Novel Genes and Genetic Loci Associated With Root Morphological Traits, Phosphorus-Acquisition Efficiency and Phosphorus-Use Efficiency in Chickpea

Chickpea—the second most important grain legume worldwide—is cultivated mainly on marginal soils. Phosphorus (P) deficiency often restricts chickpea yields. Understanding the genetics of traits encoding P-acquisition efficiency and P-use efficiency will help develop strategies to reduce P-fertilizer...

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Published inFrontiers in plant science Vol. 12; p. 636973
Main Authors Thudi, Mahendar, Chen, Yinglong, Pang, Jiayin, Kalavikatte, Danamma, Bajaj, Prasad, Roorkiwal, Manish, Chitikineni, Annapurna, Ryan, Megan H., Lambers, Hans, Siddique, Kadambot H. M., Varshney, Rajeev K.
Format Journal Article
LanguageEnglish
Published Frontiers Media S.A 28.05.2021
Subjects
chickpea
genetic mapping
genome-wide association study
phosphorus-acquisition efficiency
phosphorus-use efficiency
Plant Science
root traits
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Summary:Chickpea—the second most important grain legume worldwide—is cultivated mainly on marginal soils. Phosphorus (P) deficiency often restricts chickpea yields. Understanding the genetics of traits encoding P-acquisition efficiency and P-use efficiency will help develop strategies to reduce P-fertilizer application. A genome-wide association mapping approach was used to determine loci and genes associated with root architecture, root traits associated with P-acquisition efficiency and P-use efficiency, and any associated proxy traits. Using three statistical models—a generalized linear model (GLM), a mixed linear model (MLM), and a fixed and random model circulating probability unification (FarmCPU) —10, 51, and 40 marker-trait associations (MTAs), respectively were identified. A single nucleotide polymorphism (SNP) locus (Ca1_12310101) on Ca1 associated with three traits, i.e., physiological P-use efficiency, shoot dry weight, and shoot P content was identified. Genes related to shoot P concentration (NAD kinase 2, dynamin-related protein 1C), physiological P-use efficiency (fasciclin-like arabinogalactan protein), specific root length (4-coumarate–CoA ligase 1) and manganese concentration in mature leaves (ABC1 family protein) were identified. The MTAs and novel genes identified in this study can be used to improve P-use efficiency in chickpea.
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Edited by: Aditya Pratap, Indian Institute of Pulses Research (ICAR), India
This article was submitted to Plant Breeding, a section of the journal Frontiers in Plant Science
Reviewed by: Kun Lu, Southwest University, China; Mubshar Hussain, Bahauddin Zakariya University, Pakistan
ISSN:1664-462X
1664-462X
DOI:10.3389/fpls.2021.636973