Expression genome-wide association study identifies that phosphatidylinositol-derived signalling regulates ALUMINIUM SENSITIVE3 expression under aluminium stress in the shoots of Arabidopsis thaliana. (January 2021)

• Record Type: Journal Article
• Authors: Sadhukhan, Ayan; Agrahari, Raj Kishan; Wu, Liujie; Watanabe, Toshihiro; Nakano, Yuki; Panda, Sanjib Kumar; Koyama, Hiroyuki; Kobayashi, Yuriko
• Is Part Of: Plant science. Volume 302(2021)
• Publication Date: 2021-01
• Subjects: Al aluminium -- ALS3 aluminium sensitive 3 -- ALMT1 aluminium-activated malate transporter 1 -- CAL cauliflower -- CDPK32 calcium dependent protein kinase 32 -- COI1 coronatine insensitive 1 -- DAG diacylglycerol -- eGWAS expression genome-wide association study -- DIR1 defective in induced resistance 1 -- ELP expression level polymorphism -- GO gene ontology -- IP3 inositol-1, 4, 5-trisphosphate -- JA jasmonate -- KD knockdown -- KO knockout -- LD linkage disequilibrium -- MATE multidrug and toxic compounds extrusion -- MLM mixed linear model -- PA phosphatidic acid -- PM plasma membrane -- PI phosphatidylinositol -- PI4K phosphatidylinositol 4-kinase -- PLC9 phosphatidylinositol-specific phospholipase C9 -- RFC relative fold change -- SNP single nucleotide polymorphism -- STOP1 sensitive to proton rhizotoxicity 1 -- TF transcription factor; ALS3 expression -- Aluminium stress -- Co-expression network -- Expression level polymorphisms -- Genome-wide association study -- Phosphatidylinositol signalling -- Single nucleotide polymorphism; Botany -- Periodicals; Botanique -- Périodiques; 580
• DOI: 10.1016/j.plantsci.2020.110711
• Languages: English
• ISSNs: 0168-9452

Abstract

Highlights: Expression GWAS of ALS3 in the shoots of Arabidopsis under aluminium stress. Mutants of PLC9, CDPK32 and ANAC071 suppressed ALS3 in the shoots. Phospholipase C signaling is upstream signal of ALS3 expression. Abstract: To identify unknown regulatory mechanisms leading to aluminium (Al)-induction of the Al tolerance gene ALS3, we conducted an expression genome-wide association study (eGWAS) for ALS3 in the shoots of 95 Arabidopsis thaliana accessions in the presence of Al. The eGWAS was conducted using a mixed linear model with 145, 940 genome-wide single nucleotide polymorphisms (SNPs) and the association results were validated using reverse genetics. We found that many SNPs from the eGWAS were associated with genes related to phosphatidylinositol metabolism as well as stress signal transduction, including Ca 2+ signals, inter-connected in a co-expression network. Of these, PLC9, CDPK32, ANAC071, DIR1, and a hypothetical protein (AT4G10470) possessed amino acid sequence/ gene expression level polymorphisms that were significantly associated with ALS3 expression level variation. Furthermore, T-DNA insertion mutants of PLC9, CDPK32, and ANAC071 suppressed shoot ALS3 expression in the presence of Al. This study clarified the regulatory mechanisms of ALS3 expression in the shoot and provided genetic evidence of the involvement of phosphatidylinositol-derived signal transduction under Al stress.