EU-OSTID: a collection of transposon insertional mutants for functional genomics in rice.
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.
van Enckevort
L J G
LJ
Plant Research International, Wageningen UR, Wageningen, The Netherlands.
Droc
Gaëtan
G
Piffanelli
Pietro
P
Greco
Raffaella
R
Gagneur
Cyril
C
Weber
Christele
C
González
Víctor M
VM
Cabot
Pere
P
Fornara
Fabio
F
Berri
Stefano
S
Miro
Berta
B
Lan
Ping
P
Rafel
Marta
M
Capell
Teresa
T
Puigdomènech
Pere
P
Ouwerkerk
Pieter B F
PB
Meijer
Annemarie H
AH
Pe'
Enrico
E
Colombo
Lucia
L
Christou
Paul
P
Guiderdoni
Emmanuel
E
Pereira
Andy
A
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
D004251:DNA Transposable Elements; D004269:DNA, Bacterial; D018744:DNA, Plant; C036483:T-DNA; D014157:Transcription Factors