Mining of candidate genes for grape berry cracking using a genome-wide association study

ZHANG, Chuan; Wu, Jiuyun; Cui, Liwen; Fang, Jinggui

doi:10.1016/s2095-3119(21)63881-9

Cited by 10 publications

(6 citation statements)

References 52 publications

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“…PME catalyzed the demethylesterification of pectin, providing a substrate for PG and PL to degrade. , Previous studies have suggested that a higher enzymatic activity or expression level of PG, PME, and PL may lead to fruit cracking. ,,, In grapes, when the activities of PG, PME, and β-gal were inhibited by calcium, the fruit cracking incidences were largely declined . Zhang et al found that the expression of PG in susceptible grape varieties was significantly higher than that in the resistant variety . In sweet cherries, litchis, and tomatoes, the easily cracked varieties also had higher PG and PME activities.…”

Section: Discussionmentioning

confidence: 99%

“…51 Zhang et al found that the expression of PG in susceptible grape varieties was significantly higher than that in the resistant variety. 39 In sweet cherries, 86 litchis, 83 and tomatoes, 5 the easily cracked varieties also had higher PG and PME activities. In our study, "XF" had significantly higher activities of PL and PG from veraison to maturation, which might work synergistically with Cx and promote degradation of the skin cell wall.…”

Section: Cell Wall Polysaccharide Component In Grape Skinmentioning

confidence: 98%

“…Fruit cracking is a quantitative trait controlled by multiple genes. In recent years, EXP , PG, XET , β-Gal , and other cell wall metabolism-related genes showed an association with fruit cracking in sweet cherries, apples, , litchis, , tomatoes, , and other crops. , Transcriptomic analysis illustrated that XET , PG , and EXP were significantly differentially expressed between cracking-resistant and cracking-susceptible tomato genotypes . Silencing the β-galactosidase gene (TBG6) can increase fruit cracking incidences in tomato .…”

Section: Introductionmentioning

confidence: 99%

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Pectate Lyase Gene VvPL1 Plays a Role in Fruit Cracking of Table Grapes

Wang

et al. 2023

J. Agric. Food Chem.

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Fruit cracking seriously affects the commercial value of table grapes. To explore whether cell wall disassembly influences grape berry cracking, first, the differences in the cell wall metabolism were compared between cracking-resistant "Shennongjinhuanghou" (SN) and cracking-susceptible "Xiangfei" (XF) varieties. Our results showed that cell wall disassembly events were extremely different between "SN" and "XF." The cracking-resistant "SN" had a higher pectinmethylesterase activity in the early stage and lower polygalacturonase, β-galactosidase, pectate lyase, and cellulase activities from veraison, cooperatively yielding higher ionically bound pectin, covalently bound pectin, hemicellulose, and lower water-soluble pectin, leading to a stronger skin break force and elasticity and conferring "SN" with higher cracking resistance. Furthermore, the function of the VvPL1 gene in fruit cracking was verified by heterologously transforming tomatoes. The transgenic experiment showed that overexpressed fruits had a higher activity of pectate lyase from the breaking stage and a lower level of covalently bound pectin, ionically bound pectin, cellulose, and hemicellulose and a higher level of water-soluble pectin at the red ripe stage, which resulted in a significantly reduced skin break force and flesh firmness and increased fruit cracking incidences. In conclusion, our results demonstrated that the cracking susceptibility of the grape berry is closely related to cell wall disassembly events and VvPL1 plays an important role in fruit cracking.

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Section: Discussionmentioning

confidence: 99%

Section: Cell Wall Polysaccharide Component In Grape Skinmentioning

confidence: 98%

Section: Introductionmentioning

confidence: 99%

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Pectate Lyase Gene VvPL1 Plays a Role in Fruit Cracking of Table Grapes

Wang

et al. 2023

J. Agric. Food Chem.

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“…Linkage mapping has contributed significantly to our understanding of grapevine traits but has limitations due to a reliance on high frequency of recombination events [ 43 ]. Genome-wide association analysis (GWAS) provides an alternative by studying genetic architecture and gene interactions influencing traits [ 44 – 49 ]. Despite these advances, further GWAS studies are needed for berry diameter, cluster weight, and post-harvest traits, the genetic underpinnings of which remain less explored than those of seed traits .…”

Section: Introductionmentioning

confidence: 99%

Dissecting the complex genetic basis of pre- and post-harvest traits in Vitis vinifera L. using genome-wide association studies

García-Abadillo,

Barba,

Carvalho

et al. 2024

Horticulture Research

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Addressing the pressing challenges in agriculture necessitates swift advancements in breeding programs, particularly for perennial crops like grapevines. Moving beyond the traditional bi-parental quantitative trait loci (QTL) mapping, we conducted a genome-wide association study encompassing 588 Vitis vinifera L. cultivars from a Chilean breeding program, spanning three seasons and testing 13 key yield-related traits. A strong candidate gene, Vitvi11g000454, located on chromosome 11 and related to plant response to biotic and abiotic stresses through jasmonic acid signaling, was associated with berry width and holds potential for enhancing berry size in grape breeding. We also mapped novel QTL associated with post-harvest traits across chromosomes 2, 4, 9, 11, 15, 18, and 19, broadening our grasp on the genetic intricacies dictating fruit post-harvest behavior, including decay, shriveling, and weight loss. Leveraging gene ontology annotations, we drew parallels between traits and scrutinized candidate genes, laying a robust groundwork for future trait-feature identification endeavors in plant breeding. We also highlighted the importance of carefully considering the choice of the response variable in GWAS analyses, as the use of BLUEs corrections in our study may led to the suppression of some common QTL in grapevine traits. Our results underscore the imperative of pioneering non-destructive evaluation techniques for long-term conservation traits, offering grape breeders and cultivators insights to improve post-harvest table grape quality and minimize waste.

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“…Its successfully application extend across diverse crops, such as wheat 8 , maize 9 , soybean 10 , grapes 11 , cucumbers 12 , and tomatoes 13 . Colonna et al (2019) sequenced 1.8% of the genome of 373 materials from 11 pepper species sourced from 51 countries.…”

Section: Introductionmentioning

confidence: 99%

Genome-wide association study and candidate gene identification for agronomic traits in 182 upward-growing fruits of C. frutescens and C. annuum

Fu,

Yu,

et al. 2024

Preprint

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Pepper agronomic traits serve as pivotal indicators for characterizing germplasm attributes and correlations. Investigating genotypic disparities through phenotypic variations holds significant scientific merit Whole genome resequencing facilitates comprehensive examination of diverse individuals with known references, enabling subsequent differential analyses to pinpoint single nucleotide polymorphisms(SNPs) linked to pepper agrnomic. This study ,conducted a genome-wide association study(GWAS) encompassing 26 agronomic traits in 182 pepper specimens. Rigorous measures, including phylogenetic analysis, population structure analysis, population principal component analysis, kinship analysis, and linkage disequilibrium analysis, were employed to ensure the precision and reliability of GWAS results. The optimal statistical model. Was determined through these analyses. A total of 929 SNPs significantly associated with 26 agronomic traits, were identified, alongside the detection of 519 candidate genes within 100kb region adjacent to these SNPs. Additionally, through gene annotation and expression pattern scrutiny, genes such as SCPL13, extensin-1-like, and DDB1 correlated with fruit traits in Capsicum frutescens and Capsicum annuum were validated via qRT-PCR. This validation provides a robust reference for molecular marker-assisted breeding of pepper agronomic traits, offering both genetic resources and theoretical foundations for future endeavors in molecular marker-assisted breeding for pepper.

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Mining of candidate genes for grape berry cracking using a genome-wide association study

Cited by 10 publications

References 52 publications

Pectate Lyase Gene VvPL1 Plays a Role in Fruit Cracking of Table Grapes

Pectate Lyase Gene VvPL1 Plays a Role in Fruit Cracking of Table Grapes

Dissecting the complex genetic basis of pre- and post-harvest traits in Vitis vinifera L. using genome-wide association studies

Genome-wide association study and candidate gene identification for agronomic traits in 182 upward-growing fruits of C. frutescens and C. annuum

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