The complete mitochondrial genome of the Basidiomycete edible fungus <i>Pleurotus eryngii</i>

Yang, Runqiang; Li, Yan; Li, Chuanhua; Xu, Jianping; Bao, Daopeng

doi:10.1080/23802359.2016.1238755

Cited by 10 publications

(8 citation statements)

References 17 publications

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“…The Ka/Ks values for 13 out of the 15 core PCGs were less than 1, indicating that these genes were subjected to purifying selection. However, we observed the Ka/Ks values of the nad3 gene were more than 1 between some species, including between Pleurotus platypus (Li et al 2018a ) and Flammulina velutipes (Yoon et al 2012 ), between Pleurotus eryngii (Yang et al 2016 ) and Flammulina velutipes , as well as between Pleurotus ostreatus (Wang et al 2008 ) and Flammulina velutipes . The Ka/Ks value of the rps3 gene was more than 1 between most of the 22 Agaricales species we detected.…”

Section: Resultsmentioning

confidence: 86%

The 256 kb mitochondrial genome of Clavaria fumosa is the largest among phylum Basidiomycota and is rich in introns and intronic ORFs

Wang

et al. 2020

IMA Fungus

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In the present study, the complete mitogenome of Clavaria fumosa, was sequenced, assembled, and compared. The complete mitogenome of C. fumosa is 256,807 bp in length and is the largest mitogenomes among all Basidiomycota mitogenomes reported. Comparative mitogenomic analysis indicated that the C. fumosa mitogenome contained the most introns and intronic ORFs among all fungal mitogenomes. Large intergenic regions, intronic regions, accumulation of repeat sequences and plasmid-derived genes together promoted the size expansion of the C. fumosa mitogenome. In addition, the rps3 gene was found subjected to positive selection between some Agaricales species. We found frequent intron gain/loss events in Agaricales mitogenomes, and four novel intron classes were detected in the C. fumosa mitogenome. Large-scale gene rearrangements were found occurred in Agaricales species and the C. fumosa mitogenome had a unique gene arrangement which differed from other Agaricales species. Phylogenetic analysis for 76 Basidiomycetes based on combined mitochondrial gene sets indicated that mitochondrial genes could be used as effective molecular markers for reconstructing evolution of Basidiomycota. The study served as the first report on the mitogenomes of the family Clavariaceae, which will promote the understanding of the genetics, evolution and taxonomy of C. fumosa and related species.

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Section: Resultsmentioning

confidence: 86%

The 256 kb mitochondrial genome of Clavaria fumosa is the largest among phylum Basidiomycota and is rich in introns and intronic ORFs

Wang

et al. 2020

IMA Fungus

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“…The Pleurotus species establish a wide range of interactions with other organisms, and are efficient bioconverters of lignocellulosic residues into human food (Tsuneda and Thorn 1995;Philippoussis 2009). The biodiversity of Pleurotus remains highly investigated and recently, molecular studies have increase our knowledge about intra and inter-specific heterogeneity of the genus Pleurotus using both ribosomal and mitochondrial DNA (Li and Yao 2004;Wang et al 2008;Yang et al 2016;Chaudhary and John 2017). The edible fungus Pleurotus cornucopiae is emerging as an important species in the genus, with isolation of medicinal metabolites from the fruiting body (Wang et al 2012).…”

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confidence: 99%

“… 2008 ; Yang et al. 2016 ; Chaudhary and John 2017 ). The edible fungus Pleurotus cornucopiae is emerging as an important species in the genus, with isolation of medicinal metabolites from the fruiting body (Wang et al.…”

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confidence: 99%

The complete mitochondrial genome of the Basidiomycete fungus Pleurotus cornucopiae (Paulet) Rolland

Hinsinger

Jiang

2018

Mitochondrial DNA Part B

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Pleurotus cornucopiae is a commercial edible and medicinal fungus. Herein, we determined and analyzed its complete mitochondrial genome. The mitogenome length was 72,134 bp with a GC content of 26.7%, contained 14 conserved protein coding genes, two rRNA genes (rnl and rns), ribosomal protein gene rps3 and 24 tRNA genes. Pleurotus cornucopiae has a similar gene content and gene order of the mitogenome as P. ostreatus and P. eryngii. A phylogenetic analysis based on complete mitogenome in related fungi showed that P. cornucopiae is a member of the order Agaricales, forming a clade with P. ostreatus and P. eryngii, with P. ostreatus as a sister taxa. The mitochondrial genome sequence of P. cornucopiae appeared a promising tool for further studies of the taxonomy and evolution of Pleurotaceae and Agaricales.

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“…All the monokaryon strains were isolated from dikaryon using the protoplast method (Bao et al 2013) and cultivated under 25 C on PDA medium for five days. Total DNA extraction, library construction, Illumina sequencing and sequences processing were performed according to the methods previous published (Yang et al 2016;Xu et al 2018). The filtered high quality sequences were assembled into different contigs using A5-miseq 2.0 (Sydney, Australia, Coil et al 2014).…”

mentioning

confidence: 99%

“…Total DNA extraction, library construction, Illumina sequencing and sequences processing were performed according to the methods previous published (Yang et al. 2016 ; Xu et al. 2018 ).…”

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confidence: 99%

Three complete mitochondrial genomes of straw-rotting edible fungus Volvariella volvacea using next generation sequencing

Wan

Wang

et al. 2018

Mitochondrial DNA Part B

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2018) Three complete mitochondrial genomes of straw-rotting edible fungus Volvariellavolvacea using next generation sequencing, Mitochondrial DNA Part B, 3:2, ABSTRACTThe straw-rotting edible fungus Volvariella volvacea is a widely cultivated edible fungus across China and Southeast Asian countries. Three complete mitochondrial genomes of V. volvacea from China, Thailand, and India were determined using the next-generation sequencing technology. The genome sizes of the three strains (China, Thailand, and India) were 62,541 bp, 64,531 bp, and 65,668 bp with GC contents of 38.46%, 38.56%, and 38.52%, respectively. All the genomes encoded 14 conserved proteincoding genes, the small ribosomal RNA subunits (rns), large ribosomal RNA subunits (rnl), and 23 tRNAs were located on the same strand. In the putative protein-coding genes, four introns were distributed in cox1 in the genomes of V23-1 and V8. 5 introns (four introns invaded into cox1and one intron invaded into cob) were detected in Tai8. The phylogenetic analysis confirmed that V. volvacea was a number of Agaricales. This mitochondrial genome may open new avenues for understanding the phylogeny and evolution of Pluteaceae and Agaricales. ARTICLE HISTORY

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The complete mitochondrial genome of the Basidiomycete edible fungus Pleurotus eryngii

Cited by 10 publications

References 17 publications

The 256 kb mitochondrial genome of Clavaria fumosa is the largest among phylum Basidiomycota and is rich in introns and intronic ORFs

The 256 kb mitochondrial genome of Clavaria fumosa is the largest among phylum Basidiomycota and is rich in introns and intronic ORFs

The complete mitochondrial genome of the Basidiomycete fungus Pleurotus cornucopiae (Paulet) Rolland

Three complete mitochondrial genomes of straw-rotting edible fungus Volvariella volvacea using next generation sequencing

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