329 Citations
Phylogenomics invokes the clade housing Cryptista, Archaeplastida, and Microheliella maris
- BiologybioRxiv
- 2021
This study analyzed a 319-gene alignment and demonstrated that Microheliella maris represents a basal lineage of one of the major eukaryotic lineages, Cryptista, and proposed a new clade name “Pancryptista” for Cryptista plus M. maris, which is collectively called as “CAM clade” here.
Genomic Insights into Plastid Evolution
- BiologyGenome biology and evolution
- 2020
An overview of recent advances in understanding of the origin and spread of plastids from the perspective of comparative genomics is provided.
Anaeramoebae are a divergent lineage of eukaryotes that shed light on the transition from anaerobic mitochondria to hydrogenosomes
- BiologyCurrent Biology
- 2021
Phylogenomics unravels the early diversification of fungi
- BiologybioRxiv
- 2021
This work assembled and curated a 299-protein data set with a taxon sampling broad enough to encompass all recognised fungal diversity with available data, but selective enough to run computationally intensive analyses using best-fitting models.
Evidence for an Independent Hydrogenosome-to-Mitosome Transition in the CL3 Lineage of Fornicates
- BiologyFrontiers in Microbiology
- 2022
Detailed microscopic and transcriptome analyses in a poorly documented strain of an anaerobic free-living marine flagellate, PCS, in the so-called CL3 fornicate lineage suggest that the CL3 clade has experienced a hydrogenosome-to-mitosome transition independent from that previously documented for the lineage leading to Giardia.
Why sequence all eukaryotes?
- BiologyProceedings of the National Academy of Sciences
- 2022
It is suggested that many questions of evolutionary and ecological significance will only be addressable when whole-genome data representing divergences at all of the branchings in the tree of life or all species in natural ecosystems are available.
HERMES: an Improved Method to Test Mitochondrial Genome Molecular Synapomorphies among Clades.
- BiologyMitochondrion
- 2021
Evolving Perspective on the Origin and Diversification of Cellular Life and the Virosphere
- BiologyGenome biology and evolution
- 2022
An overview of some of the recent discoveries on the evolutionary history of cellular organisms and their viruses is provided and a variety of complementary techniques are discussed that are considered crucial for making further progress in the understanding of the TOL and its interconnection with the virosphere.
Old genes in new places: A taxon-rich analysis of interdomain lateral gene transfer events
- BiologyPLoS genetics
- 2022
These methods provide a framework for future studies of interdomain LGT and move the field closer to an understanding of how best to model the evolutionary history of eukaryotes.
Endosymbiotic selective pressure at the origin of eukaryotic cell biology
- BiologyeLife
- 2022
Comparing differences and similarities among models that view eukaryotic traits as isolated coincidental events in asgard archaeal evolution or as a result of and in response to endosymbiosis leads to a synthesis of the current data to conclude that traits such as the Golgi apparatus, the nucleus, autophagosomes, and meiosis and sex evolved as a response to the selective pressures an endosYmbiont imposes.
References
SHOWING 1-10 OF 114 REFERENCES
The eukaryotic tree of life from a global phylogenomic perspective.
- BiologyCold Spring Harbor perspectives in biology
- 2014
The pros and cons of phylogenomics are discussed and the eukaryotic supergroups are reviewed in light of earlier work that laid the foundation for the current view of the tree, including the position of the root.
Phylogenomics reveals a new ‘megagroup’ including most photosynthetic eukaryotes
- BiologyBiology Letters
- 2008
This work investigates early evolution among the major eukaryotic supergroups using the broadest multigene dataset to date and provides strong support for the clustering of plants, chromalveolates, rhizarians, haptophytes and cryptomonads, thus linking nearly all photosynthetic lineages and raising the question of a possible unique origin of plastids.
The Revised Classification of Eukaryotes
- BiologyThe Journal of eukaryotic microbiology
- 2012
This revision of the classification of eukaryotes retains an emphasis on the protists and incorporates changes since 2005 that have resolved nodes and branches in phylogenetic trees.
The Deep Roots of Eukaryotes
- BiologyScience
- 2003
The discovery of the likely antiquity and taxonomic diversity of ultrasmall eukaryotes and a fundamental rethinking of the position of the root suggest major gaps in understanding of what eukARYotes are or, when it comes to the tree, even which end is up.
Toward Resolving the Eukaryotic Tree: The Phylogenetic Positions of Jakobids and Cercozoans
- BiologyCurrent Biology
- 2007
Phylogenomics and the reconstruction of the tree of life
- BiologyNature Reviews Genetics
- 2005
This work has demonstrated the power of the phylogenomics approach, which has the potential to provide answers to several fundamental evolutionary questions, but challenges for the future have also been revealed.
Revisions to the Classification, Nomenclature, and Diversity of Eukaryotes
- BiologyThe Journal of eukaryotic microbiology
- 2019
It is confirmed that eukaryotes form at least two domains, the loss of monophyly in the Excavata, robust support for the Haptista and Cryptista, and suggested primer sets for DNA sequences from environmental samples that are effective for each clade are provided.
New Phylogenomic Analysis of the Enigmatic Phylum Telonemia Further Resolves the Eukaryote Tree of Life
- BiologybioRxiv
- 2018
All phylogenetic reconstructions, based on 248 genes and using site-heterogeneous mixture models, robustly resolve the evolutionary origin of Telonemia as sister to the Sar supergroup, and propose the moniker ‘TSAR’ to accommodate this new mega-assemblage in the phylogeny of eukaryotes.
Rooting the eukaryotic tree with mitochondrial and bacterial proteins.
- BiologyMolecular biology and evolution
- 2012
A new approach to the rooting of the eukaryotic tree is applied by using a subset of genomic information with more recent evolutionary origin-mitochondrial sequences, whose closest relatives are α-Proteobacteria.