Genetic properties of the MAGIC maize population: a new platform for high definition QTL mapping in Zea mays

被引：183

作者：

Dell'Acqua, Matteo ^{[1
]}

Gatti, Daniel M. ^{[2
]}

Pea, Giorgio ^{[1
]}

Cattonaro, Federica ^{[3
]}

Coppens, Frederik ^{[4
]}

Magris, Gabriele ^{[3
,5
]}

Hlaing, Aye L. ^{[1
]}

Aung, Htay H. ^{[1
]}

Nelissen, Hilde ^{[4
,6
]}

Baute, Joke ^{[4
,6
]}

Frascaroli, Elisabetta ^{[7
]}

Churchill, Gary A. ^{[2
]}

Inze, Dirk ^{[4
,6
]}

Morgante, Michele ^{[3
,5
]}

Pe, Mario Enrico ^{[1
]}

机构：

[1] Scuola Super Sant Anna, Inst Life Sci, Pisa, Italy

[2] Jackson Lab, Bar Harbor, ME 04609 USA

[3] Inst Appl Genom, Udine, Italy

[4] Univ Ghent, Dept Plant Biotechnol & Bioinformat, B-9000 Ghent, Belgium

[5] Univ Udine, Dept Agr & Environm Sci, I-33100 Udine, Italy

[6] VIB, Dept Plant Syst Biol, Ghent, Belgium

[7] Univ Bologna, Dept Agr Sci, Bologna, Italy

来源：

GENOME BIOLOGY | 2015年 / 16卷

基金：

欧洲研究理事会;

关键词：

QUANTITATIVE TRAIT LOCI; GENOME-WIDE ASSOCIATION; INTER-CROSS POPULATION; FLOWERING-TIME; COMPLEX TRAITS; INBRED LINES; COLLABORATIVE CROSS; DROUGHT STRESS; DIVERSITY; ARCHITECTURE;

D O I：

10.1186/s13059-015-0716-z

中图分类号：

Q81 [生物工程学（生物技术）]; Q93 [微生物学];

学科分类号：

071005 ; 0836 ; 090102 ; 100705 ;

摘要：

Background: Maize (Zea mays) is a globally produced crop with broad genetic and phenotypic variation. New tools that improve our understanding of the genetic basis of quantitative traits are needed to guide predictive crop breeding. We have produced the first balanced multi-parental population in maize, a tool that provides high diversity and dense recombination events to allow routine quantitative trait loci (QTL) mapping in maize. Results: We produced 1,636 MAGIC maize recombinant inbred lines derived from eight genetically diverse founder lines. The characterization of 529 MAGIC maize lines shows that the population is a balanced, evenly differentiated mosaic of the eight founders, with mapping power and resolution strengthened by high minor allele frequencies and a fast decay of linkage disequilibrium. We show how MAGIC maize may find strong candidate genes by incorporating genome sequencing and transcriptomics data. We discuss three QTL for grain yield and three for flowering time, reporting candidate genes. Power simulations show that subsets of MAGIC maize might achieve high-power and high-definition QTL mapping. Conclusions: We demonstrate MAGIC maize's value in identifying the genetic bases of complex traits of agronomic relevance. The design of MAGIC maize allows the accumulation of sequencing and transcriptomics layers to guide the identification of candidate genes for a number of maize traits at different developmental stages. The characterization of the full MAGIC maize population will lead to higher power and definition in QTL mapping, and lay the basis for improved understanding of maize phenotypes, heterosis included. MAGIC maize is available to researchers.

引用

页数：23

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