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Non-animal origin of animal thioredoxin reductases: implications for selenocysteine evolution and evolution of protein function through carboxy-terminal extensions.

Thioredoxin reductase (TR) and thioredoxin constitute a major cellular redox system present in all organisms. In contrast to a single form of thioredoxin, there are two TR types: One (bacterial type or small TR) is present in bacteria, archaea, plants, and most unicellular eukaryotes, whereas the second (animal or large TR) is only found in animals and typically contains a carboxy-terminal penultimate selenocysteine encoded by TGA. Surprisingly, we detected sequences of large TRs in various unicellular eukaryotes. Moreover, green algae Chlamydomonas reinhardtii had both small and large TRs, with the latter being a selenoprotein, but no examples of horizontal gene transfer from animals to the green algae could be detected. In addition, phylogenetic analyses revealed that large TRs formed a subgroup of lower eukaryotic glutathione reductases (GRs). The data suggest that the large TR evolved in a lower eukaryote capable of selenocysteine insertion rather than in an animal. The enzyme appeared to evolve by a carboxy-terminal extension of GR such that the resulting carboxy-terminal glutathionelike peptide became an intramolecular substrate for GR and a reductant for thioredoxin. Subsequently, small TRs were lost in an organism that gave rise to animals, large TRs were lost in plants and fungi, and selenocysteine/cysteine replacements took place in some large TRs. Our data implicate carboxy-terminal extension of proteins as a general mechanism of evolution of new protein function.

Amino Acid Sequence↗

The evolution of embryo size in angiosperms and other seed plants: implications for the evolution of seed dormancy.

Seed dormancy plays an important role in germination ecology and seed plant evolution. Morphological seed dormancy is caused by an underdeveloped embryo that must mature prior to germination. It has been suggested that the presence of an underdeveloped embryo is plesiomorphic among seed plants and that parallel directional change in embryo morphology has occurred separately in gymnosperms and in angiosperms. We test these hypotheses using original data on embryo morphology of key basal taxa, a published dataset, and the generalized least squares (GLS) method of ancestral character state reconstruction. Reconstructions for embryo to seed ratio (E:S) using family means for 179 families showed that E:S has increased between the ancestral angiosperm and almost all extant angiosperm taxa. Species in the rosid clade have particularly large embryos relative to the angiosperm ancestor. Results for the gymnosperms show a similar but smaller increase. There were no statistically significant differences in E:S between basal taxa and any derived group due to extremely large standard errors produced by GLS models. However, differences between reconstructed values for the angiosperm ancestor and more highly nested nodes are large and these results are robust to topological and branch-length manipulations. Our analysis supports the idea that the underdeveloped embryo is primitive among seed plants and that there has been a directional change in E:S within both angiosperms and gymnosperms. Our analysis suggests that dormancy enforced by an underdeveloped embryo is plesiomorphic among angiosperms and that nondormancy and other dormancy types probably evolved within the angiosperms. The shift in E:S was likely a heterochronic change, and has important implications for the life history of seed plants.

Biological Evolution↗

Molecular evolution of fibrillar collagen in chordates, with implications for the evolution of vertebrate skeletons and chordate phylogeny.

Vertebrates have seven types of fibrillar collagens that are encoded by 11 genes. Types I, V, and XXIV collagens are components of mineralized bone, whereas types II, XI, and XXVII collagens are components of cartilage. In this study, we traced the molecular evolutionary history of chordate collagen genes and examined how gene duplications gave rise to the collagen genes used for skeletons. Our analyses of deuterostome collagen genes, including one amphioxus gene that we identified in this study, suggest that the common ancestors of deuterostomes possessed three fibrillar collagen genes. Expression analyses of chordate fibrillar collagen genes suggest that in the ancestors of chordates, fibrillar collagen was co-opted to the formation of the notochord sheath independently in three clades. Our results also imply that co-option of collagen genes to cartilage occurred in clade A (col2A1), clade B (col11A1, 11A2), and clade C (COL27A1). Similarly, some fibrillar collagen genes have been co-opted for mineralized bone independently from clade A genes (col1A1, 1A2, 5A2), clade B genes (col5A1), and clade C genes (COL24A1). These frequent co-options for notochord, cartilage, and mineralized bone must have been accompanied by the rapid evolution of cis-regulatory elements for transcription. In addition, we found that one of the ascidian fibrillar collagen genes possesses an amino acid insertion at the identical site of the C-terminal noncollagenous domain in vertebrate fibrillar collagen genes. This observation raises a suspicion about the relatively well-accepted phylogeny of the close relationship between amphioxus and vertebrates.

Amino Acid Sequence↗

Experimental evolution of Ebg enzyme provides clues about the evolution of catalysis and to evolutionary potential.

The ebg (evolved beta-galactosidase) operon of Escherichia coli has been used since 1974 as a model system to dynamically study the evolutionary processes which have led to catalytic efficiency and substrate specificity in enzymes. Wild-type ebg beta-galactosidase, encoded by ebgA, is a catalytically feeble enzyme that does not hydrolyze lactose or other beta-galactosidase efficiently enough to permit growth on those substrates. Each of two specific base substitutions at widely separated sites increases catalytic activity sufficiently to permit growth, and the combination of the two mutations further increases catalytic effectiveness and expands the substrate range of the enzyme in a non-additive fashion. Experimental studies suggested that in the 3126 bp coding region those two substitutions were the only mutations capable of increasing activity toward lactose sufficiently to permit growth. Alignment of EbgA with the LacZ beta-galactosidase showed that both mutations were in active site amino acids. Multiple alignment and phylogenetic analysis of EbgA, LacZ, and 12 other related beta-galactosidases showed that EbgA and LacZ diverged from a common ancestor at least 2.2 billion years ago, that they belonged to different subclasses of the family of 14 beta-galactosidases, that the two subclasses differed at 12 of the 15 active site residues, and confirmed that the two previously identified mutations in ebgA are the only ones that can lead to enzyme with sufficient activity on lactose to permit growth. Studies of the catalytic mechanism of Ebg beta-galactosidase have allowed the widely accepted Albery and Knowles model for the evolution of catalysis to be rejected.

Amino Acid Sequence↗

Evolution of the mammalian MHC: natural selection, recombination, and convergent evolution.

The genes that encode molecules involved in antigen presentation within the class I and class II regions of the mammalian major histocompatibility complex (MHC) include several that are highly polymorphic. There is evidence that this polymorphism is maintained by positive selection, most likely overdominant selection, relating to their role in presenting foreign peptides to T cells. This selection can maintain allelic lineages for much longer periods of time than neutral polymorphisms are expected to last, but sharing of polymorphic amino acid motifs among species of different mammalian orders is due to independent (or convergent) evolution rather than common ancestry. It has been suggested that interallelic recombination (gene conversion) plays a role in enhancing polymorphism, but there is evidence of striking differences among loci with respect to the rate at which such recombination has contributed to current polymorphism. Recent attempts to interpret linkage relationships in the MHC region as evidence of ancient genomic duplications are not supported by phylogenetic analysis. Rather, natural selection may have played a role in the linkage of other genes to those of the MHC.

Animals↗

Evolution of the dec-1 eggshell locus in Drosophila. III. Sequence comparisons of the simulans complex repeated domain reveal non-concerted evolution.

The X-linked female sterile locus dec-1 (defective chorion-1) was examined in the closely related species D. simulans, D. mauritiana, and D. sechellia (the simulans complex). This locus encodes important eggshell proteins produced in the follicle cells during stages 9 and 12 of oogenesis. In D. melanogaster four variant protein forms have been found, differing in 2-3 kDa each. The variation is due to deletions of 1, 2, or 3 units of a 5-times repeated sequence (78 bp long) of the central coding region. The same type of deletions were found in two variants of D. simulans; in this species, however, the maximum number of repeats observed so far is four. The island species D. mauritiana and D. sechellia both have the repeat sequence repeated three times. Sequence comparisons revealed that the repeats in the simulans complex have been less homogenised by the forces of concerted evolution than the repeats in D. melanogaster. Two domains of the repetitive region that evolve at different rates and are subject to different mechanisms of DNA turnover were also defined.

Amino Acid Sequence↗

Androgens in human evolution. A new explanation of human evolution.

Human evolution consists of chronological changes in gene regulation of a continuous and relatively stable genome, activated by hormones, the production of which is intermittently affected by endogenous and exogenous forces. Periodic variations in the gonadal androgen, testosterone, and the adrenal androgen, dehydroepiandrosterone (DHEA), significantly participated in all hominid transformations. The hominid characteristics of early Australopithecines are primarily a result of increased testosterone. The first significant cold of the early Pleistocene resulted in an increase in DHEA that simultaneously produced Homo and the robust Australopithecines. Subsequent Pleistocene climatic changes and differential reproduction produced changes in DHEA and testosterone ratios that caused extinction of the robust Australopithecines and further changes and continuation of Homo. Changes in testosterone and DHEA produce allometric and behavioral changes that are identifiable and vigorous in modern populations.

Adolescent↗

[Potential functional differentiation of genome in the course of evolution and approaches to its study. I. Neontological annals of evolution and its analysis].

It is shown that the division of phylogenetical branches descends anisotomically. One new branch becomes evolutionary not active. Another one continues actively to develop. It allows to consider a system of present-day organisms as neonatological annals of evolution. A question arises on distinctions in the constitution of genomes of organisms belonging to active and inactive phylogenetic branches.

Evolution, Molecular↗

[The Swiss archaeologist Otto Hauser. His skeletal findings and hypothesis on the evolution of man and his extensive activities in the development of prehistorical research and evolution].

New investigations on Otto Hauser's skeleton findings and the excavations of this Swiss citizen in Southwest France from 1906 until 1914 placed the activities of this archaeologist again in the focus of scientific and public interest. This paper describes life and oeuvre of Otto Hauser and discusses the importance of the skeletons found by him and Hermann Klaatsch as well as the consequences of their discovery. The efforts of Otto Hauser to publish his discoveries, to present and spread his view concerning the evolution of man were remarkably manifold as well as the parallels between ancient man and contemporary ethnic groups living on a low technological level drawn by him and to wake and to promote the interest in prehistory. Many books, brochures, articles and public lectures contributed to this intention as well as co-operation with local historians and scientists of other disciplines, and also many films, teaching and illustrative materials. The scientific collection of the authors of this article comprises more than 6,500 written documents and photos.

Archaeology↗

[Evolution of the neocortex. The principle of a double afferent supply in mammalian evolution].

Comparative electrophysiological data are presented on the role of thalamic, hypothalamic and hippocampal structures in organization and activity of different neocortical formations at various steps of evolution. It was shown that higher mammals have double afferent supply of associative zones of the new cortex from the thalamic and hypothalamic nuclei, exhibiting significant increase in the degree of their convergence pattern.

Afferent Pathways↗

[Neuromediators and neuromodulators. Evolution of compounds and the evolution of hypotheses].

Probable peculiarities of evolution of neurotransmitters (NM) and neuromodulators (NR) of various types are discussed. The hypothesis of higher evolutionary rate of peptide NM and NR, and of more diverse possibilities of the formation of this type of NM and NR is suggested. Monomolecular MN and NR are presumably more conservative, although they exhibit some advantage with respect to strict differentiation of the systems of synthesis and degradation. Probably, the most ancient NM and NR are presented by such compounds as peptides, some amino acids, and ATP.

Adenosine Triphosphate↗

[Homology and evolution of gene order: a simple method for testing a hypothesis on the nature of this evolution].

A method of testing various hypotheses concerning the mechanisms of evolution of gene order is suggested. Estimating the possibility of constructing an evolutionary tree that reflects the observed similarity between gene orders studied is proposed, provided that the distances between gene orders correspond to estimations obtained on the basis of the hypothesis tested. The required IBM PC software was developed. It was found that gene orders of the mouse, rabbit, cow, cat, lemur, capuchin monkey, rhesus monkey, gorilla, chimpanzee, and man could be readily interpreted in terms of the simplest ("map") model of transformation of these orders.

Animals↗

Tempo and mode of mitochondrial DNA evolution in vertebrates at the amino acid sequence level: rapid evolution in warm-blooded vertebrates.

By using complete sequence data of mitochondrial DNAs, three Markov models (Dayhoff, Proportional, and Poisson models) for amino acid substitutions during evolution were applied in maximum likelihood analyses of mitochondrially encoded proteins to estimate a phylogenetic tree depicting human, cow, whale, and murids (mouse and rat), with chicken, frog, and carp as outgroups. A cow/whale clade was confirmed with a more than 99.8% confidence level by any of the three models, but the branching order among human, murids, and the cow/whale clade remained uncertain. It turned out that the Dayhoff model is by far the most appropriate model among the alternatives in approximating the amino acid substitutions of mitochondrially encoded proteins, which is consistent with a previous analysis of a more limited data set. It was shown that the substitution rate of mitochondrially encoded proteins has increased in the order of fishes, amphibians, birds, and mammals and that the rate in mammals is at least six times, probably an order of magnitude, higher than that in fishes. The higher evolutionary rate in birds and mammals than in amphibians and fishes was attributed to relaxation of selective constraints operating on proteins in warm-blooded vertebrates and to high mutation rate of bird and mammalian mitochondrial DNAs.

Amino Acid Sequence↗

A chronic MPTP model reproducing the slow evolution of Parkinson's disease: evolution of motor symptoms in the monkey.

1-Methyl-4-phenyl-1,2,3,6-tetrahydropyridine (MPTP) has been shown to induce parkinsonism both in man and non-human primates. Several models have now been developed, but acute MPTP administration does not consistently reproduce all the clinical features of the disease. To mirror the slow evolution observed in human pathology, a chronic model of intoxication is necessary. The present study describes a chronic MPTP protocol in the monkey. Six monkeys received daily injections of MPTP (0.2 mg/kg i.v.) until they reached a score over 8 on the clinical rating scale (15.5 days +/- 1.1). Full parkinsonism was first obtained on the 22nd day. Levodopa testing (20 mg/kg per os) alleviated motor abnormalities (51%), proving the parkinsonian nature of these disturbances. Histological lesions reproduced those observed in Parkinson's disease with a decrease in tyrosine hydroxylase immunoreactivity of 90%. This model so could be of great interest for the study of the dynamic physiopathological changes which occur in Parkinson's disease and consequently for research on new neuroprotective therapies.

1-Methyl-4-phenyl-1,2,3,6-tetrahydropyridine↗

[Secular evolution and evolution according to autonomous communities of the frequency of fertility treatments, multiple deliveries and cesarean sections in Spain].

BACKGROUND AND OBJECTIVE: Fertility treatments, multiple deliveries and caesarean sections are related to maternal age. Because maternal age has increased in Spain, it can also be expected an increase in these variables. We analyzed their evolution over the time and by maternal age, either globally and by Spanish Autonomous Communities. SUBJECTS AND METHOD: We studied a sample of 30,956 mothers of non-malformed newborn infants from all over Spain. STUDY PERIOD: between 1977 and June 2002. RESULTS: The percentage of fertility treatments shows a statistically significant increasing trend in all of the maternal ages groups. However, this was higher in mothers older than 34 years, among whom the frequency of multiple deliveries also increased (p = 0.01). The same trends were observed by Spanish Autonomous Communities, yet with differences between them. In the Comunidad Valenciana, we identified the highest frequency of fertility treatments, while the highest mean maternal age was observed in Aragón. Galicia has one of the lowest proportions of multiple deliveries, while the percentage of fertility treatments is similar to other regions. The percentage of caesarean sections (over 25%, globally) shows a statistically significant increasing trend in all the maternal ages groups, the highest one being among mothers older than 39 years. CONCLUSIONS: The observed increasing maternal age implies a higher use of fertility treatments, multiple deliveries and caesarean sections. All these variables show statistically significant variations between Spanish Autonomous Communities and over the time.

Adult↗