Genome-Wide Analyses of Repeat-Induced Point Mutations in the Ascomycota
| العنوان: | Genome-Wide Analyses of Repeat-Induced Point Mutations in the Ascomycota |
|---|---|
| المؤلفون: | Brenda D. Wingfield, Lieschen De Vos, Nicolaas Albertus Van der Merwe, Stephanie Van Wyk, Emma Theodora Steenkamp |
| المصدر: | Frontiers in Microbiology Frontiers in Microbiology, Vol 11 (2021) |
| بيانات النشر: | Frontiers Media SA, 2021. |
| سنة النشر: | 2021 |
| مصطلحات موضوعية: | 0106 biological sciences, Microbiology (medical), endocrine system, Genome evolution, endocrine system diseases, lcsh:QR1-502, Context (language use), Pezizomycetes, genome evolution, digestive system, 01 natural sciences, Microbiology, Genome, lcsh:Microbiology, repeat-induced point mutation, 03 medical and health sciences, Ascomycota, Saccharomycotina, Original Research, 030304 developmental biology, Genetics, GC content, 0303 health sciences, biology, nutritional and metabolic diseases, biology.organism_classification, Taphrinomycotina, RIP, hormones, hormone substitutes, and hormone antagonists, Pezizomycotina, 010606 plant biology & botany |
| الوصف: | The Repeat-Induced Point (RIP) mutation pathway is a fungus-specific genome defense mechanism that mitigates the deleterious consequences of repeated genomic regions and transposable elements (TEs). RIP mutates targeted sequences by introducing cytosine to thymine transitions. We investigated the genome-wide occurrence and extent of RIP with a sliding-window approach. Using genome-wide RIP data and two sets of control groups, the association between RIP, TEs, and GC content were contrasted in organisms capable and incapable of RIP. Based on these data, we then set out to determine the extent and occurrence of RIP in 58 representatives of the Ascomycota. The findings were summarized by placing each of the fungi investigated in one of six categories based on the extent of genome-wide RIP.In silicoRIP analyses, using a sliding-window approach with stringent RIP parameters, implemented simultaneously within the same genetic context, on high quality genome assemblies, yielded superior results in determining the genome-wide RIP among the Ascomycota. Most Ascomycota had RIP and these mutations were particularly widespread among classes of the Pezizomycotina, including the early diverging Orbiliomycetes and the Pezizomycetes. The most extreme cases of RIP were limited to representatives of the Dothideomycetes and Sordariomycetes. By contrast, the genomes of the Taphrinomycotina and Saccharomycotina contained no detectable evidence of RIP. Also, recent losses in RIP combined with controlled TE proliferation in the Pezizomycotina subphyla may promote substantial genome enlargement as well as the formation of sub-genomic compartments. These findings have broadened our understanding of the taxonomic range and extent of RIP in Ascomycota and how this pathway affects the genomes of fungi harboring it. |
| تدمد: | 1664-302X |
| URL الوصول: | https://explore.openaire.eu/search/publication?articleId=doi_dedup___::01f10c7c4b9b5f630a29e175028907b9 https://doi.org/10.3389/fmicb.2020.622368 |
| حقوق: | OPEN |
| رقم الأكسشن: | edsair.doi.dedup.....01f10c7c4b9b5f630a29e175028907b9 |
| قاعدة البيانات: | OpenAIRE |
| تدمد: | 1664302X |
|---|