials: A
authors.lastname: Pereira
mesh_terms: D001665:Binding Sites / Q000235:genetics; D002874:Chromosome Mapping; D032461:Chromosomes, Plant / Q000235:genetics; D004251:DNA Transposable Elements / Q000235:genetics*; D004269:DNA, Bacterial / Q000235:genetics; D018744:DNA, Plant / Q000235:genetics* / Q000302:isolation & purification; D030541:Databases, Genetic; D018745:Genome, Plant; D023281:Genomics / Q000379:methods*; D016254:Mutagenesis, Insertional / Q000379:methods; D009154:Mutation / Q000235:genetics*; D012275:Oryza / Q000235:genetics*; D014157:Transcription Factors / Q000235:genetics
chemical_list: D004251:DNA Transposable Elements; D004269:DNA, Bacterial; D018744:DNA, Plant; C036483:T-DNA; D014157:Transcription Factors