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The mitochondrial genome
sequence is available from the Genbank database
(accession number KR704425). NGS sequencing
data are available in the SRA database (Bioproject
PRJNA283258).Supporting Information:
S1 Fig. Secondary structures of predicted tRNA molecules.
(TIF)Supporting Information:
S2 Fig. Alignment of V. nonalfalfae reads to the V. dahliae mitochondrial genome.
(TIF)Supporting Information:
S1 File. BLAST results of orf414 analysis.
(DOC)Supporting Information:
Mitochondrial genome of Verticillium nonalfalfae
PLOS ONE | DOI:10.1371/journal.pone.0148525 February 3, 2016 14 / 18
S1 Table. V. nonalfalfae codon usage statistics.
(DOC)
S2 Table. Collection of Verticillium species included in analysis of the mitochondrial length
polymorphism.
(XLS)
Remove selectedSupporting Information:
Mitochondrial genome of Verticillium nonalfalfae
PLOS ONE | DOI:10.1371/journal.pone.0148525 February 3, 2016 14 / 18Supporting Information:
S2 Table. Collection of Verticillium species included in analysis of the mitochondrial length
polymorphism.
(XLS)Supporting Information:
S1 Table. V. nonalfalfae codon usage statistics.
(DOC)Verticillium nonalfalfae is a fungal plant pathogen that causes wilt disease by colonizing the
vascular tissues of host plants. The disease induced by hop isolates of V. nonalfalfae manifests
in two different forms, ranging from mild symptoms to complete plant dieback, caused
by mild and lethal pathotypes, respectively. Pathogenicity variations between the causal
strains have been attributed to differences in genomic sequences and perhaps also to differences
in their mitochondrial genomes. We used data from our recent Illumina NGS-based
project of genome sequencing V. nonalfalfae to study the mitochondrial genomes of its different
strains. The aim of the research was to prepare a V. nonalfalfae reference mitochondrial
genome and to determine its phylogenetic placement in the fungal kingdom. The
resulting 26,139 bp circular DNA molecule contains a full complement of the 14 "standard"
fungal mitochondrial protein-coding genes of the electron transport chain and ATP synthase
subunits, together with a small rRNA subunit, a large rRNA subunit, which contains ribosomal
protein S3 encoded within a type IA-intron and 26 tRNAs. Phylogenetic analysis of
this mitochondrial genome placed it in the Verticillium spp. lineage in the Glomerellales
group, which is also supported by previous phylogenetic studies based on nuclear markers.
The clustering with the closely related Verticillium dahliae mitochondrial genome showed a
very conserved synteny and a high sequence similarity. Two distinguishing mitochondrial
genome features were also found—a potential long non-coding RNA (orf414) contained only in the Verticillium spp. of the fungal kingdom, and a specific fragment length polymorphism
observed only in V. dahliae and V. nubilum of all the Verticillium spp., thus showing
potential as a species specific biomarker.VJ received the grant - Javni sklad
Republike Slovenije za razvoj kadrov in štipendije -
163. JR (http://www.sklad-kadri.si) BJ received the
grant - Javna agencija za raziskovalno dejavnost
Republike Slovenije - P4-0077 (www.arrs.gov.si)http://www.plosone.orgam2016Genetic
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