ArticleBMC genomics2018
SSR marker development and intraspecific genetic divergence exploration of Chrysanthemum indicum based on transcriptome analysis.
Article in BMC genomics, 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 19 papers.
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Who cites it
19 citing papers in PubMed, 54 citations in OpenAlex.
- Investigating the genetic potential of Ashwagandha (Withania somnifera L. Dunal) germplasm through SCoT and EST-SSR molecular markers.Scientific reports · 2026Article
- Streamlining of Simple Sequence Repeat Data Mining Methodologies and Pipelines for Crop Scanning.Plants (Basel, Switzerland) · 2024Review
- Novel Tri-Segmented Rhabdoviruses: A Data Mining Expedition Unveils the Cryptic Diversity of Cytorhabdoviruses.Viruses · 2023Article
- Full-length transcriptome characterization and comparative analysis of Gleditsia sinensis.BMC genomics · 2023Article
- Expanding the Repertoire of the Plant-Infecting Ophioviruses through Metatranscriptomics Data.Viruses · 2023Article
- Development and validation of SSR markers related to flower color based on full-length transcriptome sequencing in Chrysanthemum.Scientific reports · 2022Article
- Analysis of the genetic diversity and population structure of Monochasma savatieri Franch. ex Maxim using novel EST-SSR markers.BMC genomics · 2022Article
- A Pipeline for the Development of Microsatellite Markers using Next Generation Sequencing Data.Current genomics · 2022Article
- Effective identification of varieties by nucleotide polymorphisms and its application for essentially derived variety identification in rice.BMC bioinformatics · 2022Article
- Recent updates on anticancer mechanisms of polyphenols.Frontiers in cell and developmental biology · 2022Review
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- De Novo Transcriptomic Characterization Enables Novel Microsatellite Identification and Marker Development inLife (Basel, Switzerland) · 2021Article
- Article
- Development of EST-SSR markers and association mapping with floral traits in Syringa oblata.BMC plant biology · 2020Article
- Molecular footprints of selection effects and whole genome duplication (WGD) events in three blueberry species: detected by transcriptome dataset.BMC plant biology · 2020Article
- Article
- Genetic Divergence and Relationship AmongFrontiers in genetics · 2020Article
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- The newly developed single nucleotide polymorphism (SNP) markers for a potentially medicinal plant, Crepidiastrum denticulatum (Asteraceae), inferred from complete chloroplast genome data.Molecular biology reports · 2019Article
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Authors and funding
6 authors at 2 institutions in 1 country.
Funding
Abstract
backgroundChrysanthemum indicum L., an important ancestral species of the flowering plant chrysanthemum, can be used as medicine and for functional food development. Due to the lack of hereditary information for this species and the difficulty of germplasm identification, we herein provide new genetic insight from the perspective of intraspecific transcriptome comparison and present single sequence repeat (SSR) molecular marker recognition technology.
resultsThrough the study of a diploid germplasm (DIWNT) and a tetraploid germplasm (DIWT), the following outcome were obtained. (1) A significant difference in Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) annotations for specific homologous genes was observed using the OrthoMCL method for the identification of homologous gene families between the two cytotypes. Ka/Ks analysis of common, single-copy homologous family members also revealed a greater difference among genes that experienced positive selection than among those experiencing positive selection. (2) Of more practical value, 2575 SSR markers were predicted and partly verified. We used TaxonGap as a visual tool to inspect genotype uniqueness and screen for high-performance molecular loci; we recommend four primers of 65 randomly selected primers with a combined identification success rate of 88.6% as priorities for further development of DNA fingerprinting of C. indicum germplasm.
conclusionsThe SSR technology based on next-generation sequencing was proved to be successful in the identification of C. indicum germplasms. And the information on the intraspecfic genetic divergence generated by transcriptome comparison deepened the understanding of this complex species' nature.
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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.