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

Published on Jan 1, 2014in BMC Evolutionary Biology 3.03
· DOI :10.1186/1471-2148-14-25
Jana Szabová4
Estimated H-index: 4
(Charles University in Prague),
Naoji Yubuki15
Estimated H-index: 15
(Canadian Institute for Advanced Research)
+ 2 AuthorsVladimír Hampl21
Estimated H-index: 21
(Charles University in Prague)
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.
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  • Citations (2)
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References36
Published on Jan 1, 2009in Methods of Molecular Biology
Kazutaka Katoh26
Estimated H-index: 26
(Kyushu University),
George Asimenos6
Estimated H-index: 6
(Stanford University),
Hiroyuki Toh49
Estimated H-index: 49
(Kyushu University)
720 Citations Source Cite
Published on Apr 10, 1985in Journal of Biological Chemistry 4.01
M Kotb1
Estimated H-index: 1
,
N M Kredich1
Estimated H-index: 1
Abstract S-Adenosylmethionine synthetase has been purified to apparent homogeneity from human chronic lymphocytic leukemia cells. Equilibrium sedimentation studies and denaturing polyacrylamide gel electrophoresis indicate that the native enzyme has a molecular weight of 185,000 and a subunit composition of either alpha alpha' beta 2, alpha 2 beta 2, or alpha' 2 beta 2, where alpha, alpha', and beta are polypeptide chains of molecular weight 53,000, 51,000, and 38,000. The alpha and alpha' subun...
102 Citations
Patrick J. Keeling69
Estimated H-index: 69
,
Yuji Inagaki27
Estimated H-index: 27
Translation elongation factor 1α (EF-1α, or EF-Tu in bacteria) is a highly conserved core component of the translation machinery that is shared by all cellular life. It is part of a large superfamily of GTPases that are involved in translation initiation, elongation, and termination, as well as several other cellular functions. Eukaryotic EF-1α (eEF-1α) is well studied and widely sampled and has been used extensively for phylogenetic analyses. It is generally thought that such highly conserved a...
80 Citations Source Cite
Published on Feb 1, 2012in PLOS ONE 2.77
Ravi Patel8
Estimated H-index: 8
,
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...
957 Citations Source Cite
Published on Nov 1, 1988in Gene 2.50
Linda K. Medlin8
Estimated H-index: 8
,
Hille J. Elwood11
Estimated H-index: 11
+ 1 AuthorsMitchell L. Sogin84
Estimated H-index: 84
Abstract Polymerase chain reaction conditions were established for the in vitro amplification of eukaryotic small subunit ribosomal (16S-like) rRNA genes. Coding regions from algae, fungi, and protozoa were amplified from nanogram quantities of genomic DNA or recombinant plasmids containing rDNA genes. Oligodeoxynucleotides that are complementary to conserved regions at the 5' and 3' termini of eukaryotic 16S-like rRNAs were used to prime DNA synthesis in repetitive cycles of denaturation, reann...
1,818 Citations Source Cite
Published on Jul 1, 2012in Journal of Eukaryotic Microbiology 2.54
Yoshiyuki Ishitani6
Estimated H-index: 6
(Japan Agency for Marine-Earth Science and Technology),
Ryoma Kamikawa6
Estimated H-index: 6
(University of Tsukuba)
+ 3 AuthorsKiyotaka Takishita19
Estimated H-index: 19
(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 Jan 5, 1996in Journal of Biological Chemistry 4.01
Fusao Takusagawa35
Estimated H-index: 35
(University of Kansas),
Shigehiro Kamitori2
Estimated H-index: 2
(University of Kansas)
+ 1 AuthorsGeorge D. Markham27
Estimated H-index: 27
(Fox Chase Cancer Center)
Abstract The structure of S-adenosylmethionine synthetase (MAT, ATP:L-methionine S-adenosyltransferase, EC 2.5.1.6.) from Escherichia coli has been determined at 3.0 A resolution by multiple isomorphous replacement using a uranium derivative and the selenomethionine form of the enzyme (SeMAT). The SeMAT data (9 selenomethionine residues out of 383 amino acid residues) have been found to have a sufficient phasing power to determine the structure of the 42,000 molecular weight protein by combining...
77 Citations Source Cite
Published on Sep 1, 2011in Protein Expression and Purification 1.34
Francisco Garrido8
Estimated H-index: 8
(Spanish National Research Council),
Sylvie Estrela8
Estimated H-index: 8
(Spanish National Research Council)
+ 3 AuthorsMaría A. Pajares25
Estimated H-index: 25
(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 Feb 1, 2009in Cellular and Molecular Life Sciences 6.72
George D. Markham27
Estimated H-index: 27
(Fox Chase Cancer Center),
María A. Pajares25
Estimated H-index: 25
(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...
61 Citations Source Cite
Published on Jan 1, 2007in BMC Evolutionary Biology 3.03
Geoffrey P. Noble6
Estimated H-index: 6
(Canadian Institute for Advanced Research),
Matthew B. Rogers19
Estimated H-index: 19
(Canadian Institute for Advanced Research),
Patrick J. Keeling69
Estimated H-index: 69
(Canadian Institute for Advanced Research)
Background EFL (or elongation factor-like) is a member of the translation superfamily of GTPase proteins. It is restricted to eukaryotes, where it is found in a punctate distribution that is almost mutually exclusive with elongation factor-1 alpha (EF-1α). EF-1α is a core translation factor previously thought to be essential in eukaryotes, so its relationship to EFL has prompted the suggestion that EFL has spread by horizontal or lateral gene transfer (HGT or LGT) and replaced EF-1α multiple tim...
31 Citations Source Cite
Cited By2
Published on Sep 1, 2014in Journal of Eukaryotic Microbiology 2.54
Won Je Lee6
Estimated H-index: 6
(Kyungnam University),
Alastair G. B. Simpson37
Estimated H-index: 37
(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
Published on Mar 16, 2016in Frontiers in Ecology and Evolution
Carlos Eduardo de Mattos Bicudo2
Estimated H-index: 2
,
Mariângela Menezes7
Estimated H-index: 7
(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