Integrating image-based phenotyping and GWAS to map resistance to spittlebug nymphs in interspecific Urochloa grasses

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Espitia-Buitrago, Paula, Perea, Claudia, Mejia-Medina, Juan C., Hernández, Luis M., Castiblanco, Valheria, Ryan, Camilla, De Vega, José J. ORCID: https://orcid.org/0000-0003-2847-5158 and Jauregui, Rosa N. (2026) Integrating image-based phenotyping and GWAS to map resistance to spittlebug nymphs in interspecific Urochloa grasses. G3 (Bethesda, Md.), 16 (6). ISSN 2160-1836

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Abstract

Urochloa grasses are among the most widely used forage grasses across the tropics. Spittlebugs (Hemiptera: Cercopidae) are major pests of tropical Urochloa (syn. Brachiaria) grass pastures, severely reducing forage productivity and quality. Understanding the genetic basis of host-plant resistance is essential for developing durable resistant cultivars. Here, we combined high-throughput image-based phenotyping and genome-wide association studies (GWAS) to dissect the genetic architecture of response to Aeneolamia varia nymphs in 339 interspecific F1 hybrids derived from crosses between resistant sexual and susceptible apomictic Urochloa parents. Digital image analysis using both unsupervised (DQU) and supervised (DTR) quantification pipelines enabled accurate estimation of plant damage, yielding moderate to high broad-sense heritability estimates (H2 = 0.49 to 0.66). In contrast, insect survival (NTS) exhibited low to moderate correlations with all damage traits and lower heritability estimates (H2 = 0.42). Using 57,051 high-quality SNPs aligned to the genome of the hybrid cultivar Basilisk, GWAS models identified 18 quantitative trait loci (QTLs) for plant damage traits, but none for insect survival (antibiosis). Six robust QTLs on chromosomes 1, 6, 7, 27, 29, and 36 were consistently detected across models and phenotyping methods, explaining up to 21.5% of phenotypic variance. Candidate gene analysis revealed proteins involved in hormone signaling, oxidative stress response, and cell wall modification, suggesting multifaceted plant-insect interaction mechanisms. These results provide a foundational set of molecular markers associated with spittlebug response in Urochloa grasses, useful for marker-assisted and genomic selection in the forage breeding program.

Item Type: Article
Additional Information: Data availability: The sequencing (RAD-Seq) dataset has been deposited and is available under accession number PRJEB109285 (https://www. ebi.ac.uk/ena/browser/view/PRJEB109285). The digital images used for plant damage quantification are available in the Harvard Dataverse repository at the following identifier: https:// dataverse.harvard.edu/dataset.xhtml persistentId=doi:10.7910/ DVN/EGUVHA. Supplemental material available at G3 online.
Uncontrolled Keywords: aeneolamia varia,brachiaria,urochloa,grass,gwas,image-based phenotyping,insect resistance,plant damage quantification,molecular biology,genetics,genetics(clinical) ,/dk/atira/pure/subjectarea/asjc/1300/1312
Faculty \ School: Faculty of Science > School of Biological Sciences
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Depositing User: LivePure Connector
Date Deposited: 06 Aug 2026 11:16
Last Modified: 09 Aug 2026 05:33
URI: https://ueaeprints.uea.ac.uk/id/eprint/104014
DOI: 10.1093/g3journal/jkag101

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