ENAGenomicsNKUAhttps://www.ebi.ac.uk/ena/browser/view/PRJEB37679The genus Metarhizium is composed of entomopathogenic fungal biological control agents (BCAs) used for invertebrate pest control. The phylogenetic relationships of species within this genus are still under scrutiny as several cryptic species can be found. In this work, the mitochondrial (mt) genome of Metarhizium brunneum ARSEF 4556 was fully sequenced and a comparative genome analysis was conducted with 7 other available mt genomes, belonging to 5 Metarhizium species: M. anisopliae, M. brunneum, M. robertsii, M. guizhouense and M. majus. Results showed that Metarhizium demonstrates greater conserved stability than other fungal mt genomes. Furthermore, this analysis located 7 diverse regions in both intergenic domains and gene fragments which were ideal for species/strain discrimination. The sequencing of these regions revealed several SNPs among 38 strains tested, 11 of which were uncharacterized. Single gene phylogenies presented variable results which may be used further for intra-species discrimination. Phylogenetic trees based on the concatenation of mt domains and the nuclear ITS1-5.8S-ITS2 region showed discrimination of the species studied and allowed the identification of uncharacterized strains. These were mostly placed within species M. anisopliae and M. brunneum. Five strains clustered together in a clade related to M. brunneum, suggesting that they comprise a cryptic species.ENAPhylogenetic Comparative Method, Molecular Phylogenetic, Phylogenetic Reconstruction, Metarhizium anisopliae var. anisopliae, Phylogenetic Analyse, Phylogenetic Structure, Sprain, Phylogenetic Analysis, Phylogenetic Inferences, Network, Tree, Phylogenetic Analyses, Phylogenetic Comparative, Metarhiziums, Phylogenetic Clusterings, Phylogenetic Generalized Least Squares, Distance, Entomophthora anisopliae, Phylogenomics, Phylogenetic Signals, Phylogenetic Comparative Methods, Phylogenetic Inference, Inference, Method, Relatedness, Molecular Phylogenetics, Comparative Analysis, Strain., Phylogenetic Relatednesses, Phylogenetic Comparative Analyses, Phylogenetic Relatedness, Analysis, Phylogenetic Comparative Analysis, Phylogenetic Incongruence, Sprains, Phylogenetic Relationship, Community Phylogenetics, Group, mtDNA, Phylogenomic, Phylogenetic Group, Phylogenetic Tree, mitochondrial genome, Isaria anisopliae, Molecular, Penicillium anisopliae, Signal, Phylogenies, Metarhizium anisopliae, Phylogenetic Signal, Phylogenetic Structures, Phylogenetic Networks, Phylogenetic Distances, Structure, Analyse, Reconstruction, Phylogenetic Trees, mitochondrial DNA, Phylogenetic, Comparative Method, Phylogenetic Network, Metacordyceps, Clustering, Community Phylogenetic, Phylogenetic Reconstructions, Phylogenetic Relationships, Phylogenetic Groups, Phylogenetic Incongruences, Phylogenetic Distance, Incongruence, Phylogenetic Clustering, species, Strains, Relationship, Strains and Sprains, Communitysequence, primary structure of sequence macromolecule., Genomes0.00.00.00.00.0falseMetarhizium brunneum ARSEF 4556 mt genome sequenceThe mitochondrial genome contribution to the phylogeny and identification of Metarhizium species and strains2021-05-242020-09-14PRJEB376793350909032948272