ArticleBMC genomics2017
Genome-wide analysis of LTR-retrotransposon diversity and its impact on the evolution of the genus Helianthus (L.).
Article in BMC genomics, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 30 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
30 citing papers in PubMed.
- A pangenome insight into the genome divergence and flower color diversity among Rhododendron species.BMC genomics · 2026Article
- Transposable elements drive evolution and perturb gene expression in Brassica rapa and B. oleracea.The Plant journal : for cell and molecular biology · 2025Article
- The Dynamics of Long Terminal Repeat Retrotransposon Proliferation and Decay Drive the Evolution of Genome Size Variation in Capsicum.Plants (Basel, Switzerland) · 2025Article
- The reference genome of an endangered Asteraceae, Deinandra increscens subsp. villosa, endemic to the Central Coast of California.G3 (Bethesda, Md.) · 2024Article
- Transposable elements in Rosaceae: insights into genome evolution, expression dynamics, and syntenic gene regulation.Horticulture research · 2024Article
- Article
- Discovering the Repeatome of Five Species Belonging to the Asteraceae Family: A Computational Study.Plants (Basel, Switzerland) · 2023Article
- Amplification of LTRs of extrachromosomal linear DNAs (ALE-seq) identifies two active Oryco LTR retrotransposons in the rice cultivar Dongjin.Mobile DNA · 2022Article
- Characterisation of LTR-Retrotransposons ofInternational journal of molecular sciences · 2022Article
- Tracing the Evolution of the Angiosperm Genome from the Cytogenetic Point of View.Plants (Basel, Switzerland) · 2022Review
- Retrotransposons: How the continuous evolutionary front shapes plant genomes for response to heat stress.Frontiers in plant science · 2022Review
- The Singular Evolution ofFrontiers in plant science · 2022Article
- Review
- LTR-retrotransposon dynamics in common fig (Ficus carica L.) genome.BMC plant biology · 2021Article
- Genome-Wide Identification and Development of LTR Retrotransposon-Based Molecular Markers for thePlants (Basel, Switzerland) · 2021Article
- Article
- Genome Size Evolution Mediated by Gypsy Retrotransposons in Brassicaceae.Genomics, proteomics & bioinformatics · 2020Article
- Genome size variation at constant chromosome number is not correlated with repetitive DNA dynamism in Anacyclus (Asteraceae).Annals of botany · 2020Article
- Low Long Terminal Repeat (LTR)-Retrotransposon Expression in Leaves of the Marine PhanerogamLife (Basel, Switzerland) · 2020Article
- High-throughput retrotransposon-based genetic diversity of maize germplasm assessment and analysis.Molecular biology reports · 2020Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
5 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundGenome divergence by mobile elements activity and recombination is a continuous process that plays a key role in the evolution of species. Nevertheless, knowledge on retrotransposon-related variability among species belonging to the same genus is still limited. Considering the importance of the genus Helianthus, a model system for studying the ecological genetics of speciation and adaptation, we performed a comparative analysis of the repetitive genome fraction across ten species and one subspecies of sunflower, focusing on long terminal repeat retrotransposons at superfamily, lineage and sublineage levels.
resultsAfter determining the relative genome size of each species, genomic DNA was isolated and subjected to Illumina sequencing. Then, different assembling and clustering approaches allowed exploring the repetitive component of all genomes. On average, repetitive DNA in Helianthus species represented more than 75% of the genome, being composed mostly by long terminal repeat retrotransposons. Also, the prevalence of Gypsy over Copia superfamily was observed and, among lineages, Chromovirus was by far the most represented. Although nearly all the same sublineages are present in all species, we found considerable variability in the abundance of diverse retrotransposon lineages and sublineages, especially between annual and perennial species.
conclusionsThis large variability should indicate that different events of amplification or loss related to these elements occurred following species separation and should have been involved in species differentiation. Our data allowed us inferring on the extent of interspecific repetitive DNA variation related to LTR-RE abundance, investigating the relationship between changes of LTR-RE abundance and the evolution of the genus, and determining the degree of coevolution of different LTR-RE lineages or sublineages between and within species. Moreover, the data suggested that LTR-RE abundance in a species was affected by the annual or perennial habit of that species.
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.