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PubMed2002

Purifying and directional selection in overlapping prokaryotic genes.

In overlapping genes, the same DNA sequence codes for two proteins using different reading frames. Analysis of overlapping genes can help in understanding the mode of evolution of a coding region from noncoding DNA. We identified 71 pairs of convergent genes, with overlapping 3' ends longer than 15 nucleotides, that are conserved in at least two prokaryotic genomes. Among the overlap regions, we observed a statistically significant bias towards the 123:132 phase (i.e. the second codon base in one gene facing the degenerate third position in the second gene). This phase ensures the least mutual constraint on nonconservative amino acid replacements in both overlapping coding sequences. The excess of this phase is compatible with directional (positive) selection acting on the overlapping coding regions. This could be a general evolutionary mode for genes emerging from noncoding sequences, in which the protein sequence has not been subject to selection.

Amino Acid Sequence↗
PubMed2004

Chromosome painting comparison of Leontopithecus chrysomelas (Callitrichine, Platyrrhini) with man and its phylogenetic position.

Using human probes of whole chromosomes, the homoeologies between human and Leontopithecus chrysomelas (Platyrrhini) karyotypes were established. Thirty-three conserved segments were observed between the two species. Intrachromosomal rearrangements between the two species were identified using hybridization of chromosome arm probes of human chromosomes 1 and 3. We also used chromosomal data to investigate phylogenetic relationships of Callitrichines. These data were encoded using Cebus capucinus , a species which kept fairly ancestral chromosomes, as reference. Two equi-parsimonious trees, including reversion or convergence events, were obtained. The monophyly of Callitrichines is confirmed. They share nine chromosomal rearrangements at least. The Cebuella-Callithrix group forms a clade sharing five rearrangements at least. According to the tree considered, the Tamarins, Leontopithecus and Saguinus share two chromosomal rearrangements restricted to these two taxa or none. Callimico accumulated seven chromosomal rearrangements unshared with other taxa, at least. To avoid convergence and reversion events, we propose the hypothesis of a network (or populational) evolution. Six chromosomal rearrangements would have occurred during the period of this network evolution. Finally, the karyotype of the last common ancestor to all Callitrichines has been reconstructed. It possessed 48 chromosomes.

Animals↗
PubMed2002

Combinatorial mutagenesis to restrict amino acid usage in an enzyme to a reduced set.

We developed an effective strategy to restrict the amino acid usage in a relatively large protein to a reduced set with conservation of its in vivo function. The 213-residue Escherichia coli orotate phosphoribosyltransferase was subjected to 22 cycles of segment-wise combinatorial mutagenesis followed by 6 cycles of site-directed random mutagenesis, both coupled with a growth-related phenotype selection. The enzyme eventually tolerated 73 amino acid substitutions: In the final variant, 9 amino acid types (A, D, G, L, P, R, T, V, and Y) occupied 188 positions (88%), and none of 7 amino acid types (C, H, I, M, N, Q, and W) appeared. Therefore, the catalytic function associated with a relatively large protein may be achieved with a subset of the 20 amino acid. The converged sequence also implies simpler constituents for proteins in the early stage of evolution.

Amino Acid Sequence↗
PubMed2005

Local phylogenetic divergence and global evolutionary convergence of skull function in reef fishes of the family Labridae.

The Labridae is one of the most structurally and functionally diversified fish families on coral and rocky reefs around the world, providing a compelling system for examination of evolutionary patterns of functional change. Labrid fishes have evolved a diverse array of skull forms for feeding on prey ranging from molluscs, crustaceans, plankton, detritus, algae, coral and other fishes. The species richness and diversity of feeding ecology in the Labridae make this group a marine analogue to the cichlid fishes. Despite the importance of labrids to coastal reef ecology, we lack evolutionary analysis of feeding biomechanics among labrids. Here, we combine a molecular phylogeny of the Labridae with the biomechanics of skull function to reveal a broad pattern of repeated convergence in labrid feeding systems. Mechanically fast jaw systems have evolved independently at least 14 times from ancestors with forceful jaws. A repeated phylogenetic pattern of functional divergence in local regions of the labrid tree produces an emergent family-wide pattern of global convergence in jaw function. Divergence of close relatives, convergence among higher clades and several unusual 'breakthroughs' in skull function characterize the evolution of functional complexity in one of the most diverse groups of reef fishes.

Animals↗
PubMed2000

Toward a narrative-centered curriculum for nurse practitioners.

This paper discusses various alternative and nontraditional teaching strategies currently used in nurse practitioner curricula. These instructional strategies include case-study analysis (Ryan-Wenger & Lee, 1997) and problem-based learning/practice-based learning (Barrows, 1994). We suggest a further evolution, using principles and practices of a narrative pedagogy (Diekelmann, 1995) to allow convergence of these several narratively-focused inductive and interpretive approaches. This combination of ways of learning has led us toward a narrative-centered curriculum for family nurse practitioners (FNPs). Specific ways to use narrative in the FNP curriculum are presented to demonstrate how to take the curriculum beyond traditional ways of teaching and learning.

Curriculum↗
PubMed2002

Comparative social biology of basal taxa of ants and termites.

Lacking a comprehensive fossil record, solitary representatives of the taxa, and/or a definitive phylogeny of closely related insects, comparison of the life history and social biology of basal, living groups is one of the few available options for developing inferences regarding the early eusocial evolution of ants and termites. Comparisons of a select group of basal formicid and isopteran taxa suggest that the reproductive organization of colonies and their patterns of division of labor were particularly influenced, in both groups, by nesting and feeding ecology. Opportunities for serial inheritance of the nest structure and colony population by kin may have been significant in the evolution of multiple reproductive forms and options. Disease has been a significant factor in the evolution of social organization in ants and termites, but the adaptive mechanisms of infection control differ. Evaluations of the convergent and divergent social biology of the two taxa can generate novel domains of research and testable hypotheses.

Animals↗
PubMed2004

Perspective: is human cultural evolution Darwinian? Evidence reviewed from the perspective of the Origin of Species.

The claim that human culture evolves through the differential adoption of cultural variants, in a manner analogous to the evolution of biological species, has been greeted with much resistance and confusion. Here we demonstrate that as compelling a case can now be made that cultural evolution has key Darwinian properties, as Darwin himself presented for biological evolution in The Origin of Species. Culture is shown to exhibit variation, competition, inheritance, and the accumulation of successive cultural modifications over time. Adaptation, convergence, and the loss or change of function can also be identified in culture. Just as Darwin knew nothing of genes or particulate inheritance, a case for Darwinian cultural evolution can be made irrespective of whether unitary cultural replicators exist or whether cultural transmission mechanisms are well understood.

Adaptation, Biological↗
PubMed2026

The Convergence of Antimicrobial Resistance and Virulence in Streptococcus pneumoniae: A Molecular and Clinical Perspective.

Antimicrobial resistance (AMR) and virulence have traditionally been viewed as competing traits in bacterial evolution due to fitness costs. However, Streptococcus pneumoniae has emerged as a paradigm of successful coevolution, with multidrug-resistant clones simultaneously maintaining or enhancing pathogenic potential. This review examines the molecular mechanisms, epidemiological patterns, and clinical consequences of the convergence between AMR and virulence in Streptococcus pneumoniae. Resistance to β-lactams is driven by mosaic penicillin-binding protein genes (pbp1a, pbp2b, pbp2x), while macrolide resistance is mediated primarily by the erm(B) gene (MLS phenotype) and mef(A/E)-msr(D) genes encoding an efflux system. These determinants are frequently co-localized on integrative and conjugative elements, ICEs, (e.g., Tn916 family) within successful clonal complexes such as CC271/320 and lineages including ST320 and GPSC10. Contrary to the classical fitness cost hypothesis, compensatory epistasis, capsular recombination, metabolic adaptations, and intra-serotype phenotypic variation enable certain clones to combine high-level resistance to β-lactams, macrolides, and tetracyclines with enhanced colonization, biofilm formation, immune evasion, and invasive capacity. Post-pneumococcal conjugate vaccine (PCV) surveillance reveals the persistence and expansion of these high-risk lineages, contributing to treatment-refractory invasive pneumococcal disease (IPD), increased morbidity, and mortality. Although PCVs have reduced vaccine-type resistant strains in some settings, serotype replacement and emerging metabolic genotypes continue to drive adaptation. This review highlights the need for integrated genomic surveillance, novel therapeutics (e.g., omadacycline, lefamulin, endolysins), monoclonal antibodies, and next-generation vaccines targeting both resistance and conserved virulence determinants. A multifaceted strategy combining antimicrobial stewardship, strengthened surveillance, and innovative interventions is essential to curb the evolving threat of resistant and virulent S. pneumoniae.

Streptococcus pneumoniae↗
PubMed2001

Pathogen evolution: How good bacteria go bad.

Recent findings suggest that dysentery-causing Shigella strains have arisen several times from Escherichia coli via plasmid acquisition and phenotypic convergence. Similarly, three Bacillus strains with distinct pathogenic properties are derivatives of a single species whose behavior is profoundly altered by acquired plasmids.

Bacillus↗
PubMed1997

The origin and evolution of animal appendages.

Animals have evolved diverse appendages adapted for locomotion, feeding and other functions. The genetics underlying appendage formation are best understood in insects and vertebrates. The expression of the Distal-less (Dll) homeoprotein during arthropod limb outgrowth and of Dll orthologs (Dlx) in fish fin and tetrapod limb buds led us to examine whether expression of this regulatory gene may be a general feature of appendage formation in protostomes and deuterostomes. We find that Dll is expressed along the proximodistal axis of developing polychaete annelid parapodia, onychophoran lobopodia, ascidian ampullae, and even echinoderm tube feet. Dll/Dlx expression in such diverse appendages in these six coelomate phyla could be convergent, but this would have required the independent co-option of Dll/Dlx several times in evolution. It appears more likely that ectodermal Dll/Dlx expression along proximodistal axes originated once in a common ancestor and has been used subsequently to pattern body wall outgrowths in a variety of organisms. We suggest that this pre-Cambrian ancestor of most protostomes and the deuterostomes possessed elements of the genetic machinery for and may have even borne appendages.

Amino Acid Sequence↗
PubMed1996

Region-specific YAC banding and painting probes for comparative genome mapping: implications for the evolution of human chromosome 2.

To date, several hundred nonchimeric yeast artificial chromosomes (YACs) from the Centre d'Etude du Polymorphisme Humain containing polymorphic sequence-tagged sites have been mapped by fluoresence in situ hybridization (FISH) on human metaphase chromosomes. Because they carry an average of 1 Mb of human genomic DNA, CEPH YACs generate high-intensity in situ hybridization signals. The available set of cytogenetically and genetically anchored YACs, approximately one every 5-10 cM evenly spaced over almost the entire human genome, provides complex region-specific probes for molecular cytogenetics. YAC probes can be adapted with unlimited flexibility to specific FISH applications such as the study of chromosomal evolution. We have generated representational probes for YAC banding and painting of human chromosome 2 and its great ape homologs. Convergent inversions were found in the pericentric region of the gorilla and orangutan homologs of chromosome 2p.

Animals↗
PubMed2004

Microbial adaptation and change: avian influenza.

The evolution of influenza is a continuing process involving viral and host factors. The increasing frequency of emergence of the highly pathogenic H5N1, H7N3 and H7N7 influenza viruses and the panzootic spread of H9N2 influenza virus, all of which can be potentially transmitted to humans, are of great concern to both veterinary and human public health officials. The question is how soon the next pandemic will emerge. A convergence of factors, including the population densities of poultry, pigs and humans, are likely factors affecting the evolution of the virus. Highly concentrated poultry and pig farming, in conjunction with traditional live animal or 'wet' markets, provide optimal conditions for increased mutation, reassortment and recombination of influenza viruses. Strategies to reduce the evolution of influenza and the emergence of pandemics include the separation of species, increased biosecurity, the development of new vaccine strategies and better basic knowledge of the virus. More effective co-operation between scientists and veterinary and public health officials is required to achieve these goals.

Animals↗
PubMed1999

Symmetry in Flowers: Diversity and Evolution.

This article traces research on floral symmetry back to its beginnings. It brings together recent advances from different fields that converge in floral symmetry and new unpublished material on diversity and development of floral symmetry. During floral development, symmetry may change: monosymmetric flowers may have a polysymmetric early phase; polysymmetric flowers may have a monosymmetric or even asymmetric early phase; more than one symmetry change is also possible. In Lamiales s.l. (comprising the model plant Antirrhinum, where the cycloidea gene produces monosymmetric flowers with the adaxial side of the androecium reduced), taxa also occur in which the androecium is reduced on both sides, adaxial and abaxial. As a trend in asymmetric flowers, enantiomorphy (with two mirror-image morphs) at the level of individuals seems to occur only in groups in which the flowers are predominantly of a relatively simple construction. In contrast, one morph is fixed at the level of species or higher taxa in groups with more complicated flowers. This is indicated by the apparent lack of enantiomorphy in corolla contortion in asterids but its predominance in rosids with contort flowers, or by the apparent lack of enantiomorphy in the pollination organs of asymmetric flowers in Faboideae but its presence in asymmetric flowers in Caesalpinioideae. To study the evolution of the diverse symmetry patterns, a concerted approach from different fields including molecular developmental genetics, pollination biology, and comparative diversity research is necessary.

Journal Article↗
PubMed2006

Chromosome plasticity in Ctenomys (Rodentia Octodontidae): chromosome 1 evolution and heterochromatin variation.

A chromosome 1 (Cr1) pericentric inversion is described in six of seven species in the genus Ctenomys (tuco-tucos) from Uruguay. The inversion was inferred from G-band analyses of subtelocentric Cr1 hypothesised to be derived from the ancestral metacentric condition. Cr1 varies across species in heterochromatin amount and localisation including a metacentric chromosome without positive C-bands in C. torquatus, a subtelocentric chromosome with heterochromatic short arms in C. rionegrensis, and a subtelocentric chromosome negative after C-banding in five of the species analysed here. Pachytene chromosomes from C. rionegrensis, a species with the highest heterochromatin content, and C. torquatus, one of the species with the lowest heterochromatin content, were analysed in order to assess possible mechanisms of heterochromatin evolution. This analysis revealed the presence of three heterochromatic chromocenters in C. rionegrensis where bivalents converge, while in C. torquatus only one chromocenter was observed. In both species, highly repetitive DNA was observed, localised in chromocenters after "in situ" hybridisation. Heterochromatin associated protein M31 was localised in chromocenters of both species after immuno-detection. The spread of heterochromatin in Ctenomys chromosomes could be produced by chromatin exchanges at the chromocenter level. We propose the exchange of this DNA associated proteins between non-homologous chromosomes in pachytene to be the responsible for the spread of heterochromatin through the karyotypes of species like C. rionegrensis.

Animals↗
PubMed2000

Anatomical and descriptive study of the radial extensor muscle (M. extensor carpi radialis).

The M. extensores carpi radiales have been studied in detail in humans. The aim of this study was to carry out a comparative anatomical study of these muscles using four species--rabbit, cat, dog and sheep--and to propose a 'systematization' in a few standard models according to the morphological variations seen. In these species, there is marked morphological evolution, with two muscles in humans, one in sheep and a more or less distinct division of the muscle in the rabbit, cat and dog. Examination of the vascularization and nerve supply enables us to determine degrees of division in species with similar muscle morphology. Thus we were able to distinguish three morphological types which allow us to infer the morphological evolution of the M. extensores carpi radiales and to estimate the point at which one muscle became two. However, there is a strong chance that some process of convergence may have occurred, and in pentadactyl species many elements represent the plesiomorphis and are therefore of little use in constructing a classification on the basis of evolution.

Animals↗