ArticleScientific reports2016
Chloroplast genome structure in Ilex (Aquifoliaceae).
Article in Scientific reports, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 54 papers.
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Who cites it
54 citing papers in PubMed, 83 citations in OpenAlex.
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- The complete chloroplast genomes and comparative study of the two tung trees of Vernicia (Euphorbiaceae).BMC genomics · 2024Article
- Genomic Variability Survey inInternational journal of molecular sciences · 2024Article
- First indisputable fossil Ilex (Aquifoliales: Aquifoliaceae) flower found in Baltic amber.Scientific reports · 2024Article
- Comparative analysis of chloroplast genomes in ten holly (Ilex) species: insights into phylogenetics and genome evolution.BMC ecology and evolution · 2024Article
- The complete chloroplast genome sequences of six Hylotelephium species: Comparative genomic analysis and phylogenetic relationships.PloS one · 2023Article
- The complete chloroplast genome of two Firmiana species and comparative analysis with other related species.Genetica · 2022Article
- The complete chloroplast genome sequences of three lilies: genome structure, comparative genomic and phylogenetic analyses.Journal of plant research · 2022Article
- Complete chloroplast genome of the desert date (Balanites aegyptiaca (L.) Del. comparative analysis, and phylogenetic relationships among the members of Zygophyllaceae.BMC genomics · 2022Article
- Taxonomy, comparative genomics of Mullein (Verbascum, Scrophulariaceae), with implications for the evolution of Verbascum and Lamiales.BMC genomics · 2022Article
- Gene Losses and Plastome Degradation in the Hemiparasitic SpeciesPlants (Basel, Switzerland) · 2022Article
- Comparative analysis of complete Ilex (Aquifoliaceae) chloroplast genomes: insights into evolutionary dynamics and phylogenetic relationships.BMC genomics · 2022Article
- The complete chloroplast genome of ornamental and medicinalMitochondrial DNA. Part B, Resources · 2022Article
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- The complete chloroplast genome sequence ofMitochondrial DNA. Part B, Resources · 2021Article
- Cytological and Transcriptomic Analysis Provide Insights into the Formation of Variegated Leaves inPlants (Basel, Switzerland) · 2021Article
Corrections and comments
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Authors and funding
6 authors at 3 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Aquifoliaceae is the largest family in the campanulid order Aquifoliales. It consists of a single genus, Ilex, the hollies, which is the largest woody dioecious genus in the angiosperms. Most species are in East Asia or South America. The taxonomy and evolutionary history remain unclear due to the lack of a robust species-level phylogeny. We produced the first complete chloroplast genomes in this family, including seven Ilex species, by Illumina sequencing of long-range PCR products and subsequent reference-guided de novo assembly. These genomes have a typical bicyclic structure with a conserved genome arrangement and moderate divergence. The total length is 157,741 bp and there is one large single-copy region (LSC) with 87,109 bp, one small single-copy with 18,436 bp, and a pair of inverted repeat regions (IR) with 52,196 bp. A total of 144 genes were identified, including 96 protein-coding genes, 40 tRNA and 8 rRNA. Thirty-four repetitive sequences were identified in Ilex pubescens, with lengths >14 bp and identity >90%, and 11 divergence hotspot regions that could be targeted for phylogenetic markers. This study will contribute to improved resolution of deep branches of the Ilex phylogeny and facilitate identification of Ilex species.
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