ArticleBMC genomics2017
Microsatellite marker development by partial sequencing of the sour passion fruit genome (Passiflora edulis Sims).
Article in BMC genomics, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 11 papers.
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11 citing papers in PubMed, 46 citations in OpenAlex.
- Exploring Genetic Diversity and Population Structure of Australian Passion Fruit Germplasm.Biotech (Basel (Switzerland)) · 2025Article
- Genetic Diversity Analysis and Fingerprint Construction for 87 Passionfruit (International journal of molecular sciences · 2024Article
- Identification and Evaluation of Diploid and TetraploidPlants (Basel, Switzerland) · 2024Article
- Genome-Wide Identification and Characterization of theInternational journal of molecular sciences · 2022Article
- A Pipeline for the Development of Microsatellite Markers using Next Generation Sequencing Data.Current genomics · 2022Article
- A genome sequence resource for the genus Passiflora, the genome of the wild diploid species Passiflora organensis.The plant genome · 2021Article
- Large vs small genomes in Passiflora: the influence of the mobilome and the satellitome.Planta · 2021Article
- Identification and evaluation of reference genes for quantitative real-time PCR analysis in Passiflora edulis under stem rot condition.Molecular biology reports · 2020Article
- Transposable element discovery and characterization of LTR-retrotransposon evolutionary lineages in the tropical fruit species Passiflora edulis.Molecular biology reports · 2019Article
- Identification of passion fruit (Passiflora edulis) chromosomes using BAC-FISH.Chromosome research : an international journal on the molecular, supramolecular and evolutionary aspects of chromosome biology · 2019Article
- A gene-rich fraction analysis of the Passiflora edulis genome reveals highly conserved microsyntenic regions with two related Malpighiales species.Scientific reports · 2018Article
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Authors and funding
6 authors at 3 institutions in 2 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundThe Passiflora genus comprises hundreds of wild and cultivated species of passion fruit used for food, industrial, ornamental and medicinal purposes. Efforts to develop genomic tools for genetic analysis of P. edulis, the most important commercial Passiflora species, are still incipient. In spite of many recognized applications of microsatellite markers in genetics and breeding, their availability for passion fruit research remains restricted. Microsatellite markers in P. edulis are usually limited in number, show reduced polymorphism, and are mostly based on compound or imperfect repeats. Furthermore, they are confined to only a few Passiflora species. We describe the use of NGS technology to partially assemble the P. edulis genome in order to develop hundreds of new microsatellite markers.
resultsA total of 14.11 Gbp of Illumina paired-end sequence reads were analyzed to detect simple sequence repeat sites in the sour passion fruit genome. A sample of 1300 contigs containing perfect repeat microsatellite sequences was selected for PCR primer development. Panels of di- and tri-nucleotide repeat markers were then tested in P. edulis germplasm accessions for validation. DNA polymorphism was detected in 74% of the markers (PIC = 0.16 to 0.77; number of alleles/locus = 2 to 7). A core panel of highly polymorphic markers (PIC = 0.46 to 0.77) was used to cross-amplify PCR products in 79 species of Passiflora (including P. edulis), belonging to four subgenera (Astrophea, Decaloba, Distephana and Passiflora). Approximately 71% of the marker/species combinations resulted in positive amplicons in all species tested. DNA polymorphism was detected in germplasm accessions of six closely related Passiflora species (P. edulis, P. alata, P. maliformis, P. nitida, P. quadrangularis and P. setacea) and the data used for accession discrimination and species assignment.
conclusionA database of P. edulis DNA sequences obtained by NGS technology was examined to identify microsatellite repeats in the sour passion fruit genome. Markers were submitted to evaluation using accessions of cultivated and wild Passiflora species. The new microsatellite markers detected high levels of DNA polymorphism in sour passion fruit and can potentially be used in genetic analysis of P. edulis and other Passiflora species.
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