Mitochondrial Genome and Plant Taxonomy

Duminil, Jérôme

doi:10.1007/978-1-62703-767-9_6

Cited by 11 publications

(7 citation statements)

References 57 publications

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“…Unlike chloroplast and nuclear genes, polymorphism in the mitochondrial genome (hereafter mitogenome) is not frequently used to reconstruct phylogenies and phylogeographies or for DNA barcoding in higher plants, which stands in contrast with studies on animals (e.g., Donnelly et al, 2017;Duminil, 2014;Govindarajulu, Parks, Tennessen, Liston, & Ashman, 2015;Mower, Sloan, & Alverson, 2012;Qiu et al, 2006). This is due to three main reasons: First, mitochondrial genes of plants usually evolve slowly compared to those of the plastome (three to four times slower) or the nuclear genome (~12 times slower; Wolfe, Li, & Sharp, 1987;Palmer & Herbon, 1988;Palmer, 1992).…”

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confidence: 99%

Prospects on the evolutionary mitogenomics of plants: A case study on the olive family (Oleaceae)

Paer

Bouchez²,

Besnard

2017

Molecular Ecology Resources

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The mitogenome is rarely used to reconstruct the evolutionary history of plants, contrary to nuclear and plastid markers. Here, we evaluate the usefulness of mitochondrial DNA for molecular evolutionary studies in Oleaceae, in which cases of cytoplasmic male sterility (CMS) and of potentially contrasted organelle inheritance are known. We compare the diversity and the evolution of mitochondrial and chloroplast genomes by focusing on the olive complex and related genera. Using high-throughput techniques, we reconstructed complete mitogenomes (ca. 0.7 Mb) and plastomes (ca. 156 kb) for six olive accessions and one Chionanthus. A highly variable organization of mitogenomes was observed at the species level. In olive, two specific chimeric genes were identified in the mitogenome of lineage E3 and may be involved in CMS. Plastid-derived regions (mtpt) were observed in all reconstructed mitogenomes. Through phylogenetic reconstruction, we demonstrate that multiple integrations of mtpt regions have occurred in Oleaceae, but mtpt regions shared by all members of the olive complex derive from a common ancestor. We then assembled 52 conserved mitochondrial gene regions and complete plastomes of ten additional accessions belonging to tribes Oleeae, Fontanesieae and Forsythieae. Phylogenetic congruence between topologies based on mitochondrial regions and plastomes suggests a strong disequilibrium linkage between both organellar genomes. Finally, while phylogenetic reconstruction based on plastomes fails to resolve the evolutionary history of maternal olive lineages in the Mediterranean area, their phylogenetic relationships were successfully resolved with complete mitogenomes. Overall, our study demonstrates the great potential of using mitochondrial DNA in plant phylogeographic and metagenomic studies.

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confidence: 99%

Prospects on the evolutionary mitogenomics of plants: A case study on the olive family (Oleaceae)

Paer

Bouchez²,

Besnard

2017

Molecular Ecology Resources

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“…Another assumption could be made, that sunflower chloroplast CDS evolve approximately 2.5-3 faster than mitochondrial CDS. For real establishment of this supposition we have not enough data, but according to published data the rate of substitutions in mitochondrial and chloroplast angiosperms genes is 1:3 (Drouin et al, 2008;Duminil, 2014). It is interesting to note, that the frequency of nonsynonymous SNP is, conversely, 1.6 fold higher in mtDNA (0.04/1kb), than in cpDNA (0.025/1kb).…”

Section: Discussionmentioning

confidence: 89%

Comparative Genomics of Domesticated and Wild Sunflower: Complete Chloroplast and Mitochondrial Genomes

Makarenko¹,

Усатов²,

Markin³

et al. 2016

OnLine Journal of Biological Sciences

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Abstract:The entire chloroplast and mitochondrial genomes of domesticated and wild type sunflower were sequenced. The comparative analysis of chloroplast genomes revealed 43 variant sites, including 21 polymorphic SSR loci and 22 SNPs. About 14 variant sites were found by collation of mitochondrial DNA (mtDNA), among them 4 SSRs, 8 SNPs and 2 deletions. About 9 SNPs were located in coding region of chloroplast DNA (cpDNA) and single SNP was mapped in mitochondrial gene. Only three SNPs caused amino acid changes: Two SNPs in cpDNA and one mtDNA SNP. Despite the fact that sunflower mitochondrial genome sequence is twice as long as chloroplast genome sequence, mtDNA has one third as much variant sites than cpDNA.

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“…In recent years, the development of sequencing technology (including high throughput sequencing and single-cell sequencing) offers a fast and cost-effective method for sequencing the whole mtDNA genome (Grabherr et al, 2011;Sloan, 2013). The exploitation of universal and conserved mitochondrial primers (Duminil, 2014;Pereira et al, 2018), combined with opportunities offered by the availability of complete mtDNA sequence in plant species, facilitate the mtDNA-based molecular studies. Moreover, the emergence of mitochondrial genome editing technology (RNA-free DddAderived cytosine base editors and mitoTALENs) enables the study of mitochondrial gene functions to be carried out in-depth (Kazama et al, 2019;Arimura et al, 2020;Mok et al, 2020).…”

Section: H 2 S and No Affect Mtdna Oxidative Damagementioning

confidence: 99%

Interplay Among Hydrogen Sulfide, Nitric Oxide, Reactive Oxygen Species, and Mitochondrial DNA Oxidative Damage

et al. 2021

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Hydrogen sulfide (H2S), nitric oxide (NO), and reactive oxygen species (ROS) play essential signaling roles in cells by oxidative post-translational modification within suitable ranges of concentration. All of them contribute to the balance of redox and are involved in the DNA damage and repair pathways. However, the damage and repair pathways of mitochondrial DNA (mtDNA) are complicated, and the interactions among NO, H2S, ROS, and mtDNA damage are also intricate. This article summarized the current knowledge about the metabolism of H2S, NO, and ROS and their roles in maintaining redox balance and regulating the repair pathway of mtDNA damage in plants. The three reactive species may likely influence each other in their generation, elimination, and signaling actions, indicating a crosstalk relationship between them. In addition, NO and H2S are reported to be involved in epigenetic variations by participating in various cell metabolisms, including (nuclear and mitochondrial) DNA damage and repair. Nevertheless, the research on the details of NO and H2S in regulating DNA damage repair of plants is in its infancy, especially in mtDNA.

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Mitochondrial Genome and Plant Taxonomy

Cited by 11 publications

References 57 publications

Prospects on the evolutionary mitogenomics of plants: A case study on the olive family (Oleaceae)

Prospects on the evolutionary mitogenomics of plants: A case study on the olive family (Oleaceae)

Comparative Genomics of Domesticated and Wild Sunflower: Complete Chloroplast and Mitochondrial Genomes

Interplay Among Hydrogen Sulfide, Nitric Oxide, Reactive Oxygen Species, and Mitochondrial DNA Oxidative Damage

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