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High Variability of Mitochondrial Gene Order among Fungi

AuthorsAguileta, Gabriela; de Vienne, Damien M.; Ross, Oliver N. ; Hood, Michael E.; Giraud, Tatiana; Petit, Elsa; Gabaldón, Toni
Genome size reduction
Rearrangement rates
Fungal phylogeny
Basal fungi
Issue DateJul-2014
PublisherOxford University Press
CitationGenome Biology and Evolution 6(7): 451-465 (2014)
AbstractFrom their origin as an early alpha proteobacterial endosymbiont to their current state as cellular organelles, large-scale genomic reorganization has taken place in the mitochondria of all main eukaryotic lineages. So far, most studies have focused on plant and animal mitochondrial (mt) genomes (mtDNA), but fungi provide new opportunities to study highly differentiated mtDNAs. Here, we analyzed 38 complete fungal mt genomesto investigate the evolution of mtDNA geneorder among fungi. Inparticular, we looked for evidence of nonhomologous intrachromosomal recombination and investigated the dynamics of gene rearrangements. We investigated the effect that introns, intronic open reading frames (ORFs), and repeats may have on gene order. Additionally, we asked whether the distribution of transfer RNAs (tRNAs) evolves independently to that of mt protein-codinggenes. We foundthat fungal mt genomes display remarkable variation between and within the major fungal phyla in terms of gene order, genome size, composition of intergenic regions, and presence of repeats, introns, and associated ORFs. Our results support previous evidence for the presence of mt recombination in all fungal phyla, a process conspicuously lacking in most Metazoa. Overall, the patterns of rearrangements may be explained by the combined influences of recombination (i.e., most likely nonhomologous and intrachromosomal), accumulated repeats, especially at intergenic regions, and to a lesser extent, mobile element dynamics. © The Author(s) 2014
Description15 pages, 4 figures, 3 tables, supplementary material figures S1–S3 and tables S1–S5 http://gbe.oxfordjournals.org/content/6/2/451/suppl/DC1
Publisher version (URL)https://doi.org/10.1093/gbe/evu028
Identifiersdoi: 10.1093/gbe/evu028
issn: 1759-6653
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