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The evolution of paralogous enzymes MAT and MATX within the Euglenida and beyond

Published on Jan 1, 2014in BMC Evolutionary Biology 3.04
· DOI :10.1186/1471-2148-14-25
Jana Szabová4
Estimated H-index: 4
(Charles University in Prague),
Naoji Yubuki15
Estimated H-index: 15
(CIFAR: Canadian Institute for Advanced Research)
+ 2 AuthorsVladimír Hampl21
Estimated H-index: 21
(Charles University in Prague)
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Abstract
Background Methionine adenosyltransferase (MAT) is a ubiquitous essential enzyme that, in eukaryotes, occurs in two relatively divergent paralogues: MAT and MATX. MATX has a punctate distribution across the tree of eukaryotes and, except for a few cases, is mutually exclusive with MAT. This phylogenetic pattern could have arisen by either differential loss of old paralogues or the spread of one of these paralogues by horizontal gene transfer. Our aim was to map the distribution of MAT/MATX genes within the Euglenida in order to more comprehensively characterize the evolutionary history of MATX.
  • References (36)
  • Citations (2)
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References36
Newest
Published on Jul 1, 2012in Journal of Eukaryotic Microbiology 2.36
Yoshiyuki Ishitani6
Estimated H-index: 6
(JAMSTEC: Japan Agency for Marine-Earth Science and Technology),
Ryoma Kamikawa6
Estimated H-index: 6
(University of Tsukuba)
+ 3 AuthorsKiyotaka Takishita19
Estimated H-index: 19
(JAMSTEC: Japan Agency for Marine-Earth Science and Technology)
Elongation factor 1α (EF-1α) and elongation factor-like (EFL) proteins are considered to carry out equivalent functions in translation in eukaryotic cells. Elongation factor 1α and EFL genes are patchily distributed in the global eukaryotic tree, suggesting that the evolution of these elongation factors cannot be reconciled without multiple lateral gene transfer and/or ancestral co-occurrence followed by differential loss of either of the two factors. Our current understanding of the EF-1α/EFL e...
6 Citations Source Cite
Published on Feb 1, 2012in PLOS ONE 2.78
Ravi K. Patel7
Estimated H-index: 7
,
Mukesh K. Jain64
Estimated H-index: 64
Next generation sequencing (NGS) technologies provide a high-throughput means to generate large amount of sequence data. However, quality control (QC) of sequence data generated from these technologies is extremely important for meaningful downstream analysis. Further, highly efficient and fast processing tools are required to handle the large volume of datasets. Here, we have developed an application, NGS QC Toolkit, for quality check and filtering of high-quality data. This toolkit is a standa...
1,020 Citations Source Cite
Published on Jan 1, 2012in BMC Evolutionary Biology 3.04
Aika Yamaguchi12
Estimated H-index: 12
(UBC: University of British Columbia),
Naoji Yubuki15
Estimated H-index: 15
(UBC: University of British Columbia),
Brian S. Leander35
Estimated H-index: 35
(UBC: University of British Columbia)
Background Morphostasis of traits in different species is necessary for reconstructing the evolutionary history of complex characters. Studies that place these species into a molecular phylogenetic context test hypotheses about the transitional stages that link divergent character states. For instance, the transition from a phagotrophic mode of nutrition to a phototrophic lifestyle has occurred several times independently across the tree of eukaryotes; one of these events took place within the E...
40 Citations Source Cite
Published on Sep 1, 2011in Protein Expression and Purification 1.29
Francisco Garrido8
Estimated H-index: 8
(CSIC: Spanish National Research Council),
Sylvie Estrela8
Estimated H-index: 8
(CSIC: Spanish National Research Council)
+ 3 AuthorsMaría A. Pajares26
Estimated H-index: 26
(CSIC: Spanish National Research Council)
Abstract Methionine adenosyltransferase from Euglena gracilis (MATX) is a recently discovered member of the MAT family of proteins that synthesize S-adenosylmethionine. Heterologous overexpression of MATX in Escherichia coli rendered the protein mostly in inclusion bodies under all conditions tested. Therefore, a refolding and purification procedure from these aggregates was developed to characterize the enzyme. Maximal recovery was obtained using inclusion bodies devoid of extraneous proteins b...
6 Citations Source Cite
Published on Aug 1, 2011in Molecular Biology and Evolution 14.80
Jana Szabová4
Estimated H-index: 4
(Charles University in Prague),
Petr Růžička1
Estimated H-index: 1
(Sewanee: The University of the South)
+ 2 AuthorsJulius Lukeš50
Estimated H-index: 50
(Sewanee: The University of the South)
Many eukaryotic genes do not follow simple vertical inheritance. Elongation factor 1a (EF-1a) and methionine adenosyl transferase (MAT) are enzymes with complicated evolutionary histories and, interestingly, the two cases have several features in common. These essential enzymes occur as two relatively divergent paralogs (EF-1a/EFL, MAT/MATX) that have patchy distributions in eukaryotic lineages that are nearly mutually exclusive. To explain such distributions, we must invoke either multiple euka...
18 Citations Source Cite
Published on Jan 1, 2011in European Journal of Protistology 2.63
Ryoma Kamikawa6
Estimated H-index: 6
(University of Tsukuba),
Akinori Yabuki15
Estimated H-index: 15
(University of Tsukuba)
+ 3 AuthorsYuji Inagaki28
Estimated H-index: 28
(University of Tsukuba)
Abstract Elongation factor 1α (EF-1α) and elongation factor-like protein (EFL) are considered to be functionally equivalent proteins involved in peptide synthesis. Eukaryotes can be fundamentally divided into ‘EF-1α-containing’ and ‘EFL-containing’ types. Recently, EF-1α and EFL genes have been surveyed across the diversity of eukaryotes to explore the origin and evolution of EFL genes. Although the phylum Cercozoa is a diverse group, gene data for either EFL or EF-1α are absent from all cercozo...
10 Citations Source Cite
Published on Nov 1, 2009in Molecular Phylogenetics and Evolution 3.99
Ryoma Kamikawa6
Estimated H-index: 6
(University of Tsukuba),
Gabino F. Sanchez-Perez15
Estimated H-index: 15
(Dal: Dalhousie University)
+ 2 AuthorsYuji Inagaki28
Estimated H-index: 28
(University of Tsukuba)
Most eukaryotes possess the highly-conserved enzyme methionine adenosyltransferase (MAT) that produces S-adenosyl-L-methionine, a molecule essential to a variety of cellular processes. However, a recent study revealed that genomes of a very few eukaryote lineages encode a highly divergent type of MAT (called MATX), instead of the canonical MAT enzyme. Since MATX-containing eukaryotes are phylogenetically interspersed with MAT-containing organisms, it is likely that the MATX gene was spread into ...
9 Citations Source Cite
Published on Jul 1, 2009in Journal of Eukaryotic Microbiology 2.36
Gillian H. Gile15
Estimated H-index: 15
(UBC: University of British Columbia),
Philip M. Novis12
Estimated H-index: 12
(Landcare Research)
+ 2 AuthorsPatrick J. Keeling72
Estimated H-index: 72
(UBC: University of British Columbia)
ABSTRACT. The systematics of the green algal class Ulvophyceae have been difficult to resolve with ultrastructural and molecular phylogenetic analyses. Therefore, we investigated relationships among ulvophycean orders by determining the distribution of two discrete genetic characters previously identified only in the order Dasycladales. First, Acetabularia acetabulum uses the core translation GTPase Elongation Factor 1α (EF-1α) while most Chlorophyta instead possess the related GTPase Elongation...
17 Citations Source Cite
Published on Apr 9, 2009in PLOS ONE 2.78
Gillian H. Gile15
Estimated H-index: 15
(CIFAR: Canadian Institute for Advanced Research),
Drahomíra Faktorová8
Estimated H-index: 8
(Sewanee: The University of the South)
+ 5 AuthorsPatrick J. Keeling72
Estimated H-index: 72
(CIFAR: Canadian Institute for Advanced Research)
Background: The eukaryotic elongation factor EF-1a (also known as EF1A) catalyzes aminoacyl-tRNA binding by the ribosome during translation. Homologs of this essential protein occur in all domains of life, and it was previously thought to be ubiquitous in eukaryotes. Recently, however, a number of eukaryotes were found to lack EF-1a and instead encode a related protein called EFL (for EF-Like). EFL-encoding organisms are scattered widely across the tree of eukaryotes, and all have close relative...
17 Citations Source Cite
Published on Feb 1, 2009in Cellular and Molecular Life Sciences 7.01
George D. Markham28
Estimated H-index: 28
(Fox Chase Cancer Center),
María A. Pajares26
Estimated H-index: 26
(CSIC: Spanish National Research Council)
Methionine adenosyltransferases (MATs) are the family of enzymes that synthesize the main biological methyl donor, S-adenosylmethionine. The high sequence conservation among catalytic subunits from bacteria and eukarya preserves key residues that control activity and oligomerization, which is reflected in the protein structure. However, structural differences among complexes with substrates and products have led to proposals of several reaction mechanisms. In parallel, folding studies begin to e...
62 Citations Source Cite
Cited By2
Newest
Published on Mar 16, 2016in Frontiers in Ecology and Evolution
Carlos Eduardo de Mattos Bicudo14
Estimated H-index: 14
,
Mariângela Menezes8
Estimated H-index: 8
(UFRJ: Federal University of Rio de Janeiro)
Euglenophyceae (phototrophic euglenids) are an important lineage within the Euglenida, Euglenozoa. Most of the approximately 3,000 described species are free-living, phototrophic, unicellular flagellates with one to several plastids of secondary origin, three bounding membranes and chlorophylls a and b; but, the lineage also includes colorless species that lost their photosynthesizing capability. They show a typical cell membrane consisting of parallel proteinaceous strips and microtubules locat...
5 Citations Source Cite
Published on Sep 1, 2014in Journal of Eukaryotic Microbiology 2.36
Won Je Lee6
Estimated H-index: 6
(Kyungnam University),
Alastair G. B. Simpson39
Estimated H-index: 39
(CIFAR: Canadian Institute for Advanced Research)
Petalomonads are particularly important for understanding the early evolution of euglenids, but are arguably the least studied major group within this taxon. We have established a culture of the biflagellate petalomonad Notosolenus urceolatus, and conducted electron microscopy observations and molecular phylogenetic analysis. Notosolenus urceolatus has eight pellicular strips bordered by grooves and underlain by close-set microtubules. There are ventral and dorsal Golgi bodies. Mitochondria appa...
5 Citations Source Cite