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A Reliable Molecular Diagnostic Tool for CA90 (Castanea sativa × Castanea crenata) Hybrid Identification Through SSR

2025-02-23Journal article Open access
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datacite.subject.fosEngenharia e Tecnologia
datacite.subject.fosCiências Agrárias
datacite.subject.fosCiências Naturais
datacite.subject.sdg04:Educação de Qualidade
datacite.subject.sdg15:Proteger a Vida Terrestre
datacite.subject.sdg02:Erradicar a Fome
dc.contributor.authorYussif, Toufiq Soale
dc.contributor.authorCruz, Nadine Evora da
dc.contributor.authorCoelho, Valentim
dc.contributor.authorGouveia, Maria Eugénia
dc.contributor.authorChoupina, Altino
dc.date.accessioned2025-05-13T11:01:12Z
dc.date.available2025-05-13T11:01:12Z
dc.date.issued2025-02-23
dc.description.abstractChestnut trees are an essential source of both food and timber. However, the severe threats from invasive pests and diseases compromise their existence and productivity. In Europe, chestnut hybridization programs have been initiated to produce resilient rootstocks in response to ink disease. However, the gap in the identification of these hybrid plants is typically based on field observations and Morphological features and remains a challenge. Our study presents a marker set for distinguishing between chestnut hybrid CA90 (Castanea sativa × Castanea crenata), a hybrid with demonstrated resistance to Phytophthora cinnamomi, and other varieties using microsatellite (SSR) markers and bioinformatics tools. We used 35 chestnut samples, including three CA90 controls, hybrids sampled within Portugal, with an aim to define the profiles of the chestnut hybrids and varieties in this study based on band patterns and SSR motifs. We selected and modified nine distinct SSR primers with null allelic features from 43 already developed simple sequence repeat (SSR) markers. PCR amplification and agarose gel electrophoresis were used to amplify and visualize the DNA bands. To confirm genetic variations, 27 amplified bands were sequenced by Sanger sequencing. This analysis identified 31 SSRs across 22 SSR-containing sequences, with trinucleotide (67.74%) repeats being the most common, followed by repeats of dinucleotide (22.58%), mononucleotide (6.45%), and hexanucleotide (3.23%). A total of 18 alleles were observed for the nine loci. The alleles ranged from one to three per locus for the 35 samples. The novel locus CP4 could only be found in CA90 hybrids. This tool can aid in identifying and selecting disease-resistant hybrids, thereby contributing to chestnut production and management strategies.eng
dc.description.sponsorshipThis research was funded by IPB Project—Experimental Program for Biological Control of Chestnut Blight no. 167 and PDR2020—Prevenção da Floresta Contra Agentes Bióticos e Abióticos, CP/02/2022, Portugal.
dc.identifier.citationYussif, Toufiq Soale; Cruz, Nadine Evora da; Coelho, Valentim; Gouveia, Eugénia; Choupina, Altino (2025). A Reliable Molecular Diagnostic Tool for CA90 (Castanea sativa × Castanea crenata) Hybrid Identification Through SSR. Agronomy. eISSN 2073-4395. 15:3, p. 1-13
dc.identifier.doi10.3390/agronomy15030543
dc.identifier.eissn2073-4395
dc.identifier.urihttp://hdl.handle.net/10198/34468
dc.language.isoeng
dc.peerreviewedyes
dc.publisherMDPI
dc.rights.urihttp://creativecommons.org/licenses/by/4.0/
dc.titleA Reliable Molecular Diagnostic Tool for CA90 (Castanea sativa × Castanea crenata) Hybrid Identification Through SSReng
dc.typejournal article
dspace.entity.typePublication
oaire.citation.endPage13
oaire.citation.issue3
oaire.citation.startPage1
oaire.citation.titleAgronomy
oaire.citation.volume15
oaire.versionhttp://purl.org/coar/version/c_970fb48d4fbd8a85
person.familyNameCoelho
person.familyNameGouveia
person.familyNameChoupina
person.givenNameValentim
person.givenNameMaria Eugénia
person.givenNameAltino
person.identifier587972
person.identifier.ciencia-id0618-49BC-EACE
person.identifier.ciencia-id1A14-77FC-9656
person.identifier.orcid0000-0001-5829-7669
person.identifier.orcid0000-0002-2550-9108
person.identifier.orcid0000-0002-3956-9398
person.identifier.ridL-5382-2014
person.identifier.scopus-author-id26533798200
person.identifier.scopus-author-id14051602500
relation.isAuthorOfPublication99a97d58-8b4c-4a49-9855-d334d568b9f3
relation.isAuthorOfPublication99e4701b-e3c2-4594-a37f-42bd49821d6e
relation.isAuthorOfPublication314b895b-a5e2-4a92-9bc6-dd708c819be4
relation.isAuthorOfPublication.latestForDiscovery99a97d58-8b4c-4a49-9855-d334d568b9f3

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