From Genome Variation to Molecular Mechanisms: What we Have Learned From Yeast Mitochondrial Genomes?

Hao, Weilong

doi:10.3389/fmicb.2022.806575

Cited by 11 publications

(12 citation statements)

References 80 publications

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“…The final genome assembly consisted of seven complete chromosomes and a 17 kb mitogenome (Supplementary Table S1). The latter showed inverted repeats, which suggest a linear mitochondrial genome as it has been observed in other yeasts (14)(15)(16). In our genome assembly, on chromosome 2 (approximately at position 1060 kb), two 96% identical tandem rDNA units were present.…”

Section: The H Meyeri (Apc 121) Genome Lacks Crucial Genes Associated...supporting

confidence: 78%

Pantothenate auxotrophy in a naturally occurring biocontrol yeast

Mejia

Ortiz‐Merino

Lutz

et al. 2022

Preprint

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The genus Hanseniaspora is characterized by some of the smallest genomes among budding yeasts. These fungi are primarily found on plant surfaces and in fermented products and represent promising biocontrol agents against notorious fungal plant pathogens. In this work, we identify a Hanseniaspora meyeri isolate that shows strong antagonism against the plant pathogen Fusarium oxysporum as a pantothenate auxotroph. Furthermore, strong biocontrol activity in vitro required both pantothenate and biotin in the growth medium. We show that the H. meyeri isolate APC 12.1 can obtain the vitamin from plants and other fungi. The underlying reason for the auxotrophy is the lack of key pantothenate biosynthesis genes, but at least six genes encoding putative pantothenate transporters are present in the genome. By constructing and using a Saccharomyces cerevisiae reporter strain, we identified one Hanseniaspora transporter, out of the six candidate proteins, that conferred pantothenate uptake activity to S. cerevisiae. Pantothenate auxotrophy is rare and has only been described in a few bacteria and in S. cerevisiae strains that were isolated from sake. Such auxotrophic strains may seem an unexpected and unlikely choice as potential biocontrol agents, but they may be particularly competitive in their ecological niche and their specific growth requirements are an inherent biocontainment strategy preventing uncontrolled growth in the environment. Auxotrophic strains such as the H. meyeri isolate APC 12.1 may thus represent a new strategy for developing biocontrol agents that will be easier to register than prototrophic strains, which are normally used for such applications.

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Section: The H Meyeri (Apc 121) Genome Lacks Crucial Genes Associated...supporting

confidence: 78%

Pantothenate auxotrophy in a naturally occurring biocontrol yeast

Mejia

Ortiz‐Merino

Lutz

et al. 2022

Preprint

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“…Chloroplast genomes (cpDNA) usually present a commonly found structure of two single regions divided by LIRs 52 allowing cpDNA to evolve under strong constraint -either mechanistic or selective – in order to maintain a compact, largely genic genome 51 . In fungi, the lack of LIRs in the majority of the species indicates a free evolution of the mitogenomes with respect to their size, with other proposed underlying mechanisms 37,53 .…”

Section: Discussionmentioning

confidence: 99%

Co-evolution of Large inverted repeats and G-quadruplex DNA in fungal mitochondria may facilitate mitogenome stability: the case ofMalassezia

Christinaki

Theelen

Zania

et al. 2023

Preprint

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Mitogenomes are essential due to their contribution to cell respiration. Recently they have also been implicated in fungal pathogenicity mechanisms. Members of the basidiomycetous yeast genusMalasseziaare an important fungal component of the human skin microbiome, linked to various skin diseases, bloodstream infections, and increasingly implicated in gut diseases and certain cancers. In this study, the comparative analysis ofMalasseziamitogenomes contributed to phylogenetic tree construction for all species. The mitogenomes presented significant size and gene order diversity which correlates to their phylogeny. Most importantly, they showed the inclusion of Large Inverted Repeats (LIRs) and G-quadruplex (G4) DNA elements, renderingMalasseziamitogenomes a valuable test case for elucidating the evolutionary mechanisms responsible for this genome diversity. Both LIRs and G4s coexist and convergently evolved to provide genome stability through recombination. This mechanism is common in chloroplasts but, hitherto, rarely found in mitogenomes.

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“…Chloroplast genomes (cpDNA) usually present a commonly found structure of two single regions divided by LIRs 49 allowing cpDNA to evolve under strong constraint—either mechanistic or selective—in order to maintain a compact, largely genic genome 48 . In fungi, the lack of LIRs in the majority of the species indicates a free evolution of the mitogenomes with respect to their size, with other proposed underlying mechanisms 34 , 50 .…”

Section: Discussionmentioning

confidence: 99%

Co-evolution of large inverted repeats and G-quadruplex DNA in fungal mitochondria may facilitate mitogenome stability: the case of Malassezia

Christinaki

Theelen

Zania

et al. 2023

Sci Rep

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Mitogenomes are essential due to their contribution to cell respiration. Recently they have also been implicated in fungal pathogenicity mechanisms. Members of the basidiomycetous yeast genus Malassezia are an important fungal component of the human skin microbiome, linked to various skin diseases, bloodstream infections, and they are increasingly implicated in gut diseases and certain cancers. In this study, the comparative analysis of Malassezia mitogenomes contributed to phylogenetic tree construction for all species. The mitogenomes presented significant size and gene order diversity which correlates to their phylogeny. Most importantly, they showed the inclusion of large inverted repeats (LIRs) and G-quadruplex (G4) DNA elements, rendering Malassezia mitogenomes a valuable test case for elucidating the evolutionary mechanisms responsible for this genome diversity. Both LIRs and G4s coexist and convergently evolved to provide genome stability through recombination. This mechanism is common in chloroplasts but, hitherto, rarely found in mitogenomes.

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From Genome Variation to Molecular Mechanisms: What we Have Learned From Yeast Mitochondrial Genomes?

Cited by 11 publications

References 80 publications

Pantothenate auxotrophy in a naturally occurring biocontrol yeast

Pantothenate auxotrophy in a naturally occurring biocontrol yeast

Co-evolution of Large inverted repeats and G-quadruplex DNA in fungal mitochondria may facilitate mitogenome stability: the case ofMalassezia

Co-evolution of large inverted repeats and G-quadruplex DNA in fungal mitochondria may facilitate mitogenome stability: the case of Malassezia

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