A genome-wide association study using a Vietnamese landrace panel of rice (Oryza sativa) reveals new QTLs controlling panicle morphological traits

Autor: TA, Kim Nhung, KHONG, Ngan Giang, HA, Thi Loan, NGUYEN, Dieu Thu, MAI, Duc Chung, HOANG, Thi Giang, PHUNG, Thi Phuong Nhung, BOURRIE, Isabelle, COURTOIS, Brigitte, TRAN, Thi Thu Hoai, DINH, Bach Yen, LA, Tuan Nghia, DO, Nang Vinh, LEBRUN, Michel, GANTET, Pascal, JOUANNIC, Stefan
Přispěvatelé: National Institute of Genetics (NIG), Université de Montpellier (UM), University of sciences and technologies of hanoi (USTH), Palacky University Olomouc, Diversité, adaptation, développement des plantes (UMR DIADE), Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Université de Montpellier (UM)-Centre National de la Recherche Scientifique (CNRS)-Institut de Recherche pour le Développement (IRD [France-Sud]), Amélioration génétique et adaptation des plantes méditerranéennes et tropicales (UMR AGAP), Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Institut National de la Recherche Agronomique (INRA)-Centre international d'études supérieures en sciences agronomiques (Montpellier SupAgro)-Institut national d’études supérieures agronomiques de Montpellier (Montpellier SupAgro), Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro)-Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro), Plant Resource Center, Partenaires INRAE, Laboratoire des symbioses tropicales et méditerranéennes (UMR LSTM), Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Université Montpellier 1 (UM1)-Institut de Recherche pour le Développement (IRD)-Institut National de la Recherche Agronomique (INRA)-Université Montpellier 2 - Sciences et Techniques (UM2)-Université de Montpellier (UM)-Institut national d’études supérieures agronomiques de Montpellier (Montpellier SupAgro), Vietnam National Foundation for Science and Technology Development (NAFOSTED) : 106-NN.02-2016.60, Agropolis Foundation through the 'Investissements d'avenir' programme : ANR-10-LABX-0001-01, Fondazione Cariplo : EVOREPRICE 1201-004, ANR-10-LABX-0001,AGRO,Agricultural Sciences for sustainable Development(2010), University of Science and Technology of Hanoi (USTH)
Jazyk: angličtina
Rok vydání: 2018
Předmět:
Zdroj: BMC Plant Biology
BMC Plant Biology, BioMed Central, 2018, 18 (1), pp.282. ⟨10.1186/s12870-018-1504-1⟩
BMC Plant Biology, Vol 18, Iss 1, Pp 1-15 (2018)
BMC Plant Biology, 2018, 18 (1), pp.282. ⟨10.1186/s12870-018-1504-1⟩
BMC Plant Biology (18), . (2018)
ISSN: 1471-2229
Popis: Context Yield improvement is an important issue for rice breeding. Panicle architecture is one of the key components of rice yield and exhibits a large diversity. To identify the morphological and genetic determinants of panicle architecture, we performed a detailed phenotypic analysis and a genome-wide association study (GWAS) using an original panel of Vietnamese landraces. Results Using a newly developed image analysis tool, morphological traits of the panicles were scored over two years: rachis length; primary, secondary and tertiary branch number; average length of primary and secondary branches; average length of internode on rachis and primary branch. We observed a high contribution of spikelet number and secondary branch number per panicle to the overall phenotypic diversity in the dataset. Twenty-nine stable QTLs associated with seven traits were detected through GWAS over the two years. Some of these QTLs were associated with genes already implicated in panicle development. Importantly, the present study revealed the existence of new QTLs associated with the spikelet number, secondary branch number and primary branch number traits. Conclusions Our phenotypic analysis of panicle architecture variation suggests that with the panel of samples used, morphological diversity depends largely on the balance between indeterminate vs. determinate axillary meristem fate on primary branches, supporting the notion of differences in axillary meristem fate between rachis and primary branches. Our genome-wide association study led to the identification of numerous genomic sites covering all the traits studied and will be of interest for breeding programs aimed at improving yield. The new QTLs detected in this study provide a basis for the identification of new genes controlling panicle development and yield in rice. Electronic supplementary material The online version of this article (10.1186/s12870-018-1504-1) contains supplementary material, which is available to authorized users.
Databáze: OpenAIRE
Externí odkaz: