Comparative analysis of mitochondrial genomes of Rhizophagus irregularis - syn. Glomus irregulare - reveals a polymorphism induced by variability generating elements.
Identifieur interne : 001E58 ( Main/Corpus ); précédent : 001E57; suivant : 001E59Comparative analysis of mitochondrial genomes of Rhizophagus irregularis - syn. Glomus irregulare - reveals a polymorphism induced by variability generating elements.
Auteurs : Damien Formey ; Marion Molès ; Alexandra Haouy ; Bruno Savelli ; Olivier Bouchez ; Guillaume Bécard ; Christophe RouxSource :
- The New phytologist [ 1469-8137 ] ; 2012.
English descriptors
- KwdEn :
- DNA-Directed DNA Polymerase (genetics), Genome, Mitochondrial (MeSH), Glomeromycota (genetics), Inverted Repeat Sequences (MeSH), Microsatellite Repeats (MeSH), Mycorrhizae (genetics), Open Reading Frames (MeSH), Phylogeny (MeSH), Polymorphism, Single Nucleotide (MeSH), Sequence Analysis, DNA (methods).
- MESH :
- chemical , genetics : DNA-Directed DNA Polymerase.
- genetics : Glomeromycota, Mycorrhizae.
- methods : Sequence Analysis, DNA.
- Genome, Mitochondrial, Inverted Repeat Sequences, Microsatellite Repeats, Open Reading Frames, Phylogeny, Polymorphism, Single Nucleotide.
Abstract
Arbuscular mycorrhizal (AM) fungi are involved in one of the most widespread plant-fungus interactions. A number of studies on the population dynamics of AM fungi have used mitochondrial (mt) DNA sequences, and yet mt AM fungus genomes are poorly known. To date, four mt genomes of three species of AM fungi are available, among which are two from Rhizophagus irregularis. In order to study intra- and interstrain mt genome variability of R. irregularis, we sequenced and de novo assembled four additional mt genomes of this species. We used 454 pyrosequencing and Illumina technologies to directly sequence mt genomes from total genomic DNA. The mt genomes are unique within each strain. Interstrain divergences in genome size, as a result of highly polymorphic intergenic and intronic sequences, were observed. The polymorphism is brought about by three types of variability generating element (VGE): homing endonucleases, DNA polymerase domain-containing open reading frames and small inverted repeats. Based on VGE positioning, mt sequences and nuclear markers, two subclades of R. irregularis were characterized. The discovery of VGEs highlights the great intraspecific plasticity of the R. irregularis mt genome. VGEs allow the design of powerful mt markers for the typing and monitoring of R. irregularis strains in genetic and population studies.
DOI: 10.1111/j.1469-8137.2012.04283.x
PubMed: 22967288
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pubmed:22967288Le document en format XML
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<author><name sortKey="Formey, Damien" sort="Formey, Damien" uniqKey="Formey D" first="Damien" last="Formey">Damien Formey</name>
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<author><name sortKey="Moles, Marion" sort="Moles, Marion" uniqKey="Moles M" first="Marion" last="Molès">Marion Molès</name>
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<author><name sortKey="Haouy, Alexandra" sort="Haouy, Alexandra" uniqKey="Haouy A" first="Alexandra" last="Haouy">Alexandra Haouy</name>
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<author><name sortKey="Savelli, Bruno" sort="Savelli, Bruno" uniqKey="Savelli B" first="Bruno" last="Savelli">Bruno Savelli</name>
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<term>Inverted Repeat Sequences (MeSH)</term>
<term>Microsatellite Repeats (MeSH)</term>
<term>Mycorrhizae (genetics)</term>
<term>Open Reading Frames (MeSH)</term>
<term>Phylogeny (MeSH)</term>
<term>Polymorphism, Single Nucleotide (MeSH)</term>
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<term>Inverted Repeat Sequences</term>
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<front><div type="abstract" xml:lang="en">Arbuscular mycorrhizal (AM) fungi are involved in one of the most widespread plant-fungus interactions. A number of studies on the population dynamics of AM fungi have used mitochondrial (mt) DNA sequences, and yet mt AM fungus genomes are poorly known. To date, four mt genomes of three species of AM fungi are available, among which are two from Rhizophagus irregularis. In order to study intra- and interstrain mt genome variability of R. irregularis, we sequenced and de novo assembled four additional mt genomes of this species. We used 454 pyrosequencing and Illumina technologies to directly sequence mt genomes from total genomic DNA. The mt genomes are unique within each strain. Interstrain divergences in genome size, as a result of highly polymorphic intergenic and intronic sequences, were observed. The polymorphism is brought about by three types of variability generating element (VGE): homing endonucleases, DNA polymerase domain-containing open reading frames and small inverted repeats. Based on VGE positioning, mt sequences and nuclear markers, two subclades of R. irregularis were characterized. The discovery of VGEs highlights the great intraspecific plasticity of the R. irregularis mt genome. VGEs allow the design of powerful mt markers for the typing and monitoring of R. irregularis strains in genetic and population studies.</div>
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<Abstract><AbstractText>Arbuscular mycorrhizal (AM) fungi are involved in one of the most widespread plant-fungus interactions. A number of studies on the population dynamics of AM fungi have used mitochondrial (mt) DNA sequences, and yet mt AM fungus genomes are poorly known. To date, four mt genomes of three species of AM fungi are available, among which are two from Rhizophagus irregularis. In order to study intra- and interstrain mt genome variability of R. irregularis, we sequenced and de novo assembled four additional mt genomes of this species. We used 454 pyrosequencing and Illumina technologies to directly sequence mt genomes from total genomic DNA. The mt genomes are unique within each strain. Interstrain divergences in genome size, as a result of highly polymorphic intergenic and intronic sequences, were observed. The polymorphism is brought about by three types of variability generating element (VGE): homing endonucleases, DNA polymerase domain-containing open reading frames and small inverted repeats. Based on VGE positioning, mt sequences and nuclear markers, two subclades of R. irregularis were characterized. The discovery of VGEs highlights the great intraspecific plasticity of the R. irregularis mt genome. VGEs allow the design of powerful mt markers for the typing and monitoring of R. irregularis strains in genetic and population studies.</AbstractText>
<CopyrightInformation>© 2012 The Authors. New Phytologist © 2012 New Phytologist Trust.</CopyrightInformation>
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