Is a non-synonymous SNP in the HvAACT1 coding region associated with acidic soil tolerance in barley?

Abstract

The barley HvAACT1 gene codes for a citrate transporter associated with tolerance to acidic soil. In this report, we describe a single nucleotide polymorphism (SNP) in the HvAACT1 coding region that was detected as T-1,198 (in genotypes with lower root growth on acidic soil) or G-1,198 (greater root growth) and resulted in a single amino acid change (L/V-172). Molecular dynamic analysis predicted that HvAACT1 proteins with L or V-172 were stable, although the substitution led to structural changes within the protein. To evaluate the effect of the SNP on tolerance to acidic soil, barley accessions were separated into haplotypes based on the presence of a 1 kb insertion in the HvAACT1 promoter and a 21 bp insertion/deletion. These markers and the SNP-1,198 allowed the identification of five haplotypes. Short-term soil experiments showed no difference in root growth for most of the accessions containing the 21 bp insertion and T or G-1,198. In contrast, genotypes showing both the 21 bp deletion and G-1,198, with one of them having the 1 kb insertion, showed greater root growth. These results indicate that the SNP was not advantageous or deleterious when genotypes from the same haplotype were compared. The occurrence of the SNP was highly correlated with the 21 bp insertion/deletion that, together with the 1 kb insertion, explained most of the barley tolerance to acidic soil.

The Pathogen-Induced MATE Gene TaPIMA1 Is Required for Defense Responses to Rhizoctonia cerealis in Wheat

“…To determine the structural similarity of TaPIMA1 to other MATE transporters in plants, we performed phylogenetic analysis of TaPIMA1 and 24 other MATE proteins from wheat, rice, Hordeum vulgare , Triticum urartu , Setaria viridis , Brachypodium distachyon , Sorghum bicolor , Arabidopsis , Arachis hypogaea , Gossypium hirsutum , Medicago truncatula , and Vitis vinifera ( Figure 2 C, Table S1 ). These 24 known-function MATE proteins encompass all the reported functions of the MATE transporters, such as disease resistance [ 38 , 39 , 40 , 49 , 50 , 51 , 52 , 53 , 54 ], aluminum tolerance [ 41 , 42 , 55 , 56 , 57 , 58 , 59 , 60 ], iron translocation [ 56 , 61 , 62 , 63 ], anthocyanidin transport [ 47 , 64 , 65 ], and heavy metals detoxification [ 43 , 44 , 66 ]. As a result, the dendrogram showed that these 25 MATE proteins were mainly clustered into two clades.…”

Transcriptome Analysis Revealed the Mechanisms Involved in Ultrasonic Seed Treatment-Induced Aluminum Tolerance in Peanut

“…First, the expression of Al-tolerant genes increased with the copy number of genes in the genome ( Daspute et al, 2017 ). Second, the transposon insertion at the front end of the Al-tolerant gene, i.e., insertion of the transposon could be used as the promoter of the subsequent gene and enhanced the expression of the subsequent gene ( Ferreira et al, 2017 ). Third, the tandem repeats in the promoter region enhanced the expression level of resistance genes ( Ryan et al, 2010 ).…”

Molecular markers in breeding of ion-resistant barley varieties (review)

“…Для определения наличия или отсутствия данных мутаций у сортов ячменя были разработаны соответствующие ПЦР-маркеры. Маркеры 1kb-insertion и HvMATE-21indel в настоящий момент являются стандартными генспецифичными маркерами алюмоустойчивости, наиболее подходящими для отбора требуемых генотипов [29,30]. В исследованиях отмечается, что по точности определения фенотипической изменчивости HvMATE-21indel превосходит маркеры Bmag353 и Bmac310 на 10-20%.…”

“…В исследованиях отмечается, что по точности определения фенотипической изменчивости HvMATE-21indel превосходит маркеры Bmag353 и Bmac310 на 10-20%. [28,29] Однако хотя SNP-1,198 и коррелирует с алюмоустойчивостью сортов ячменя, было выявлено, что он играет менее важную роль в проявлении признака по сравнению с мутациями 1kb-insertion и HvMATE-21indel [30,31].…”