ArticleScientific reports2019
Genomics-based diversity analysis of Vanilla species using a Vanilla planifolia draft genome and Genotyping-By-Sequencing.
Article in Scientific reports, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 20 papers.
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Who cites it
20 citing papers in PubMed.
- Genetic and Morphological Analyses of Native Vanilla Populations in Mexico Call into Question the Taxonomy ofPlants (Basel, Switzerland) · 2026Article
- Metabolite correlation-based network analysis combined with machine learning techniques highlights LOX biosynthesis in Vanilla planifolia and Vanilla pompona source leaves.Scientific reports · 2026Article
- Chemical diversity and species differentiation in Brazilian Vanilla: insights from LC-HRMS/MS metabolomics.Metabolomics : Official journal of the Metabolomic Society · 2026Article
- Unravelling Vanillin Biosynthesis: Integrative Transcriptomic and Metabolomic Insights intoJournal of agricultural and food chemistry · 2025Article
- Contrasting clonal and population genetic structure in two endangered Costa Rican Vanilla species of commercial interest.Scientific reports · 2025Article
- Comparative transcriptome profiling of vanilla (Vanilla planifolia) capsule development provides insights of vanillin biosynthesis.BMC plant biology · 2025Article
- Article
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- A whiff of the future: functions of phenylalanine-derived aroma compounds and advances in their industrial production.Plant biotechnology journal · 2022Review
- Genomic Insights into Cultivated MexicanPlants (Basel, Switzerland) · 2022Article
- In-depth analysis of genomes and functional genomics of orchid using cutting-edge high-throughput sequencing.Frontiers in plant science · 2022Review
- Orchid Phylotranscriptomics: The Prospects of Repurposing Multi-Tissue Transcriptomes for Phylogenetic Analysis and Beyond.Frontiers in plant science · 2022Article
- Genome sequence of Apostasia ramifera provides insights into the adaptive evolution in orchids.BMC genomics · 2021Article
- Estimation of Genome Size in the Endemic SpeciesPlants (Basel, Switzerland) · 2021Article
- Plastid phylogenomics resolves ambiguous relationships within the orchid family and provides a solid timeframe for biogeography and macroevolution.Scientific reports · 2021Article
- A phased Vanilla planifolia genome enables genetic improvement of flavour and production.Nature food · 2020Article
- Development of species-specific molecular markers in Vanilla for seedling selection of hybrids.Molecular biology reports · 2020Article
- Rooibos (Plants (Basel, Switzerland) · 2020Article
- Breeding Strategies and Challenges in the Improvement of Blast Disease Resistance in Finger Millet. A Current Review.Frontiers in plant science · 2020Review
- Dissecting the Function of MADS-Box Transcription Factors in Orchid Reproductive Development.Frontiers in plant science · 2019Review
Corrections and comments
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Authors and funding
6 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Demand for all-natural vanilla flavor is increasing, but its botanical source, Vanilla planifolia, faces critical challenges arising from a narrow germplasm base and supply limitations. Genomics tools are the key to overcoming these limitations by enabling advanced genetics and plant breeding for new cultivars with improved yield and quality. The objective of this work was to establish the genomic resources needed to facilitate analysis of diversity among Vanilla accessions and to provide a resource to analyze other Vanilla collections. A V. planifolia draft genome was assembled and used to identify 521,732 single nucleotide polymorphism (SNP) markers using Genotyping-By-Sequencing (GBS). The draft genome had a size of 2.20 Gb representing 97% of the estimated genome size. A filtered set of 5,082 SNPs was used to genotype a living collection of 112 Vanilla accessions from 23 species including native Florida species. Principal component analysis of the genetic distances, population structure, and the maternally inherited rbcL gene identified putative hybrids, misidentified accessions, significant diversity within V. planifolia, and evidence for 12 clusters that separate accessions by species. These results validate the efficiency of genomics-based tools to characterize and identify genetic diversity in Vanilla and provide a significant tool for genomics-assisted plant breeding.
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