ArticleBMC evolutionary biology2014
Evolutionary origin of highly repetitive plastid genomes within the clover genus (Trifolium).
Article in BMC evolutionary biology, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 29 papers.
What it found
Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.
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.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
29 citing papers in PubMed, 49 citations in OpenAlex.
- Plastome evolution and phylogenomics of Glycine (Leguminosae: Papilionoideae).BMC plant biology · 2026Article
- Structural and phylogenetic insights from complete chloroplast genomes of seven Vicia species.PloS one · 2026Article
- Chloroplast Genomes Evolution and Phylogenetic Relationships ofInternational journal of molecular sciences · 2024Article
- Comparative genomics and phylogenomics of the genusFrontiers in pharmacology · 2024Article
- Chloroplast genomes of fourFrontiers in plant science · 2023Article
- Characterization and comparative analysis of the complete plastid genomes of four Astragalus species.PloS one · 2023Article
- Complete Chloroplast Genomes of 14 Subspecies ofGenes · 2022Article
- Complete chloroplast genome sequence of Lens ervoides and comparison to Lens culinaris.Scientific reports · 2022Article
- Highly Resolved Papilionoid Legume Phylogeny Based on Plastid Phylogenomics.Frontiers in plant science · 2022Article
- Chromosome and Genome Diversity in the GenusPlants (Basel, Switzerland) · 2021Review
- Plastome Structural Evolution and Homoplastic Inversions in Neo-Astragalus (Fabaceae).Genome biology and evolution · 2021Article
- Extensive genomic rearrangements mediated by repetitive sequences in plastomes of Medicago and its relatives.BMC plant biology · 2021Article
- Variation in Ribosomal DNA in the GenusPlants (Basel, Switzerland) · 2021Article
- The Complete Chloroplast Genome of Two Important Annual Clover Species,Plants (Basel, Switzerland) · 2020Article
- Comparative Mitogenome Analysis of the GenusInternational journal of molecular sciences · 2020Article
- Plastome comparative genomics in maples resolves the infrageneric backbone relationships.PeerJ · 2020Article
- Article
- Complete plastid genome ofJournal of genetics · 2019Article
- Expected and unexpected evolution of plant RNA editing factors CLB19, CRR28 and RARE1: retention of CLB19 despite a phylogenetically deep loss of its two known editing targets in Poaceae.BMC evolutionary biology · 2018Article
- The Linum usitatissimum L. plastome reveals atypical structural evolution, new editing sites, and the phylogenetic position of Linaceae within Malpighiales.Plant cell reports · 2018Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
2 authors at 1 institution in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundSome clover species, particularly Trifolium subterraneum, have previously been reported to have highly unusual plastomes, relative to closely related legumes, enlarged with many duplications, gene losses and the presence of DNA unique to Trifolium, which may represent horizontal transfer. In order to pinpoint the evolutionary origin of this phenomenon within the genus Trifolium, we sequenced and assembled the plastomes of eight additional Trifolium species widely sampled from across the genus.
resultsThe Trifolium plastomes fell into two groups: those of Trifolium boissieri, T. strictum and T. glanduliferum (representing subgenus Chronosemium and subg. Trifolium section Paramesus) were tractable, assembled readily and were not unusual in the general context of Fabeae plastomes. The other Trifolium species ("core Trifolium") proved refractory to assembly mainly because of numerous short duplications. These species form a single clade, which we call the "refractory clade" (comprising subg, Trifolium sections Lupinaster, Trifolium, Trichocephalum, Vesicastrum and Trifoliastrum). The characteristics of the refractory clade are the presence of numerous short duplications and 7-15% longer genomes than the tractable species. Molecular dating estimates that the origin of the most recent common ancestor (MRCA) of the refractory clade is approximately 13.1 million years ago (MYA). This is considerably younger than the estimated MRCA ages of Trifolium (c. 18.6 MYA) and Trifolium subg. Trifolium (16.1 MYA).
conclusionsWe conclude that the unusual repetitive plastome type previously characterized in Trifolium subterraneum had a single origin within Trifolium and is characteristic of most (but not all) species of subgenus Trifolium. It appears that an ancestral plastome within Trifolium underwent an evolutionary change resulting in plastomes that either actively promoted, were permissive to, or were unable to control, duplications within the genome. The precise mechanism of this important change in the mode and tempo of plastome evolution deserves further investigation.
Indexed as
Identifiers
What OpenQuestion holds
Registered trials
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.