Mitochondrial Genome of Phlebia radiata Is the Second Largest (156 kbp) among Fungi and Features Signs of Genome Flexibility and Recent Recombination Events

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Salavirta , H , Oksanen , I , Kuuskeri , J , Makela , M , Laine , P , Paulin , L & Lundell , T 2014 , ' Mitochondrial Genome of Phlebia radiata Is the Second Largest (156 kbp) among Fungi and Features Signs of Genome Flexibility and Recent Recombination Events ' , PLoS One , vol. 9 , no. 5 , e97141 . https://doi.org/10.1371/journal.pone.0097141

Title: Mitochondrial Genome of Phlebia radiata Is the Second Largest (156 kbp) among Fungi and Features Signs of Genome Flexibility and Recent Recombination Events
Author: Salavirta, Heikki; Oksanen, Ilona; Kuuskeri, Jaana; Makela, Miia; Laine, Pia; Paulin, Lars; Lundell, Taina
Contributor: University of Helsinki, Department of Food and Nutrition
University of Helsinki, Department of Food and Nutrition
University of Helsinki, Department of Food and Nutrition
University of Helsinki, Institute of Biotechnology
University of Helsinki, Institute of Biotechnology
University of Helsinki, Department of Food and Nutrition
Date: 2014-05-13
Language: eng
Number of pages: 15
Belongs to series: PLoS One
ISSN: 1932-6203
URI: http://hdl.handle.net/10138/228678
Abstract: Mitochondria are eukaryotic organelles supporting individual life-style via generation of proton motive force and cellular energy, and indispensable metabolic pathways. As part of genome sequencing of the white rot Basidiomycota species Phlebia radiata, we first assembled its mitochondrial genome (mtDNA). So far, the 156 348 bp mtDNA is the second largest described for fungi, and of considerable size among eukaryotes. The P. radiata mtDNA assembled as single circular dsDNA molecule containing genes for the large and small ribosomal RNAs, 28 transfer RNAs, and over 100 open reading frames encoding the 14 fungal conserved protein subunits of the mitochondrial complexes I, III, IV, and V. Two genes (atp6 and tRNA-IleGAU) were duplicated within 6.1 kbp inverted region, which is a unique feature of the genome. The large mtDNA size, however, is explained by the dominance of intronic and intergenic regions (sum 80% of mtDNA sequence). The intergenic DNA stretches harness short (≤200 nt) repetitive, dispersed and overlapping sequence elements in abundance. Long self-splicing introns of types I and II interrupt eleven of the conserved genes (cox1,2,3; cob; nad1,2,4,4L,5; rnl; rns). The introns embrace a total of 57 homing endonucleases with LAGLIDADGD and GYI-YIG core motifs, which makes P. radiata mtDNA to one of the largest known reservoirs of intron-homing endonucleases. The inverted duplication, intergenic stretches, and intronic features are indications of dynamics and genetic flexibility of the mtDNA, not fully recognized to this extent in fungal mitochondrial genomes previously, thus giving new insights for the evolution of organelle genomes in eukaryotes.
Subject: LIGNIN-MODIFYING ENZYMES
GROUP-I INTRON
HOMING ENDONUCLEASES
DEGRADING BASIDIOMYCETE
PLEUROTUS-OSTREATUS
TRANSFER-RNAS
PROTEIN
DNA
GENE
SEQUENCES
414 Agricultural biotechnology
Lignocellulose biodegradation
Fungal biotechnology
Fungal biology
1184 Genetics, developmental biology, physiology
Genomics
Fungal genetics
Mitochondrial genome
Genome sequencing
1183 Plant biology, microbiology, virology
Mycology
Filamentous fungi
Basidiomycota
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