Agriculture Reference
In-Depth Information
under optimum conditions and will be submitted to water-limited
conditions to score each individual for yield under drought. Upon the
development of a GSmodel, GEBV are de
ned on genotyped individuals
of a BP. The BP was developed from a fraction of the TP, which followed
two cycles of recombination. Several cycles of recurrent GS will be per-
formed to assess the power of the method by evaluating the genetic gain
relative to the potential gain in time. Furthermore, by evaluating the
TP for G
E interactions, the rice GS breeding model will be enriched by
adding an estimate of environmental variance. This TP encompassing a
wide genetic diversity within
tropical japonica
rice could be evaluated
for additional agronomic traits of interest to physiologists and breeders
in LAC and other rice-growing regions.
×
D. Germplasm Characterization by Resequencing
In collaboration with Yale University, we recently performed whole-
genome resequencing of 15 elite
indica
and
japonica
cultivars. We
obtained a database of
500,000 SNPs in unique genomic regions and
with genotype calls in at least 13 of the 15 sequenced samples. With
this database, we were able to identify variants segregating within
indica
and
japonica
cultivars and regions corresponding to
indica
>
-
japonica
introgression in each sequenced cultivar. We also extracted
from this database SNPmarkers to performmarker-assisted selection of
traits related to grain quality. We expect to increase the number of
sequenced samples to 200 by the end of 2014 in order to increase the
completeness and accuracy of our data set of genomic variants.
E. Functional Genomics
In an effort to contribute to the International Functional Genomics
Consortium, Dr. E. Guiderdoni
s laboratory at CIRAD developed a
library of T-DNA insertion lines (Sallaud et al. 2004). These lines
were characterized at CIAT between 2003 and 2008 through an exten-
sive phenomics study at the
'
field level (Lorieux et al. 2012). A total of
28,000 lines were scored for a series of standard traits de
ned by the
Trait Ontology Consortium. The acquired data, together with the
flanking sequence tags (FSTs) of the T-DNA and Tos17 insertions,
provide a powerful tool for reverse genetic analyses. The Paddy Genes
Book database was developed and is available upon request from the
author. An online version,
Oryza
Tag Line, is also available (Larmande
et al. 2008). Seeds of T-DNA lines should be ordered from Dr. E.
Guiderdoni at CIRAD.
