Ghent University Academic Bibliography

Advanced

Complete mitochondrial genome of the Verticillium-wilt causing plant pathogen Verticillium nonalfalfae

Vid Jelen, Ronnie de Jonge UGent, Yves Van de Peer UGent, Branka Javornik and Jernej Jakše (2016) PLOS ONE. 11(2).
abstract
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.
Please use this url to cite or link to this publication:
author
organization
year
type
journalArticle (original)
publication status
published
subject
keyword
SEQUENCES, VIRULENCE, EVOLUTION, EXPRESSION, ALIGNMENT, OPEN SOFTWARE, REVEALS, DAHLIAE, ORGANIZATION, TOOL
journal title
PLOS ONE
PLoS One
volume
11
issue
2
article number
e0148525
pages
18 pages
Web of Science type
Article
Web of Science id
000369550200143
JCR category
MULTIDISCIPLINARY SCIENCES
JCR impact factor
2.806 (2016)
JCR rank
15/64 (2016)
JCR quartile
1 (2016)
ISSN
1932-6203
DOI
10.1371/journal.pone.0148525
project
Bioinformatics: from nucleotids to networks (N2N)
language
English
UGent publication?
yes
classification
A1
copyright statement
I have retained and own the full copyright for this publication
id
7169819
handle
http://hdl.handle.net/1854/LU-7169819
date created
2016-03-31 09:02:52
date last changed
2016-12-21 15:42:52
@article{7169819,
  abstract     = {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 {\textacutedbl}standard{\textacutedbl} 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.},
  articleno    = {e0148525},
  author       = {Jelen, Vid and de Jonge, Ronnie and Van de Peer, Yves and Javornik, Branka and Jak\v{s}e, Jernej},
  issn         = {1932-6203},
  journal      = {PLOS ONE},
  keyword      = {SEQUENCES,VIRULENCE,EVOLUTION,EXPRESSION,ALIGNMENT,OPEN SOFTWARE,REVEALS,DAHLIAE,ORGANIZATION,TOOL},
  language     = {eng},
  number       = {2},
  pages        = {18},
  title        = {Complete mitochondrial genome of the Verticillium-wilt causing plant pathogen Verticillium nonalfalfae},
  url          = {http://dx.doi.org/10.1371/journal.pone.0148525},
  volume       = {11},
  year         = {2016},
}

Chicago
Jelen, Vid, Ronnie de Jonge, Yves Van de Peer, Branka Javornik, and Jernej Jakše. 2016. “Complete Mitochondrial Genome of the Verticillium-wilt Causing Plant Pathogen Verticillium Nonalfalfae.” Plos One 11 (2).
APA
Jelen, V., de Jonge, R., Van de Peer, Y., Javornik, B., & Jakše, J. (2016). Complete mitochondrial genome of the Verticillium-wilt causing plant pathogen Verticillium nonalfalfae. PLOS ONE, 11(2).
Vancouver
1.
Jelen V, de Jonge R, Van de Peer Y, Javornik B, Jakše J. Complete mitochondrial genome of the Verticillium-wilt causing plant pathogen Verticillium nonalfalfae. PLOS ONE. 2016;11(2).
MLA
Jelen, Vid, Ronnie de Jonge, Yves Van de Peer, et al. “Complete Mitochondrial Genome of the Verticillium-wilt Causing Plant Pathogen Verticillium Nonalfalfae.” PLOS ONE 11.2 (2016): n. pag. Print.