The 206 kbp mitochondrial genome of Phanerochaete carnosa reveals dynamics of introns, accumulation of repeat sequences and plasmid-derived genes

In this study, the mitogenome of Phanerochaete carnosa was sequenced and assembled by the next-generation sequencing. The P. carnosa mitogenome was composed of circular DNA molecules, with a total size of 206,437 bp. Intron sequence, repeat sequence and plasmid-derived genes together promoted the P....

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Vydáno v:International journal of biological macromolecules Ročník 162; s. 209 - 219
Hlavní autoři: Wang, Xu, Song, Andong, Wang, Fengqin, Chen, Mingyue, Li, Xiao, Li, Qiang, Liu, Na
Médium: Journal Article
Jazyk:angličtina
Vydáno: Netherlands Elsevier B.V 01.11.2020
Témata:
circular DNA
Codon Usage
Cyclooxygenase 1 - genetics
Evolution, Molecular
Gene Order
Gene Rearrangement
Genes, Mitochondrial
Genome, Mitochondrial
Genomics
High-Throughput Nucleotide Sequencing
Introns
mitochondrial genes
Mitochondrial genome
Phanerochaete - genetics
Phanerochaete carnosa
Phlebia
Phylogenetic analysis
Phylogeny
Plasmids - genetics
Polyporales - genetics
Protein coding gene
Repeat sequence
Repetitive Sequences, Nucleic Acid
trees
white-rot fungi
Phylogenetic analysis
Repeat sequence
Phanerochaete carnosa
Protein coding gene
Mitochondrial genome
Gene rearrangement
ISSN:0141-8130, 1879-0003, 1879-0003
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Shrnutí:In this study, the mitogenome of Phanerochaete carnosa was sequenced and assembled by the next-generation sequencing. The P. carnosa mitogenome was composed of circular DNA molecules, with a total size of 206,437 bp. Intron sequence, repeat sequence and plasmid-derived genes together promoted the P. carnosa mitogenome to become the second largest mitogenome in Basidiomycota. Gene arrangement analysis revealed large-scale gene rearrangements between Polyporales mitogenomes, and P. carnosa contained a unique gene order. The number and position classes of introns varied between 14 Polyporales species tested, indicated numerous intron loss/gain events occurred in the evolution of Polyporales. Most core PCGs in the 14 Polyporales species we tested were found subjected to purifying selection. However, the Ka/Ks values of rps3 gene were found >1 between some Polyporales species, indicating pressure of positive selection may exist. Phylogenetic analysis based on the combined mitochondrial gene set obtained well-supported tree topologies, and P. carnosa was identified as a sister species to Phlebia radiata. This study served as the first report on the mitogenome in the family Phanerochaetaceae, which will promote the understanding of the phylogeny, population genetics, and evolution of this white-rot fungus and related fungi.
Bibliografie:ObjectType-Article-1
SourceType-Scholarly Journals-1
ObjectType-Feature-2
content type line 23
ISSN:0141-8130
1879-0003
1879-0003
DOI:10.1016/j.ijbiomac.2020.06.142