Marek Eliáš
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View article: The Core MICOS Complex Subunit mic60 has Been Substituted by Two Cryptic Mitofilin-containing Proteins in Euglenozoa
The Core MICOS Complex Subunit mic60 has Been Substituted by Two Cryptic Mitofilin-containing Proteins in Euglenozoa Open
Cristae enclose respiratory chain complexes, making them the bioenergetic subcompartments of mitochondria. The Mitochondrial contact site and Cristae Organizing System (MICOS) complex is among the inducers of membrane curvature needed for …
View article: Expanded diversity of pedinophytes provides a window into the evolution of the genetic code in organelles
Expanded diversity of pedinophytes provides a window into the evolution of the genetic code in organelles Open
Mitochondria and plastids of various lineages exhibit genetic code alterations. However, the knowledge of the diversity and occurrence, mechanistic underpinnings, and evolutionary origins of codon reassignments in organelles remains incomp…
View article: The core MICOS complex subunit Mic60 has been substituted by two cryptic mitofilin-containing proteins in Euglenozoa
The core MICOS complex subunit Mic60 has been substituted by two cryptic mitofilin-containing proteins in Euglenozoa Open
Cristae enclose respiratory chain complexes, making them the bioenergetic subcompartments of mitochondria. The MICOS complex is among the inducers of membrane curvature needed for crista formation. Resembling the respiratory chain complexe…
View article: Eustigmatophyte model of red-shifted chlorophyll a absorption in light-harvesting complexes
Eustigmatophyte model of red-shifted chlorophyll a absorption in light-harvesting complexes Open
Photosynthetic organisms harvest light for energy. Some eukaryotic algae have specialized in harvesting far-red light by tuning chlorophyll a absorption through a mechanism still to be elucidated. Here, we combined optically detected magne…
View article: A cryptic plastid and a novel mitochondrial plasmid in <i>Leucomyxa plasmidifera</i> gen. and sp. nov. (Ochrophyta) push the frontiers of organellar biology
A cryptic plastid and a novel mitochondrial plasmid in <i>Leucomyxa plasmidifera</i> gen. and sp. nov. (Ochrophyta) push the frontiers of organellar biology Open
Complete plastid loss seems to be very rare among secondarily non-photosynthetic eukaryotes. Leukarachnion sp. PRA-24, an amoeboid colourless protist related to the photosynthetic algal class Synchromophyceae (Ochrophyta), is a candidate f…
View article: Origin of the far-red absorbance in eustigmatophyte algae red-shifted Violaxanthin-Chlorophyll<i>a</i>Protein
Origin of the far-red absorbance in eustigmatophyte algae red-shifted Violaxanthin-Chlorophyll<i>a</i>Protein Open
Photosynthetic organisms harvest light for energy. Some eukaryotic algae have specialized in harvesting far-red light by tuning chlorophyll a absorption through a mechanism still to be elucidated. Here, we combined optically detected magne…
View article: Phylogenomics defines<i>Streptofilum</i>as a novel deep branch of streptophyte algae
Phylogenomics defines<i>Streptofilum</i>as a novel deep branch of streptophyte algae Open
Streptophytes constitute a major organismal clade comprised of land plants (embryophytes) and several related green algal lineages. Their seemingly well-studied phylogenetic diversity was recently enriched by the discovery of Streptofilum …
View article: Arf family GTPases are present in Asgard archaea
Arf family GTPases are present in Asgard archaea Open
Summary The emergence of eukaryotes from their prokaryotic ancestors is one of the most fundamental evolutionary events in the history of life. Little is robustly known about how eukaryogenesis occurred, but a major breakthrough came with …
View article: Multiple plastid losses within photosynthetic stramenopiles revealed by comprehensive phylogenomics
Multiple plastid losses within photosynthetic stramenopiles revealed by comprehensive phylogenomics Open
Ochrophyta is a vast and morphologically diverse group of algae with complex plastids, including familiar taxa with fundamental ecological importance (diatoms or kelp), and a wealth of lesser-known and obscure organisms. The sheer diversit…
View article: Encyclopedia of Family A DNA Polymerases Localized in Organelles: Evolutionary Contribution of Bacteria Including the Proto-Mitochondrion
Encyclopedia of Family A DNA Polymerases Localized in Organelles: Evolutionary Contribution of Bacteria Including the Proto-Mitochondrion Open
DNA polymerases synthesize DNA from deoxyribonucleotides in a semiconservative manner and serve as the core of DNA replication and repair machinery. In eukaryotic cells, there are 2 genome-containing organelles, mitochondria, and plastids,…
View article: Freshwater ‘microcroissants’ shed light on a novel higher-level clade within Trebouxiophyceae and reveal the genus<i>Chlorolobion</i>as a trebouxiophyte
Freshwater ‘microcroissants’ shed light on a novel higher-level clade within Trebouxiophyceae and reveal the genus<i>Chlorolobion</i>as a trebouxiophyte Open
Trebouxiophyceae is a widespread and species-rich green algal class encompassing mostly coccoid algae with a simple ovoid or ellipsoidal outline. However, some poorly-sampled lineages have evolved more elaborate shapes or even complex thal…
View article: Multiple Plastid Losses within Photosynthetic Stramenopiles Revealed by Comprehensive Phylogenomics
Multiple Plastid Losses within Photosynthetic Stramenopiles Revealed by Comprehensive Phylogenomics Open
View article: Create, Analyze, and Visualize Phylogenomic Datasets Using PhyloFisher
Create, Analyze, and Visualize Phylogenomic Datasets Using PhyloFisher Open
PhyloFisher is a software package written primarily in Python3 that can be used for the creation, analysis, and visualization of phylogenomic datasets that consist of protein sequences from eukaryotic organisms. Unlike many existing phylog…
View article: Genomics of Preaxostyla Flagellates Illuminates the Path Towards the Loss of Mitochondria
Genomics of Preaxostyla Flagellates Illuminates the Path Towards the Loss of Mitochondria Open
The notion that mitochondria cannot be lost was shattered with the report of an oxymonad Monocercomonoides exilis , the first eukaryote arguably without any mitochondrion. Yet, questions remain about whether this extends beyond the single …
View article: An evolutionary perspective on Arf family GTPases
An evolutionary perspective on Arf family GTPases Open
View article: <i>Hydrocytium</i> expands the phylogenetic, morphological, and genomic diversity of the poorly known green algal order Chaetopeltidales
<i>Hydrocytium</i> expands the phylogenetic, morphological, and genomic diversity of the poorly known green algal order Chaetopeltidales Open
Premise Chaetopeltidales is a small, understudied order of the green algal class Chlorophyceae, that is slowly expanding with the occasional discoveries of novel algae. Here we demonstrate that hitherto unrecognized chaetopeltidaleans also…
View article: Encyclopaedia of family A DNA polymerases localized in organelles: Evolutionary contribution of bacteria including the proto-mitochondrion
Encyclopaedia of family A DNA polymerases localized in organelles: Evolutionary contribution of bacteria including the proto-mitochondrion Open
DNA polymerases (DNAPs) synthesize DNA from deoxyribonucleotides in a semi-conservative manner and serve as the core of DNA replication and repair machineries. In eukaryotic cells, there are two genome-containing organelles, mitochondria a…
View article: Mechanically robust hydrophobic fluorine-doped diamond-like carbon film on glass substrate
Mechanically robust hydrophobic fluorine-doped diamond-like carbon film on glass substrate Open
Development of hydrophobic surfaces with a low friction coefficient is an impressive strategy for improving performance of self-cleaning glasses and photovoltaic cells. To this end, diamond-like carbon (DLC) films have been fabricated by p…
View article: A Novel Group of Dynamin-Related Proteins Shared by Eukaryotes and Giant Viruses Is Able to Remodel Mitochondria From Within the Matrix
A Novel Group of Dynamin-Related Proteins Shared by Eukaryotes and Giant Viruses Is Able to Remodel Mitochondria From Within the Matrix Open
The diverse GTPases of the dynamin superfamily play various roles in the cell, as exemplified by the dynamin-related proteins (DRPs) Mgm1 and Opa1, which remodel the mitochondrial inner membrane in fungi and metazoans, respectively. Via an…
View article: Mechanically Robust Hydrophobic Fluorine-Doped Diamond-Like Carbon Film on Glass Substrate
Mechanically Robust Hydrophobic Fluorine-Doped Diamond-Like Carbon Film on Glass Substrate Open
View article: Genomics of Preaxostyla Flagellates Illuminates the Path Towards the Loss of Mitochondria
Genomics of Preaxostyla Flagellates Illuminates the Path Towards the Loss of Mitochondria Open
The notion that mitochondria cannot be lost was shattered with the report of an oxymonad Monocercomonoides exilis , the first eukaryote arguably without any mitochondrion. Yet, questions remain about whether this extends beyond the single …
View article: Evidence for an Independent Hydrogenosome-to-Mitosome Transition in the CL3 Lineage of Fornicates
Evidence for an Independent Hydrogenosome-to-Mitosome Transition in the CL3 Lineage of Fornicates Open
Fornicata, a lineage of a broader and ancient anaerobic eukaryotic clade Metamonada, contains diverse taxa that are ideally suited for evolutionary studies addressing various fundamental biological questions, such as the evolutionary traje…
View article: A cryptic plastid and a novel mitochondrial plasmid in<i>Leucomyxa plasmidifera</i>gen. and sp. nov. (Ochrophyta) push the frontiers of organellar biology
A cryptic plastid and a novel mitochondrial plasmid in<i>Leucomyxa plasmidifera</i>gen. and sp. nov. (Ochrophyta) push the frontiers of organellar biology Open
Complete plastid loss seems to be very rare among secondarily non-photosynthetic eukaryotes. Leukarachnion sp. PRA-24, an amoeboid colourless protist related to the photosynthetic algal class Synchromophyceae (Ochrophyta), is a candidate f…
View article: A new lineage of non-photosynthetic green algae with extreme organellar genomes
A new lineage of non-photosynthetic green algae with extreme organellar genomes Open
Background The plastid genomes of the green algal order Chlamydomonadales tend to expand their non-coding regions, but this phenomenon is poorly understood. Here we shed new light on organellar genome evolution in Chlamydomonadales by stud…
View article: Additional file 3 of A new lineage of non-photosynthetic green algae with extreme organellar genomes
Additional file 3 of A new lineage of non-photosynthetic green algae with extreme organellar genomes Open
Additional file 3: Table S1. Nuclear transcripts from Leontynka pallida specifically discussed in the paper. Table S2. Comparison of GC content, number of imperfect palindromes, and potential quadruplex-forming sequences in selected organe…
View article: Assemblies of eustigmatophyte genomes
Assemblies of eustigmatophyte genomes Open
This folder contains assemblies of Illumina reads obtained from cultures of the following five eustigmatophyte algae: Neustupella aerophytica CAUP Q 801 Lietzensia polymorpha SAG 2217 Lietzensia polymorpha SAG 2220 Chlorobotrys sp. FD2 Ch…
View article: Sequence alignments
Sequence alignments Open
Multiple sequence alignments used for generating phylogenetic trees reported in Barcytė et al., 2022, Redefining Chlorobotryaceae as one of the principal and most diverse lineages of eustigmatophyte algae (Molecular Phylogenetics and Evolu…
View article: A new lineage of non-photosynthetic green algae with extreme organellar genomes
A new lineage of non-photosynthetic green algae with extreme organellar genomes Open
Background The plastid genomes of the green algal order Chlamydomonadales tend to expand their non-coding regions, but this phenomenon is poorly understood. Here we shed new light on organellar genome evolution in Chlamydomonadales by stud…
View article: Learning-Augmented Dynamic Power Management with Multiple States via New Ski Rental Bounds
Learning-Augmented Dynamic Power Management with Multiple States via New Ski Rental Bounds Open
We study the online problem of minimizing power consumption in systems with multiple power-saving states. During idle periods of unknown lengths, an algorithm has to choose between power-saving states of different energy consumption and wa…
View article: <i>Monodopsis</i> and <i>Vischeria</i> Genomes Shed New Light on the Biology of Eustigmatophyte Algae
<i>Monodopsis</i> and <i>Vischeria</i> Genomes Shed New Light on the Biology of Eustigmatophyte Algae Open
Members of eustigmatophyte algae, especially Nannochloropsis and Microchloropsis, have been tapped for biofuel production owing to their exceptionally high lipid content. Although extensive genomic, transcriptomic, and synthetic biology to…