Population Genomic Analysis Reveals a Highly Conserved Mitochondrial Genome in Fusarium asiaticum

Yang, Meixin; Zhang, Hao; Lee, Theo A. J. van der; Waalwijk, C.; Diepeningen, A.D. van; Jing, Feng; Brankovics, Balázs; Chen, Wanquan

doi:10.3389/fmicb.2020.00839

Cited by 15 publications

(15 citation statements)

References 53 publications

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“…Within the F. graminearum species complex (FGSC), Fusarium asiaticum is one member which causes sever yield losses of wheat, barley and rice in Asia. Yang et al [ 156 ] conducted a population genomic studies on the mitochondrial genomes of 210 strains of F. asiaticum isolated from wheat or rice from several geographic areas in seven provinces in Southern China. The sequenced, assembled, and annotated mitogenomes proved to be extremely conserved and variation was mainly caused by absence/presence of introns harboring homing endonuclease genes.…”

Section: Genomic Advances In Ascomycotamentioning

confidence: 99%

An Overview of Genomics, Phylogenomics and Proteomics Approaches in Ascomycota

Muggia

Ametrano

Sterflinger

et al. 2020

Life

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Fungi are among the most successful eukaryotes on Earth: they have evolved strategies to survive in the most diverse environments and stressful conditions and have been selected and exploited for multiple aims by humans. The characteristic features intrinsic of Fungi have required evolutionary changes and adaptations at deep molecular levels. Omics approaches, nowadays including genomics, metagenomics, phylogenomics, transcriptomics, metabolomics, and proteomics have enormously advanced the way to understand fungal diversity at diverse taxonomic levels, under changeable conditions and in still under-investigated environments. These approaches can be applied both on environmental communities and on individual organisms, either in nature or in axenic culture and have led the traditional morphology-based fungal systematic to increasingly implement molecular-based approaches. The advent of next-generation sequencing technologies was key to boost advances in fungal genomics and proteomics research. Much effort has also been directed towards the development of methodologies for optimal genomic DNA and protein extraction and separation. To date, the amount of proteomics investigations in Ascomycetes exceeds those carried out in any other fungal group. This is primarily due to the preponderance of their involvement in plant and animal diseases and multiple industrial applications, and therefore the need to understand the biological basis of the infectious process to develop mechanisms for biologic control, as well as to detect key proteins with roles in stress survival. Here we chose to present an overview as much comprehensive as possible of the major advances, mainly of the past decade, in the fields of genomics (including phylogenomics) and proteomics of Ascomycota, focusing particularly on those reporting on opportunistic pathogenic, extremophilic, polyextremotolerant and lichenized fungi. We also present a review of the mostly used genome sequencing technologies and methods for DNA sequence and protein analyses applied so far for fungi.

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Section: Genomic Advances In Ascomycotamentioning

confidence: 99%

An Overview of Genomics, Phylogenomics and Proteomics Approaches in Ascomycota

Muggia

Ametrano

Sterflinger

et al. 2020

Life

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“…To make intraspecific comparison easier, we selected one representative mitogenome from each phylogenetic group (members inside are always more conserved), and found that there were obvious differences in both length and GC content of some genes between different groups. The distinctions were resulted from the uneven distribution of group I introns as previously mentioned, which was also observed in other fungal species (e.g., Fusarium asiaticum ) and used as markers for population genetic analysis [64] . In addition, codon usage frequency and tRNA sequences varied among the eight groups of mitogenomes, which may affect protein synthesis [65] .…”

Section: Discussionmentioning

confidence: 82%

Mitogenome-wide comparison and phylogeny reveal group I intron dynamics and intraspecific diversification within the phytopathogen Corynespora cassiicola

Geng

et al. 2021

Computational and Structural Biotechnology Journal

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“…Isolates WFA10, WFA18, JFA12, JFA15, and SFA4 showed close sequence similarity with F. annulatum at both the tef1 and rpb2 loci. These isolates shared 99.05% identity with F. annulatum type strain CBS258.54 [ 19 , 27 ] at the tef1 locus and 99.37% to this type-strain at the rpb2 locus. Isolates YFC2, YFC5, JFC1, JFC7, SFC6, SFC20, WFC3, and WFC8 shared 97.45% identity with the type strain of F. commune CBS 110090 [ 11 ] at the rpb2 locus.…”

Section: Resultsmentioning

confidence: 99%

Molecular and Pathogenic Characterization of Fusarium Species Associated with Corm Rot Disease in Saffron from China

Mirghasempour

Studholme

Chen

et al. 2022

JoF

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Saffron (Crocus sativus L.) is a commercial spice crop well-known throughout the world, valued for culinary, colorant, and pharmaceutical purposes. In China, Fusarium nirenbergiae was detected as causative agent of saffron corm rot, the most pervasive disease for the first time in 2020. In the present study, 261 Fusarium-like isolates were recovered from 120 rotted corms in four saffron producing fields at Zhejiang, Shanghai, and Yunnan provinces, China, in 2021. A combination of morpho-cultural features and multilocus sequence analysis (MLSA) of the concatenated rpb2 (DNA-directed RNA polymerase II largest subunit) and tef1 (translation elongation factor 1-α) partial sequences showed that the isolates from saffron belong to Fusarium nirenbergiae as well as F. commune, and F. annulatum with isolation frequencies of 58.2%, 26.8%, and 14.9%, respectively. Notably, F. commune was more prevalent than F. annulatum in the collected samples. Pathogenicity tests confirmed that both species were pathogenic on saffron corm. This is the first report of F. annulatum and F. commune causing corm rot of saffron, globally. Outcomes of the current research demonstrate that Fusarium spp. associated with saffron corm rot are more diverse than previously reported. Furthermore, some plants were infected by two or more Fusarium species. Our findings broaden knowledge about Fusarium spp. that inflict corm rot and assist the development of control measures.

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Population Genomic Analysis Reveals a Highly Conserved Mitochondrial Genome in Fusarium asiaticum

Cited by 15 publications

References 53 publications

An Overview of Genomics, Phylogenomics and Proteomics Approaches in Ascomycota

An Overview of Genomics, Phylogenomics and Proteomics Approaches in Ascomycota

Mitogenome-wide comparison and phylogeny reveal group I intron dynamics and intraspecific diversification within the phytopathogen Corynespora cassiicola

Molecular and Pathogenic Characterization of Fusarium Species Associated with Corm Rot Disease in Saffron from China

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