The Roles of Multidrug and Toxic Compound Extrusion (MATE) Transporters in Regulating Agronomic Traits

Ku, Yee-Shan; Cheng, Sau‐Shan; Cheung, Ming-Yan; Lam, Hon‐Ming

doi:10.3390/agronomy12040878

Cited by 7 publications

(5 citation statements)

References 107 publications

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“…Previous report showed a preferential transport of epicatechin 3’-O-glucoside by this transporter [ 34 ]. While the MATE transporter protein families are generally involved in the translocation of secondary metabolites across various plant species [ 35 ], it is important to note that the specificity to legume species is not universally observed in our research. Nonetheless, we identified that one particular MATE gene family shows a high degree of copy number increase for S. flavescens (Supplementary Fig.…”

Section: Resultsmentioning

confidence: 91%

Sophora genomes provide insight into the evolution of alkaloid metabolites along with small-scale gene duplication

Kang,

Park,

Lee

et al. 2023

BMC Genomics

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The genus Sophora (Fabaceae) includes medicinal plants that have been used in East Asian countries since antiquity. Sophora flavescens is a perennial herb indigenous to China, India, Japan, Korea, and Russia. Its dried roots have antioxidant, anti-inflammatory, antibacterial, apoptosis-modulating, and antitumor efficacy. The congeneric S. koreensis is endemic to Korea and its genome is less than half the size of that of S. flavescens. Nevertheless, this discrepancy can be used to assemble and validate the S. flavescens genome. A comparative genomic study of the two genomes can disclose the recent evolutionary divergence of the polymorphic phenotypic profiles of these species. Here, we used the PacBio sequencing platform to sequence and assemble the S. koreensis and S. flavescens genomes. We inferred that it was mainly small-scale duplication that occurred in S. flavescens. A KEGG analysis revealed pathways that might regulate the pharmacologically important secondary metabolites in S. flavescens and S. koreensis. The genome assemblies of Sophora spp. could be used in comparative genomics and data mining for various plant natural products.

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Section: Resultsmentioning

confidence: 91%

Sophora genomes provide insight into the evolution of alkaloid metabolites along with small-scale gene duplication

Kang,

Park,

Lee

et al. 2023

BMC Genomics

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“…At the crossroads of these metabolisms, MATE transporters have an essential role, e.g. in flavonoid and phytohormone transport [ 88 ], and we found one MATE-encoding gene, together with other sugar and solute transporters, as global fruit size candidate genes. Finally, we identified several candidate genes, such as genes encoding a β-galactosidase, another cell wall hydrolytic enzyme, for an MYB, for a calcium-binding protein, and for a RLK/Pelle family of kinases, similar to genes potentially involved in global nut-size-related traits in walnut [ 47 ].…”

Section: Discussionmentioning

confidence: 99%

Genome-wide association mapping in a sweet cherry germplasm collection (Prunus avium L.) reveals candidate genes for fruit quality traits

Donkpegan,

Bernard,

Barreneche

et al. 2023

Horticulture Research

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In sweet cherry (Prunus avium L.), a large variability exists for various traits related to fruit quality. There is a need to discover the genetic architecture of these traits in order to enhance the efficiency of breeding strategies for consumer and producer demands. With this objective, a germplasm collection consisting of 116 sweet cherry accessions was evaluated for 23 agronomically fruit quality traits over two to six years, and characterized using a genotyping-by-sequencing (GBS) approach. The SNP coverage collected was used to conduct a genome-wide association study (GWAS) using two multi-locus models and three reference genomes. We identified numerous SNP-trait associations for the global fruit size (weight, width and thickness), fruit cracking, fruit firmness and stone size, and we pinpointed several candidate genes involved in phytohormones, calcium and cell wall metabolisms. Finally, we led a precise literature review focusing on the genetic architecture of fruit quality traits in sweet cherry to compare our results with potential colocalizations of marker-trait associations. This study brings new knowledge of the genetic control of important agronomic traits related to the fruit quality, and to the development of marker-assisted selection (MAS) strategies targeted towards the facilitation of breeding efforts.

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“…It is located within the candidate gene Phvul.008G291400 , which encodes chloroplastic MATE efflux family protein 3 (multi-antimicrobial extrusion protein) involved in transmembrane transport. MATEs are involved in regulating many agronomic traits including seed color, dormancy, and response to stress ( Ku et al, 2022 ).…”

Section: Discussionmentioning

confidence: 99%

Mapping yield and yield-related traits using diverse common bean germplasm

Reinprecht,

Schram,

Perry

et al. 2024

Front. Genet.

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Common bean (bean) is one of the most important legume crops, and mapping genes for yield and yield-related traits is essential for its improvement. However, yield is a complex trait that is typically controlled by many loci in crop genomes. The objective of this research was to identify regions in the bean genome associated with yield and a number of yield-related traits using a collection of 121 diverse bean genotypes with different yields. The beans were evaluated in replicated trials at two locations, over two years. Significant variation among genotypes was identified for all traits analyzed in the four environments. The collection was genotyped with the BARCBean6K_3 chip (5,398 SNPs), two yield/antiyield gene-based markers, and seven markers previously associated with resistance to common bacterial blight (CBB), including a Niemann–Pick polymorphism (NPP) gene-based marker. Over 90% of the single-nucleotide polymorphisms (SNPs) were polymorphic and separated the panel into two main groups of small-seeded and large-seeded beans, reflecting their Mesoamerican and Andean origins. Thirty-nine significant marker-trait associations (MTAs) were identified between 31 SNPs and 15 analyzed traits on all 11 bean chromosomes. Some of these MTAs confirmed genome regions previously associated with the yield and yield-related traits in bean, but a number of associations were not reported previously, especially those with derived traits. Over 600 candidate genes with different functional annotations were identified for the analyzed traits in the 200-Kb region centered on significant SNPs. Fourteen SNPs were identified within the gene model sequences, and five additional SNPs significantly associated with five different traits were located at less than 0.6 Kb from the candidate genes. The work confirmed associations between two yield/antiyield gene-based markers (AYD1m and AYD2m) on chromosome Pv09 with yield and identified their association with a number of yield-related traits, including seed weight. The results also confirmed the usefulness of the NPP marker in screening for CBB resistance. Since disease resistance and yield measurements are environmentally dependent and labor-intensive, the three gene-based markers (CBB- and two yield-related) and quantitative trait loci (QTL) that were validated in this work may be useful tools for simplifying and accelerating the selection of high-yielding and CBB-resistant bean cultivars.

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The Roles of Multidrug and Toxic Compound Extrusion (MATE) Transporters in Regulating Agronomic Traits

Cited by 7 publications

References 107 publications

Sophora genomes provide insight into the evolution of alkaloid metabolites along with small-scale gene duplication

Sophora genomes provide insight into the evolution of alkaloid metabolites along with small-scale gene duplication

Genome-wide association mapping in a sweet cherry germplasm collection (Prunus avium L.) reveals candidate genes for fruit quality traits

Mapping yield and yield-related traits using diverse common bean germplasm

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