The analysis of candidate genes and loci involved with carotenoid metabolism in cassava (Manihot esculenta Crantz) using SLAF-seq

Xiuqin Luo,Luiz Joaquim Castelo Branco Carvalho,Kaimian Li,Keith Ian Tomlins,Songbi Chen

doi:10.1007/s11738-018-2634-7

Abstract

Carotenoids in cassava storage roots play important roles in benefiting people’s health in the tropics because they provide essential nutrients and antioxidants. Although the related genes and loci associated with carotenoid metabolism in many species are well reported, in cassava they are poorly understood. In the present study, GWAS base on SLAF-seq was used in detecting the related genes and loci correlated to carotenoid contents in 98 accessions from a cassava F1 mapping population. The 98 accessions were divided into four subgroups. On the basis of general linear and compressed linear models, 144 genes were detected by selective sweep analysis, and 84 SNPs and 694 genes were detected by association mapping, in which Manes.04G164700 (XanDH) and Manes.11G105300 (AAO) were probably involved in the downstream pathway of carotenoid metabolism, and their expressions in six cassava genotypes were confirmed. Our results will be useful in yellow-root cassava variety improvement and provide the most effective and sustainable approach to maximize the nutritional and health benefits of carotenoid to a large number of populations.

Highlights

Cassava (Manihot esculenta Crantz), originated in Latin America and is the fifth most important staple food crop in the world, in sub-Saharan Africa
Genome-wide association studies that take full advantage of ancient recombination events to identify the genetic loci underlying traits is becoming a powerful tool for detecting natural variation underlying complex traits in crops (Rafalski 2010)
Chen et al (2013) developed multi-state tagging in rice based on SLAF-seq technology, and obtain 518 chromosome specificity sequence of 7E and developed 89 specific molecular markers in Thinopyrum elongatum, and the success rate was 65.9%

Summary

Introduction

Cassava (Manihot esculenta Crantz), originated in Latin America and is the fifth most important staple food crop in the world, in sub-Saharan Africa. Carotenoids harvest light during photosynthesis and provide cleavage products (abscisic acid (ABA), strigolactones, β-cyclocitral) (Bouwmeester et al 2007; Coesel et al 2008; Gomez-Roldan et al 2008; Umehara et al 2008) that act as signal molecules for the regulation of physiological functions under abiotic stress modulating developmental processes and plant environmental responses (Ruiz-Solaa and Rodríguez-Concepción, 2012). They stabilize membrane lipids via antioxidant properties, and provide flowers and fruits with animal attracting colors that facilitate pollination and seed dispersal They stabilize membrane lipids via antioxidant properties, and provide flowers and fruits with animal attracting colors that facilitate pollination and seed dispersal (Bouvier et al. Vol.:(0123456789)

Methods

Results

Conclusion