ArticlePlant biotechnology journal2013
Comparative genomics analysis in Prunoideae to identify biologically relevant polymorphisms.
Article in Plant biotechnology journal, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 10 papers.
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
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Who cites it
10 citing papers in PubMed, 23 citations in OpenAlex.
- Development and Evaluation of an AxiomPlants (Basel, Switzerland) · 2023Article
- Descriptive Genomic Analysis and Sequence Genotyping of the Two Papaya Species (Vasconcellea pubescens and Vasconcellea chilensis) Using GBS Tools.Plants (Basel, Switzerland) · 2022Article
- Computational analysis of potential candidate genes involved in the cold stress response of ten Rosaceae members.BMC genomics · 2022Article
- Transcriptome Analysis Reveals Potential Mechanisms for Ethylene-Inducible Pedicel-Fruit Abscission Zone Activation in Non-Climacteric Sweet Cherry (Horticulturae · 2021Article
- Elucidation of the Amygdalin Pathway Reveals the Metabolic Basis of Bitter and Sweet Almonds (Plant physiology · 2018Article
- Genotyping by Sequencing in Almond: SNP Discovery, Linkage Mapping, and Marker Design.G3 (Bethesda, Md.) · 2018Article
- The genome sequence of sweet cherry (Prunus avium) for use in genomics-assisted breeding.DNA research : an international journal for rapid publication of reports on genes and genomes · 2017Article
- Evolutionary Genomics of Peach and Almond Domestication.G3 (Bethesda, Md.) · 2016Article
- Application of Genomic Technologies to the Breeding of Trees.Frontiers in genetics · 2016Review
- Recent advancements to study flowering time in almond and other Prunus species.Frontiers in plant science · 2014Review
Corrections and comments
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Authors and funding
12 authors at 7 institutions in 5 countries.
Funding
Abstract
Prunus is an economically important genus with a wide range of physiological and biological variability. Using the peach genome as a reference, sequencing reads from four almond accessions and one sweet cherry cultivar were used for comparative analysis of these three Prunus species. Reference mapping enabled the identification of many biological relevant polymorphisms within the individuals. Examining the depth of the polymorphisms and the overall scaffold coverage, we identified many potentially interesting regions including hundreds of small scaffolds with no coverage from any individual. Non-sense mutations account for about 70 000 of the 13 million identified single nucleotide polymorphisms (SNPs). Blast2GO analyses on these non-sense SNPs revealed several interesting results. First, non-sense SNPs were not evenly distributed across all gene ontology terms. Specifically, in comparison with peach, sweet cherry is found to have non-sense SNPs in two 1-aminocyclopropane-1-carboxylate synthase (ACS) genes and two 1-aminocyclopropane-1-carboxylate oxidase (ACO) genes. These polymorphisms may be at the root of the nonclimacteric ripening of sweet cherry. A set of candidate genes associated with bitterness in almond were identified by comparing sweet and bitter almond sequences. To the best of our knowledge, this is the first report in plants of non-sense SNP abundance in a genus being linked to specific GO terms.
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