Mapping of QTLs and candidate genes associated with multiple phenotypic traits for Huanglongbing tolerance in citrus

Huang, Ming; Roose, Mikeal L.; Yu, Qibin; Stover, Ed; Hall, David G.; Deng, Zhanao; Gmitter, Frederick G.

doi:10.1016/j.hpj.2022.10.008

Cited by 6 publications

(3 citation statements)

References 45 publications

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“…If the variants are located within annotated genes or promoter regions, the candidate genes selected for CA genotyping analysis will be those with high-confidence annotation [ 43 ]. Additionally, the number and percentage of SNP variants located within gene intervals and associated genes are important indicators for evaluating the quality of SNP chips [ 37 , 47 ]. In the present study, we identified 11 candidate gene-association variants related to CA content, which can be utilized for the development of precise function-based markers in the selection and breeding of CA-rich tomato varieties.…”

Section: Discussionmentioning

confidence: 99%

Genome-wide variants and optimal allelic combinations for citric acid in tomato

Gai,

Yuan,

Yang

et al. 2024

Horticulture Research

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Citric acid (CA) plays a crucial role as a fruit flavor enhancer and serves as a mediator in multiple metabolic pathways in tomato fruit development. Understanding factors influencing CA metabolism is essential for enhancing fruit flavor and CA-mediated biological processes. The accumulation of CA, however, is influenced by a complex interplay of genetic and environmental factors, leading to challenges in accurately predicting and regulating its levels. In this study, we conducted a genome-wide association study (GWAS) on CA, employing six landmark models based on genome-wide variations including structural variants, insertions and deletions, and single nucleotide polymorphisms. The identification of 11 high-confidence candidate genes was further facilitated by leveraging linkage disequilibrium and causal variants associated with CA. The transcriptome data from candidate genes were examined, revealing higher correlations between the expression of certain candidate genes and changes in CA metabolism. Three CA-associated genes exerted a positive regulatory effect on CA accumulation, while the remaining genes exhibited negative impacts based on gene cluster and correlation analyses. The CA content of tomatoes is primarily influenced by improvement sweeps with minimal influence from domestication sweeps in the long-term breeding history, as evidenced by population differentiation and variants distribution. The presence of various causal variants within candidate genes is implicated in the heterogeneity of CA content observed among the tomato accessions. This observation suggests a potential correlation between the number of alternative alleles and CA content. This study offers significant function-based markers that can be utilized in marker-assisted breeding, thereby enhancing their value and applicability.

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Section: Discussionmentioning

confidence: 99%

Genome-wide variants and optimal allelic combinations for citric acid in tomato

Gai,

Yuan,

Yang

et al. 2024

Horticulture Research

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“…Microcitrus spp., Aurantioideae, a subfamily crop wild relative native to Oceania, was shown to be potentially useful for breeding citrus-like fruit that are tolerant of Huanglongbing (HLB) [ 6 ]. More recently, P. trifoliata has also been explored as a potential genetic resource for the breeding tolerance of HLB [ 7 , 8 ]; a cultivar exhibiting a strong tolerance of HLB that comes from the introgression of P. trifoliata , ‘US SunDragon’, has been released by the USDA [ 9 ]. Between 1916 and 1933, the Russian scientist, Nicolai Vavilov, traveled the world to better understand the relationships between plant species diversity and their origins [ 10 ].…”

Section: Introductionmentioning

confidence: 99%

Conserving Citrus Diversity: From Vavilov’s Early Explorations to Genebanks around the World

Volk¹,

Gmitter

Krueger

2023

Plants

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Citrus is among the most economically important fruit crops. Its vast species diversity and global production was observed by N.I. Vavilov during his international plant explorations from the early to mid-1900s. Currently, ex situ citrus collections located around the world conserve and protect citrus genetic resources, as revealed in a survey conducted in 2021. Responses were received from 43 collections in 27 countries, of which 35 provided data regarding collection composition, management practices, and security, as well as other information. The six largest citrus collections have between 1000 and 1735 accessions. The largest accession holdings are mandarins and sweet oranges, although all citrus fruit types are maintained: mandarin, sweet orange, lemon, pummelo, grapefruit, hybrids, lime, sour orange, citron, kumquat, papeda, finger lime, and crop wild relatives. Diseases pose significant threats to collections, though some collections are maintained in a clean-plant state as a result of intensive sanitation efforts. National and regional quarantine regulations often limit the export and import of citrus plants or propagative materials, thus limiting the availability of materials at an international level. Resources, both financial and human, are necessary to ensure the long-term safety and security of citrus collections on a global scale. Future efforts to develop citrus genebanking communities will provide opportunities for improved conservation, as well as collaborations and training.

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“…Young trees, in their initial years of growth, may exhibit different susceptibility and response patterns to HLB compared to mature trees. This notion is grounded in the fact that young trees, while establishing themselves, undergo dynamic physiological and metabolic changes that could influence their interaction with the HLB pathogen 11,12 . Conversely, mature citrus trees, with well‐developed canopies and root systems, present distinct microenvironments that may either facilitate or hinder HLB establishment and progression.…”

Section: Introductionmentioning

confidence: 99%

Effect of tree height and spraying methods on Diaphorina citri kuwayama endosymbionts in the context of Huanglongbing disease management in citrus orchards

Hussain,

Zhong,

Tao

et al. 2023

Pest Management Science

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BACKGROUNDHuanglongbing (caused by Candidatus Liberibacter asiaticus) is the most damaging disease of citrus around the world. This study investigated the effects of citrus tree age on Diaphorina citri Kuwayama mortality, endosymbiont responses, and Huanglongbing distribution.RESULTSThe results reveal that the age of citrus trees plays a significant role in psyllid mortality. Notably, four‐year‐old plants exhibited higher psyllid mortality (31.50%) compared to thirteen‐year‐old trees (9.10% and 0.09%, respectively). Our findings also revealed that psyllids from both 4 and 13‐year‐old citrus trees carried Candidatus Carsonella ruddii species and Wolbachia, the primary and secondary endosymbionts, respectively. Surprisingly, infection rates of these endosymbionts remained consistent across different age groups, as confirmed by qPCR analysis. Furthermore, our study highlights the significance of tree height as a proxy for tree age in influencing Huanglongbing occurrence. Specifically, 4‐year‐old trees subjected to the US‐SMART mechanical sprayer for citrus psyllid control demonstrated effective disease management compared to 13‐year‐old trees treated with handheld gun sprayers. Additionally, the investigation explored the impact of tree height on HLB distribution. In four‐year‐old trees, no significant correlation between HLB disease and tree height was observed, potentially due to effective spray coverage. However, in thirteen‐year‐old trees, a negative correlation between tree height and HLB disease was evident.CONCLUSIONThis research provides valuable insights into the complex interaction between citrus tree age, psyllid endosymbionts responses, and HLB distribution. These results emphasize effective HLB management strategies, especially in orchards with diverse tree age populations, ultimately contributing to the long‐term sustainability of citrus cultivation.This article is protected by copyright. All rights reserved.

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Mapping of QTLs and candidate genes associated with multiple phenotypic traits for Huanglongbing tolerance in citrus

Cited by 6 publications

References 45 publications

Genome-wide variants and optimal allelic combinations for citric acid in tomato

Genome-wide variants and optimal allelic combinations for citric acid in tomato

Conserving Citrus Diversity: From Vavilov’s Early Explorations to Genebanks around the World

Effect of tree height and spraying methods on Diaphorina citri kuwayama endosymbionts in the context of Huanglongbing disease management in citrus orchards

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