The DOI matches its Crossref record; 3 of the 3 references it cites were found in a registry or an index.
Transposons passively and actively contribute to evolution of the two-speed genome of a fungal pathogen
Open accessAbstract
Genomic plasticity enables adaptation to changing environments, which is especially relevant for pathogens that engage in “arms races” with their hosts. In many pathogens, genes mediating virulence cluster in highly variable, transposon-rich, physically distinct genomic compartments. However, understanding of the evolution of these compartments, and the role of transposons therein, remains limited. Here, we show that transposons are the major driving force for adaptive genome evolution in the fungal plant pathogen Verticillium dahliae . We show that highly variable lineage-specific (LS) regions evolved by genomic rearrangements that are mediated by erroneous double-strand repair, often utilizing transposons. We furthermore show that recent genetic duplications are enhanced in LS regions, against an older episode of duplication events. Finally, LS regions are enriched in active transposons, which contribute to local genome plasticity. Thus, we provide evidence for genome shaping by transposons, both in an active and passive manner, which impacts the evolution of pathogen virulence.
Overview
The claims and statistics of this paper haven’t been checked yet.
Run the check — free, no account needed. It reads the open-access text and checks the sources it cites.
Integrity signals
Registry
Cites
Statistics
Verification
Claims the paper makes
The claims and statistics of this paper haven’t been checked yet.
Run the check — free, no account needed. It reads the open-access text and checks the sources it cites.
Self-check
Percentages, sums and reported differences re-computed from the paper’s own numbers.
The self-check needs the paper’s full text.
Citations
Cites
OrthoMCL: Identification of Ortholog Groups for Eukaryotic Genomes
Li, L., Stoeckert, C. J., & Roos, D. S. (2003) · Genome Research · doi:10.1101/gr.1224503 · Cited by 5,707
Versatile and open software for comparing large genomes
Kurtz, S., Phillippy, A., Delcher, A. L., Smoot, M., Shumway, M., Antonescu, C., & Salzberg, S. L. (2004) · Genome Biology · doi:10.1186/gb-2004-5-2-r12 · Cited by 5,254
Genomic Islands in the Pathogenic Filamentous Fungus Aspergillus fumigatus
Fedorova, N. D., Khaldi, N., Joardar, V. S., Maiti, R., Amedeo, P., Anderson, M. J., Crabtree, J., Silva, J. C., Badger, J. H., Albarraq, A., et al. (2008) · PLoS Genetics · doi:10.1371/journal.pgen.1000046 · Cited by 508 · cited 2×
“embedded within the core chromosomes or reside on conditionally dispensable chromosomes (Thon et al. 2006; Fedorova et al. 2008; Haas et al. 2009; Ma et al. 2010; Goodwin et al. 2011; Klosterman et al. 2011; Rouxel et al. 2011; de Jonge et al. 2013).”
Background
Cited by
Liang, X., Wang, B., Dong, Q., Li, L., Rollins, J. A., Zhang, R., & Sun, G. (2018) · PLOS ONE · doi:10.1371/journal.pone.0196303 · Cited by 69
Fungal Genomes and Insights into the Evolution of the Kingdom
Stajich, J. E. (2017) · The Fungal Kingdom · doi:10.1128/9781555819583.ch29 · Cited by 22
Metadata
- Authors
- Faino, L., Seidl, M. F., Shi-Kunne, X., Pauper, M., van den Berg, G. C. M., Wittenberg, A. H. J., & Thomma, B. P. H. J.
- Venue
- Genome Research
- Publisher
- Cold Spring Harbor Laboratory
- Published
- 2016-06-20
- Volume
- 26
- Issue
- 8
- Pages
- 1091-1100
- ISSN
- 1088-9051 (ISSN-L)
- 1549-5469
- OpenAlex
- W2468803195
- Cited by
- 319
- References
- 3
- Type
- posted content
- Language
- en
- Open access
- bronze
About these checks
Registry, retraction, Cites and statistics results are computed, not judged, with one exception: a printed reference that no index lists is read once by a model before it counts as a citation error. Claims are extracted by a model and kept only when their quote appears verbatim in the text; each cited source is then checked, with a model’s help, for whether it says what the claim relies on. Those verdicts can be wrong — read the claim’s quote and the cited source before relying on one.
Statistics and arithmetic are recomputed, not judged.
Confidence bands are shown only for fields calibrated on our annotated test set. None is calibrated yet, so no band is shown.
What counts as a claim ›How we measure confidence ›How we check this ›
Are you an author, or do you see a problem with this page? Request a review
How to cite
Cite CoChat for the checks on this page, and the paper for its own findings.
- This page
- CoChat. (2026). Citation check: Transposons passively and actively contribute to evolution of the two-speed genome of a fungal pathogen. https://app.cochat.ai/papers/10.1101/gr.204974.116
- The paper
- Faino, L., Seidl, M. F., Shi-Kunne, X., Pauper, M., van den Berg, G. C. M., Wittenberg, A. H. J., & Thomma, B. P. H. J. (2016). Transposons passively and actively contribute to evolution of the two-speed genome of a fungal pathogen. Genome Research. https://doi.org/10.1101/gr.204974.116
Data sources
Bibliographic data: Semantic Scholar, OpenAlex, Crossref.
Contains information from the Semantic Scholar Academic Graph Datasets, made available under the ODC Attribution License (ODC-BY 1.0).
Semantic Scholar’s data is described in: Kinney, R., et al. (2023). The Semantic Scholar Open Data Platform. arXiv:2301.10140.
