The complete mitogenome of <i>Mycosphaerella pinodes</i> (Ascomycota, Mycosphaerellaceae)

Okorski, Adam; Pszczółkowska, Agnieszka; Jastrzebski, J; Paukszto, Łukasz; Okorska, Sylwia

doi:10.1080/23802359.2015.1137817

Cited by 4 publications

(4 citation statements)

References 7 publications

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“…Despite the huge distinction of the two Exserohilum mitogenomes in size, their core PCGs were very conserved in both number and sequence, which were consistent with the gene contents of other Pleosporales mitogenomes, consisting mainly of nad1-nad6 , nad4L , cob , cox1-cox3 and atp6 . However, there were another two core PCGs, atp8 and atp9 , that could be commonly observed in most orders of Dothideomycetes, such as Mycosphaerellales [69] , but were missing in all reported mitogenomes of Pleosporales including the genus Exserohilum [38] , [39] , [70] , [71] , [72] , [73] , [74] . In addition, the two Exserohilum mitogenomes had a significant feature, i.e., the gene fusion between cox1 and cox2 , which was also found in some other Pleosporales species, such as Corynespora cassiicola and S. lycopersici [73] , [74] .…”

Section: Discussionmentioning

confidence: 99%

Comparative mitochondrial genome analyses reveal conserved gene arrangement but massive expansion/contraction in two closely related Exserohilum pathogens

Geng

et al. 2022

Computational and Structural Biotechnology Journal

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Section: Discussionmentioning

confidence: 99%

Comparative mitochondrial genome analyses reveal conserved gene arrangement but massive expansion/contraction in two closely related Exserohilum pathogens

Geng

et al. 2022

Computational and Structural Biotechnology Journal

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“…The reads were first filtered based on quality using the Filtlong package v0.2.0 ( ), and then adaptors were removed using the Porechop package v0.2.4 ( . Minimap2 v10.2.0 [ 72 ] was used to extract mitochondrial reads through the sequence alignment of processed reads to the published M. pinodes mitochondrial genome [ 73 ]. The post-processing of sequence alignment data, including conversion from SAM to BAM format and the sorting of BAM files, before separating mapped and unmapped reads as fastq files, was carried out using Samtools v1.12 [ 74 ].…”

Section: Methodsmentioning

confidence: 99%

De Novo Long-Read Whole-Genome Assemblies and the Comparative Pan-Genome Analysis of Ascochyta Blight Pathogens Affecting Field Pea

Ogaji

Lee

Sawbridge

et al. 2022

JoF

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Ascochyta Blight (AB) is a major disease of many cool-season legumes globally. In field pea, three fungal pathogens have been identified to be responsible for this disease in Australia, namely Peyronellaea pinodes, Peyronellaea pinodella and Phoma koolunga. Limited genomic resources for these pathogens have been generated, which has hampered the implementation of effective management strategies and breeding for resistant cultivars. Using Oxford Nanopore long-read sequencing, we report the first high-quality, fully annotated, near-chromosome-level nuclear and mitochondrial genome assemblies for 18 isolates from the Australian AB complex. Comparative genome analysis was performed to elucidate the differences and similarities between species and isolates using phylogenetic relationships and functional diversity. Our data indicated that P. pinodella and P. koolunga are heterothallic, while P. pinodes is homothallic. More homology and orthologous gene clusters are shared between P. pinodes and P. pinodella compared to P. koolunga. The analysis of the repetitive DNA content showed differences in the transposable repeat composition in the genomes and their expression in the transcriptomes. Significant repeat expansion in P. koolunga’s genome was seen, with strong repeat-induced point mutation (RIP) activity being evident. Phylogenetic analysis revealed that genetic diversity can be exploited for species marker development. This study provided the much-needed genetic resources and characterization of the AB species to further drive research in key areas such as disease epidemiology and host–pathogen interactions.

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“…Since most mitogenomes are uniparentally inherited we used our mitochondrial phylogeny to compare topologies with already published nuclear ones for the Sigatoka disease complex species. Didymella pinodes [ 56 ], Pseudovirgaria hyperparasítica [ 57 ], Phaeosphaeria nodorum [ 45 ] and Shiraia bambusicola [ 46 ] were used as outgroups. Ten core mitochondrial genes ( cox1 , cox3 , atp6 , cob , nad1 , nad2 , nad4 , nad4L , nad5 , nad6 ) were aligned one by one for all species using CLUSTAL W version 2.0 [ 53 ].…”

Section: Methodsmentioning

confidence: 99%

The Mitochondrial Genome of a Plant Fungal Pathogen Pseudocercospora fijiensis (Mycosphaerellaceae), Comparative Analysis and Diversification Times of the Sigatoka Disease Complex Using Fossil Calibrated Phylogenies

Arcila-Galvis

Arango

Torres-Bonilla

et al. 2021

Life

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Mycosphaerellaceae is a highly diverse fungal family containing a variety of pathogens affecting many economically important crops. Mitochondria play a crucial role in fungal metabolism and in the study of fungal evolution. This study aims to: (i) describe the mitochondrial genome of Pseudocercospora fijiensis, and (ii) compare it with closely related species (Sphaerulina musiva, S. populicola, P. musae and P. eumusae) available online, paying particular attention to the Sigatoka disease’s complex causal agents. The mitochondrial genome of P. fijiensis is a circular molecule of 74,089 bp containing typical genes coding for the 14 proteins related to oxidative phosphorylation, 2 rRNA genes and a set of 38 tRNAs. P. fijiensis mitogenome has two truncated cox1 copies, and bicistronic transcription of nad2-nad3 and atp6-atp8 confirmed experimentally. Comparative analysis revealed high variability in size and gene order among selected Mycosphaerellaceae mitogenomes likely to be due to rearrangements caused by mobile intron invasion. Using fossil calibrated Bayesian phylogenies, we found later diversification times for Mycosphaerellaceae (66.6 MYA) and the Sigatoka disease complex causal agents, compared to previous strict molecular clock studies. An early divergent Pseudocercospora fijiensis split from the sister species P. musae + P. eumusae 13.31 MYA while their sister group, the sister species P. eumusae and P. musae, split from their shared common ancestor in the late Miocene 8.22 MYA. This newly dated phylogeny suggests that species belonging to the Sigatoka disease complex originated after wild relatives of domesticated bananas (section Eumusae; 27.9 MYA). During this time frame, mitochondrial genomes expanded significantly, possibly due to invasions of introns into different electron transport chain genes.

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The complete mitogenome of Mycosphaerella pinodes (Ascomycota, Mycosphaerellaceae)

Cited by 4 publications

References 7 publications

Comparative mitochondrial genome analyses reveal conserved gene arrangement but massive expansion/contraction in two closely related Exserohilum pathogens

Comparative mitochondrial genome analyses reveal conserved gene arrangement but massive expansion/contraction in two closely related Exserohilum pathogens

De Novo Long-Read Whole-Genome Assemblies and the Comparative Pan-Genome Analysis of Ascochyta Blight Pathogens Affecting Field Pea

The Mitochondrial Genome of a Plant Fungal Pathogen Pseudocercospora fijiensis (Mycosphaerellaceae), Comparative Analysis and Diversification Times of the Sigatoka Disease Complex Using Fossil Calibrated Phylogenies

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