Descriptive Genomic Analysis and Sequence Genotyping of the Two Papaya Species (Vasconcellea pubescens and Vasconcellea chilensis) Using GBS Tools

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dc.contributor.authorCarrasco, Basilio
dc.contributor.authorArevalo, Barbara
dc.contributor.authorPerez-Diaz, Ricardo
dc.contributor.authorRodriguez-Alvarez, Yohaily
dc.contributor.authorGebauer, Marlene
dc.contributor.authorMaldonado, Jonathan E.
dc.contributor.authorGarcia-Gonzales, Rolando
dc.contributor.authorChong-Perez, Borys
dc.contributor.authorPico-Mendoza, Jose
dc.contributor.authorMeisel, Lee A.
dc.contributor.authorMing, Ray
dc.contributor.authorSilva, Herman
dc.date.accessioned2025-01-20T21:02:57Z
dc.date.available2025-01-20T21:02:57Z
dc.date.issued2022
dc.description.abstractA genotyping by sequencing (GBS) approach was used to analyze the organization of genetic diversity in V. pubescens and V. chilensis. GBS identified 4675 and 4451 SNPs/INDELs in two papaya species. The cultivated orchards of V. pubescens exhibited scarce genetic diversity and low but significant genetic differentiation. The neutrality test yielded a negative and significant result, suggesting that V. pubescens suffered a selective sweep or a rapid expansion after a bottleneck during domestication. In contrast, V. chilensis exhibited a high level of genetic diversity. The genetic differentiation among the populations was slight, but it was possible to distinguish the two genetic groups. The neutrality test indicated no evidence that natural selection and genetic drift affect the natural population of V. chilensis. Using the Carica papaya genome as a reference, we identified critical SNPs/INDELs associated with putative genes. Most of the identified genes are related to stress responses (salt and nematode) and vegetative and reproductive development. These results will be helpful for future breeding and conservation programs of the Caricaceae family.
dc.fuente.origenWOS
dc.identifier.doi10.3390/plants11162151
dc.identifier.issn2223-7747
dc.identifier.urihttps://doi.org/10.3390/plants11162151
dc.identifier.urihttps://repositorio.uc.cl/handle/11534/93105
dc.identifier.wosidWOS:000846674700001
dc.issue.numero16
dc.language.isoen
dc.revistaPlants-basel
dc.rightsacceso restringido
dc.subjectVasconcellea
dc.subjectSNPs/INDELs
dc.subjectGBS
dc.subject.ods13 Climate Action
dc.subject.ods15 Life on Land
dc.subject.odspa13 Acción por el clima
dc.subject.odspa15 Vida de ecosistemas terrestres
dc.titleDescriptive Genomic Analysis and Sequence Genotyping of the Two Papaya Species (Vasconcellea pubescens and Vasconcellea chilensis) Using GBS Tools
dc.typeartículo
dc.volumen11
sipa.indexWOS
sipa.trazabilidadWOS;2025-01-12
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