ArticleBMC genomics2014
The landscape of transposable elements in the finished genome of the fungal wheat pathogen Mycosphaerella graminicola.
Article in BMC genomics, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 38 papers.
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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.
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Who cites it
38 citing papers in PubMed, 75 citations in OpenAlex.
- Interspecies hybridization as a route of accessory chromosome origin in fungal pathogens.mBio · 2026Article
- Evolution of sympatric host-specialized lineages of the fungal plant pathogen Zymoseptoria passerinii in natural ecosystems.The New phytologist · 2025Article
- Defense Pathways of Wheat Plants Inoculated withLife (Basel, Switzerland) · 2024Review
- Genome-wide characterization and evolution analysis of miniature inverted-repeat transposable elements in Barley (Frontiers in plant science · 2024Article
- IRAPs in Combination with Highly Informative ISSRs Confer Effective Potentials for Genetic Diversity and Fidelity Assessment inInternational journal of molecular sciences · 2023Article
- Major proliferation of transposable elements shaped the genome of the soybean rust pathogen Phakopsora pachyrhizi.Nature communications · 2023Article
- Recent transposable element bursts are associated with the proximity to genes in a fungal plant pathogen.PLoS pathogens · 2023Article
- The pangenome of the wheat pathogen Pyrenophora tritici-repentis reveals novel transposons associated with necrotrophic effectors ToxA and ToxB.BMC biology · 2022Article
- Review
- Population genomics of transposable element activation in the highly repressive genome of an agricultural pathogen.Microbial genomics · 2021Article
- Dynamics of transposable elements in recently diverged fungal pathogens: lineage-specific transposable element content and efficiency of genome defenses.G3 (Bethesda, Md.) · 2021Article
- Comparative Genomics: Insights on the Pathogenicity and Lifestyle ofInternational journal of molecular sciences · 2021Article
- Conversion of DNA Sequences: From a Transposable Element to a Tandem Repeat or to a Gene.Genes · 2019Review
- Transposable Elements Adaptive Role in Genome Plasticity, Pathogenicity and Evolution in Fungal Phytopathogens.International journal of molecular sciences · 2019Review
- Article
- Extraordinary Genome Instability and Widespread Chromosome Rearrangements During Vegetative Growth.Genetics · 2018Article
- The evolution of genomic and epigenomic features in two Pleurotus fungi.Scientific reports · 2018Article
- Analysis of Transposable Elements in Coccidioides Species.Journal of fungi (Basel, Switzerland) · 2018Article
- The Landscape of Repetitive Elements in the Refined Genome of Chilli Anthracnose FungusFrontiers in microbiology · 2018Article
- Quantitative trait locus mapping reveals complex genetic architecture of quantitative virulence in the wheat pathogen Zymoseptoria tritici.Molecular plant pathology · 2018Article
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Authors and funding
4 authors at 4 institutions in 3 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundIn addition to gene identification and annotation, repetitive sequence analysis has become an integral part of genome sequencing projects. Identification of repeats is important not only because it improves gene prediction, but also because of the role that repetitive sequences play in determining the structure and evolution of genes and genomes. Several methods using different repeat-finding strategies are available for whole-genome repeat sequence analysis. Four independent approaches were used to identify and characterize the repetitive fraction of the Mycosphaerella graminicola (synonym Zymoseptoria tritici) genome. This ascomycete fungus is a wheat pathogen and its finished genome comprises 21 chromosomes, eight of which can be lost with no obvious effects on fitness so are dispensable.
resultsUsing a combination of four repeat-finding methods, at least 17% of the M. graminicola genome was estimated to be repetitive. Class I transposable elements, that amplify via an RNA intermediate, account for about 70% of the total repetitive content in the M. graminicola genome. The dispensable chromosomes had a higher percentage of repetitive elements as compared to the core chromosomes. Distribution of repeats across the chromosomes also varied, with at least six chromosomes showing a non-random distribution of repetitive elements. Repeat families showed transition mutations and a CpA → TpA dinucleotide bias, indicating the presence of a repeat-induced point mutation (RIP)-like mechanism in M. graminicola. One gene family and two repeat families specific to subtelomeres also were identified in the M. graminicola genome. A total of 78 putative clusters of nested elements was found in the M. graminicola genome. Several genes with putative roles in pathogenicity were found associated with these nested repeat clusters. This analysis of the transposable element content in the finished M. graminicola genome resulted in a thorough and highly curated database of repetitive sequences.
conclusionsThis comprehensive analysis will serve as a scaffold to address additional biological questions regarding the origin and fate of transposable elements in fungi. Future analyses of the distribution of repetitive sequences in M. graminicola also will be able to provide insights into the association of repeats with genes and their potential role in gene and genome evolution.
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