Intricate genetic variation networks control the adventitious root growth angle in apple
- PDF / 3,546,516 Bytes
- 18 Pages / 595.276 x 790.866 pts Page_size
- 96 Downloads / 172 Views
RESEARCH ARTICLE
Open Access
Intricate genetic variation networks control the adventitious root growth angle in apple Caixia Zheng, Fei Shen, Yi Wang, Ting Wu, Xuefeng Xu, Xinzhong Zhang* and Zhenhai Han*
Abstract Background: The root growth angle (RGA) typically determines plant rooting depth, which is significant for plant anchorage and abiotic stress tolerance. Several quantitative trait loci (QTLs) for RGA have been identified in crops. However, the underlying mechanisms of the RGA remain poorly understood, especially in apple rootstocks. The objective of this study was to identify QTLs, validate genetic variation networks, and develop molecular markers for the RGA in apple rootstock. Results: Bulked segregant analysis by sequencing (BSA-seq) identified 25 QTLs for RGA using 1955 hybrids of the apple rootstock cultivars ‘Baleng Crab’ (Malus robusta Rehd., large RGA) and ‘M9’ (M. pumila Mill., small RGA). With RNA sequencing (RNA-seq) and parental resequencing, six major functional genes were identified and constituted two genetic variation networks for the RGA. Two single nucleotide polymorphisms (SNPs) of the MdLAZY1 promoter damaged the binding sites of MdDREB2A and MdHSFB3, while one SNP of MdDREB2A and MdIAA1 affected the interactions of MdDREB2A/MdHSFB3 and MdIAA1/MdLAZY1, respectively. A SNP within the MdNPR5 promoter damaged the interaction between MdNPR5 and MdLBD41, while one SNP of MdLBD41 interrupted the MdLBD41/MdbHLH48 interaction that affected the binding ability of MdLBD41 on the MdNPR5 promoter. Twenty six SNP markers were designed on candidate genes in each QTL interval, and the marker effects varied from 0.22°-26.11°. Conclusions: Six diagnostic markers, SNP592, G122, b13, Z312, S1272, and S1288, were used to identify two intricate genetic variation networks that control the RGA and may provide new insights into the accuracy of the molecular markers. The QTLs and SNP markers can potentially be used to select deep-rooted apple rootstocks. Keywords: Malus, RGA, BSA-seq, RNA-seq, QTLs, Genetic variation
Background Apple (Malus domestica Borkh.) is one of the predominant fruit crops. Dwarfing rootstock is widely used as an ideal method for achieving high-density planting of apple [1]. However, apple trees that are grafted on dwarfing rootstocks usually have a relatively shallow root system, which leads to poor anchorage and increased sensitivity to ambient stress from, for example, wind or water logging [2]. Moreover, plants with shallow roots are often vulnerable to environmental stresses such as drought, cold, and salinity [3, 4], * Correspondence: [email protected]; [email protected] College of Horticulture, China Agricultural University, Beijing 100193, China
whereas deep roots are pivotal for water uptake, nutrient uptake, and adaptability [5]. The depth of the root architecture is determined by the root growth angle (RGA), which is defined as the angle between the direction of root growth and the horizontal axis [6, 7]. However, the understanding of the development and underlying
Data Loading...
