Genomic-Based Breeding for Climate-Smart Peach Varieties

Gogorcena, Yolanda; Sánchez, G.; Moreno-Vázquez, Santiago; Pérez, Salvador; Ksouri, Najla

doi:10.1007/978-3-319-97946-5_8

Cited by 14 publications

(6 citation statements)

References 236 publications

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“…One of the main goals of breeding programs is the development of commercial varieties with predictable bloom time to adapt to various target environments. Therefore, understanding the genetic architecture of phenology-related traits represents a key prerequisite to enable the development of varieties adapted to different climates ( Gogorcena et al, 2020 ). Reliable QTNs associated with bloom date (BD), the qtnBD_1.1 , qtnBD_1.2 , qtnBD_1.3 , qtnBD_1.4 , qtnBD_4.1 , qtnBD_4.3 , qtnBD_7.1 collocate near or in the same regions previously reported using QTL mapping and pedigree-based analysis (PBA) ( Fan et al, 2010 ; Romeu et al, 2014 ; Bielenberg et al, 2015 ; Hernández Mora et al, 2017 ; Rawandoozi et al, 2020a ).…”

Section: Discussionmentioning

confidence: 99%

Multi-Locus Genome-Wide Association Studies Reveal Fruit Quality Hotspots in Peach Genome

Linge

Cai

et al. 2021

Front. Plant Sci.

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Peach is one of the most important fruit crops in the world, with the global annual production about 24.6 million tons. The United States is the fourth-largest producer after China, Spain, and Italy. Peach consumption has decreased over the last decade, most likely due to inconsistent quality of the fruit on the market. Thus, marker-assisted selection for fruit quality traits is highly desired in fresh market peach breeding programs and one of the major goals of the RosBREED project. The ability to use DNA information to select for desirable traits would enable peach breeders to efficiently plan crosses and select seedlings with desired quality traits early in the selection process before fruiting. Therefore, we assembled a multi-locus genome wide association study (GWAS) of 620 individuals from three public fresh market peach breeding programs (Arkansas, Texas, and South Carolina). The material was genotyped using 9K SNP array and the traits were phenotyped for three phenological (bloom date, ripening date, and days after bloom) and 11 fruit quality-related traits (blush, fruit diameter, fruit weight, adherence, fruit firmness, redness around pit, fruit texture, pit weight, soluble solid concentration, titratable acidity, and pH) over three seasons (2010, 2011, and 2012). Multi-locus association analyses, carried out using mrMLM 4.0 and FarmCPU R packages, revealed a total of 967 and 180 quantitative trait nucleotides (QTNs), respectively. Among the 88 consistently reliable QTNs detected using multiple multi-locus GWAS methods and/or at least two seasons, 44 were detected for the first time. Fruit quality hotspots were identified on chromosomes 1, 3, 4, 5, 6, and 8. Out of 566 candidate genes detected in the genomic regions harboring the QTN clusters, 435 were functionally annotated. Gene enrichment analyses revealed 68 different gene ontology (GO) terms associated with fruit quality traits. Data reported here advance our understanding of genetic mechanisms underlying important fruit quality traits and further support the development of DNA tools for breeding.

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Section: Discussionmentioning

confidence: 99%

Multi-Locus Genome-Wide Association Studies Reveal Fruit Quality Hotspots in Peach Genome

Linge

Cai

et al. 2021

Front. Plant Sci.

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“…Quantitative trait loci (QTL) mapping results provide useful information to understand the genetic mechanisms of important traits and improve the efficiency of marker-assisted selection and genomics-assisted breeding [112,113]. Taken together, existing genomics knowledge and tools may be used to overcome the constraints to the development of adapted varieties that combat malnutrition and climate change [114,115].…”

Section: Genetic Improvement As Means To Sustainable Use Of On-farm Cmentioning

confidence: 99%

On-Farm Crop Diversity for Advancing Food Security and Nutrition

Furman¹,

Noorani²,

Chikelu³

2021

Landraces - Traditional Variety and Natural Breed

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In 2019, nearly 690 million people were hungry, indicating that the achievement of Zero Hunger by 2030 is not on-track. The enhanced conservation and use of crop diversity, which demonstrably improves farm productivity and hence food security and nutrition, could be one of the solutions to this problem. The broadening of the inter- and intra-specific diversity of crops contributes to dietary diversification and nutrition and improves the resilience of production systems to shocks, especially the biotic and abiotic stresses attributed to climate change. Examples of successful interventions that resulted in enhanced on-farm crop diversity are provided. Relevant tools and guidelines to strengthen national capacities for the enhanced on-farm management of plant genetic resources for food and agriculture are also highlighted. Guidance, based primarily on the Second Global Plan of Action for Plant Genetic Resources for Food and Agriculture, is presented to enable the conservation of farmers’ varieties/landraces, their genetic improvement and seed delivery systems; promote their cultivation, consumption and marketing; develop and implement policies; foster partnerships and strengthen requisite institutional and human capacities. Finally, the case is made for research and development, including using modern techniques, to achieve these aims.

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“…Similarly, to achieve the targets in fruits, different NPBTs have been utilized, e.g., genome-assisted breeding (GAB), mutation breeding, transgenic breeding, and currently, genome editing plant improvement systems (Salonia et al 2020;Campoy et al 2020;A. Brown, Carpentier, and Swennen 2020;Boudichevskaia et al 2020;Basu 2020;Rugienius et al 2020;Ramesh, Arunachalam, and Rajesh 2020;Zambounis et al 2020;Delrot et al 2020a;Gogorcena et al 2020;Delrot et al 2020b).…”

Section: Introductionmentioning

confidence: 99%

Development of Climate Smart Fruit Plants via CRISPR/Cas Genome Editing Systems: A Spatiotemporal Review

Shahzaib¹,

Brügmann²,

Shakeel³

et al. 2023

Preprint

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Fruit production is an important part of the gross domestic product for many countries around the world especially to those who have a strong focus on agriculture. However, long-term maintenance and yield stability of fruit production may be threatened by the ongoing climate change and its consequences like extended drought periods, heavy rain events, and floodings. Genome editing, with its progressive technological developments, offers opportunities to adapt relevant fruit plant species to new climatic conditions. Among modern genome editing techniques, CRISPR/Cas, in particular, has the potential to support breeding for those fruit plant species with extended breeding cycles, e.g., perennial fruits. In this review, we discuss CRISPR/Cas and other genome editing techniques in detail and how these techniques can be applied to support the breeding of fruit plant species for adaptation to changing climates. The chronological history of CRISPR/Cas9 systems, their associated computational tools, genomic data sources, transformation methods along with their delivery vehicles, quality improvement, environmental-stress resiliency, limitations, and future perspectives will also be discussed with respect to securing future global fruit production.

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Genomic-Based Breeding for Climate-Smart Peach Varieties

Cited by 14 publications

References 236 publications

Multi-Locus Genome-Wide Association Studies Reveal Fruit Quality Hotspots in Peach Genome

Multi-Locus Genome-Wide Association Studies Reveal Fruit Quality Hotspots in Peach Genome

On-Farm Crop Diversity for Advancing Food Security and Nutrition

Development of Climate Smart Fruit Plants via CRISPR/Cas Genome Editing Systems: A Spatiotemporal Review

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