Functional diversity of genes
involved in rice panicle architecture.
PIs: Dr. Stefan JOUANNIC (IRD) - Dr Le Thuy Ham (AGI)
Other peoples: Dr. Hélène Adam (IRD), Pr. Pascal Gantet (IRD/UM2), Dr. Khong Ngan Giang (AGI) Dr. Alain Ghesquières (IRD), Dr. La Tuan Nghia (PGRI), Dr Mai Duc Chung (AGI), Msc. Nguyen Van Cuu (AGI), Msc Le Thi Loan (PGRI),
PhD student : Ta Kim Nhung (scholarships from 322 programme
Inflorescence structure is a key character in the process of domestication, which
often involves a change in the pattern and timing of branching, and ultimately
the yield, since it directly affects
the numbers of flowers and seeds produced. An understanding of the molecular
mechanisms involved in panicle development in Asian rice species is an
important issue for yield improvement breeding programs, through the
identification of functional nucleotide polymorphisms (FNPs)
suitable for marker-assisted selection (MAS). Cellular events associated to panicle development
and genes affecting the panicle architecture and the seed number per panicle
have already been described in O. sativa.
Nevertheless, FNPs associated to these genes in O. sativa and/or other AA genome rice species have not been
reported. Moreover, little is known about developmental and molecular
mechanisms associated to panicle architecture in African rice.
The main objective of this project is to identify the determinants
of the panicle architecture and function under optimal conditions and to assess
their allelic diversity in both Asian and African species (cultivated and
wild-relative species). The first part of the project will concern the analysis
of the inter-specific diversity between cultivated and wild-relatives in Asia
and Africa. The second part of the project will be specifically dedicated to
the analysis of the panicle diversity of traditional Vietnamese accessions.
characterization of the cellular processes at the origin of differential
panicle architecture and functioning in various rice
species: O. sativa, O. rufipogon, O. glaberrima and O. barthii
selected among the set of accessions identified for deep resequencing. This approach will be sustained by the characterisation of expression
pattern of key genes involved in O.
sativa panicle development. This work will be conducted in France (IRD,
2. Characterisation of the intra-specific diversity of traditional
accessions of O. sativa from Vietnam
through association mapping. A core-collection of Vietnamese accessions will be
established through genotyping and phenotyping. In this context, the mature
panicles from 270 accessions will be phenotyped in detail. This approach will
identify contrasted accessions that will be further characterised in #1. This
work will be conducted in Vietnam (IGA and PRC, Hanoi)
3. Search for allelic diversity and FNPs through the analysis of O. sativa panicle-associated candidate
gene allelic diversity in the AA genome rice species. This work will be
conducted in Vietnam (IGA, Hanoi) and in France (IRD, Montpellier). Functional
analysis of the FNPs identified will be conducted through transgenic approaches
and will be supported by the Rice Functional Genomics Platform at CIRAD
(France) and the IGA (Hanoi).
Evaluation of plantlets of the rice collection in the Plant Genetic Ressource Institute, Vietnam, July 2011
This project will be conducted on both sites:
IRD-Montpellier and LMI/IAG-Hanoi. A PhD student from Vietnam will be involved
in this project (Ms. Ta Kim Nhung). She will share her time between FR (9 months/year) and VN (3
months/year) over 3 years.
During the first year, a stays of 3 months are planned
for Ta Kim Nhung (PhD
student) and Dr. Stefan Jouannic (IRD) at the same time in order to initiate
the activities concerning the diversity of panicule architecture of VN
rice cultivars, and to plan the activities concerning the optimization
of rice genetic transformation protocol.