ArticlePloS one2014
Single-nucleotide polymorphism markers from de-novo assembly of the pomegranate transcriptome reveal germplasm genetic diversity.
Article in PloS one, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 28 papers.
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28 citing papers in PubMed, 81 citations in OpenAlex.
- Phylloplane-Adapted Pseudomonas oryzihabitans as a biocontrol agent: omics insights into antibiosis and defense against bacterial blight of pomegranate.World journal of microbiology & biotechnology · 2025Article
- The pomegranate (Punica granatum L. cv. 'Wonderful') genome and P. protopunica shed light on pomegranate domestication. Is Daru a wild stock?BMC genomics · 2025Article
- Influence of Different Low-Temperature Treatments on Chilling Injury and Accumulation of Characteristic Anthocyanins in Pomegranates.Foods (Basel, Switzerland) · 2025Article
- Comprehensive genetic diversity and genome-wide association studies revealed the genetic basis of avocado fruit quality traits.Frontiers in plant science · 2024Article
- Genome-Wide Development of Polymorphic SNP Markers and Evaluation of Genetic Diversity of Litchi (Plants (Basel, Switzerland) · 2023Article
- Assembly and analysis of the first complete mitochondrial genome ofFrontiers in plant science · 2023Article
- Evolution of weedy giant ragweed (Ecology and evolution · 2022Article
- Characterization of the Spanish Pomegranate Germplasm Collection Maintained at the Agricultural Experiment Station of Elche to Identify Promising Breeding Materials.Plants (Basel, Switzerland) · 2022Article
- Systematic Analysis and Expression Profiles of the 4-Coumarate: CoA Ligase (4CL) Gene Family in Pomegranate (International journal of molecular sciences · 2022Article
- Identification, Analysis and Gene Cloning of the SWEET Gene Family Provide Insights into Sugar Transport in Pomegranate (International journal of molecular sciences · 2022Article
- The Pomegranate Deciduous Trait Is Genetically Controlled by aFrontiers in plant science · 2022Article
- Article
- Reference quality genome sequence of Indian pomegranate cv. 'Bhagawa' (Frontiers in plant science · 2022Article
- Novel miRNA-SSRs for Improving Seed Hardness Trait of Pomegranate (Frontiers in genetics · 2022Article
- Chromosome-specific potential intron polymorphism markers for large-scale genotyping applications in pomegranate.Frontiers in plant science · 2022Article
- Fine Mapping of the "black" Peel Color in Pomegranate (Frontiers in plant science · 2021Article
- Comparative transcriptome profiling of pomegranate genotypes having resistance and susceptible reaction toSaudi journal of biological sciences · 2020Article
- Genome wide identification, characterization and validation of novel miRNA-based SSR markers in pomegranate (Physiology and molecular biology of plants : an international journal of functional plant biology · 2020Article
- Elucidating the role of shikimate dehydrogenase in controlling the production of anthocyanins and hydrolysable tannins in the outer peels of pomegranate.BMC plant biology · 2019Article
- Genetic diversity of avocado (Persea americana Mill.) germplasm using pooled sequencing.BMC genomics · 2019Article
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Authors and funding
8 authors at 1 institution in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Pomegranate is a valuable crop that is grown commercially in many parts of the world. Wild species have been reported from India, Turkmenistan and Socotra. Pomegranate fruit has a variety of health-beneficial qualities. However, despite this crop's importance, only moderate effort has been invested in studying its biochemical or physiological properties or in establishing genomic and genetic infrastructures. In this study, we reconstructed a transcriptome from two phenotypically different accessions using 454-GS-FLX Titanium technology. These data were used to explore the functional annotation of 45,187 fully annotated contigs. We further compiled a genetic-variation resource of 7,155 simple-sequence repeats (SSRs) and 6,500 single-nucleotide polymorphisms (SNPs). A subset of 480 SNPs was sampled to investigate the genetic structure of the broad pomegranate germplasm collection at the Agricultural Research Organization (ARO), which includes accessions from different geographical areas worldwide. This subset of SNPs was found to be polymorphic, with 10.7% loci with minor allele frequencies of (MAF<0.05). These SNPs were successfully used to classify the ARO pomegranate collection into two major groups of accessions: one from India, China and Iran, composed of mainly unknown country origin and which was more of an admixture than the other major group, composed of accessions mainly from the Mediterranean basin, Central Asia and California. This study establishes a high-throughput transcriptome and genetic-marker infrastructure. Moreover, it sheds new light on the genetic interrelations between pomegranate species worldwide and more accurately defines their genetic nature.
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