Abstract
We describe our structural and biochemical research designed to understand the sequence-to-function relationship in EFCaBPs. The first structural goal was to define conformational changes induced by binding Ca(2+), and our group and others established that solution NMR spectroscopy is well suited fo...
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PMID: 21314091
PDF is available here.
Abstract
We have used an evolutionary approach to study DIA1 and DIA1R. We found DIA1 conserved from cnidarians to humans, indicating DIA1 evolution coincided with the development of the first primitive synapses. Nematodes lack a DIA1 homologue, indicating Caenorhabditis elegans is not suitable for studying...
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PMID: 21283809
PDF is available here.
Abstract
Oligodendrocytes and astrocytes are macroglial cells of the vertebrate central nervous system. These cells have diverse roles in the maintenance of neurological function. In the embryo, the genetic mechanisms that underlie the specification of macroglial precursors in vivo appear strikingly similar...
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PMID: 21068830
PDF is available here.
Abstract
We focus on two intriguing candidates for fulfilling this role, Drosophila Dscams and vertebrate clustered protocadherins (Pcdhs). In each, a complex genomic locus encodes large numbers of neuronal transmembrane proteins with homophilic binding specificity, individual members of which are expressed...
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PMID: 21029858
PDF is available here.
Abstract
I will present evidence of neoplasia and invasive malignancy, as well as tumor immunity in invertebrates and nonmammalian vertebrates. I will also present a comparative and evolutionary view of the complex interactions between neoplasia and the host immune system. Overall, I wish to go beyond the to...
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PMID: 20553753
PDF is available here.
Abstract
Genes of box C/D small nucleolar RNAs (snoRNAs) were searched for in the genomes of members of all classes of vertebrates that do not belong to placental mammals. A tendency for an increase in the number of copies of snoRNA genes was observed in such vertebrates. This trend was most pronounced in an...
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PMID: 21061614
PDF is available here.
Abstract
We traced the origin of the fibulin gene family to the base of the metazoans. In invertebrates, Fibulin-1 and Hemicentin comprise the fibulin gene set. Diversification of the fibulins took place in the last common ancestor to the chordates by gene duplication of an ancestral Fibulin-1 gene. Further...
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PMID: 20595023
PDF is available here.
Abstract
We identified zipper (zip), encoding a Drosophila non-muscle myosin II (myosin II) heavy chain, as a gene required for LR asymmetric development of the embryonic anterior midgut (AMG). Myosin II is known to directly generate mechanical force in various types of cells during morphogenesis and cell mi...
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PMID: 20553709
PDF is available here.
Abstract
Sialic acids are ubiquitously found on the surface of all vertebrate cells at the extremities of glycan chains and widely exploited by viruses and bacteria to enter host cells. Carbohydrate-bearing receptors are equally important for host cell invasion by the obligate intracellular protozoan parasit...
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PMID: 20430033
PDF is available here.
Abstract
We outline the molecular cascade of events during trunk neural crest development. After describing the sequential routes taken by trunk neural crest cells, we consider the guidance cues that pattern these neural crest trajectories. We pay particular attention to segmental neural crest development an...
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PMID: 20399766
PDF is available here.
Abstract
We review recent novel insight into the modalities of Hox protein function in imparting specific identity to anatomical regions of the vertebral column, and in controlling the emergence of these tissues concomitantly with providing them with axial identity. The control of these functions must have b...
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PMID: 20435029
PDF is available here.
Abstract
We found that heart progenitor cells of the simple chordate Ciona intestinalis also generate precursors of the atrial siphon muscles (ASMs). These precursors express Islet and Tbx1/10, evocative of the splanchnic mesoderm that produces the lower jaw muscles and SHF of vertebrates. Evidence is presen...
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PMID: 20671188
PDF is available here.
Abstract
The following are the proceedings of a symposium held at the Second International Congress for Respiratory Science in Bad Honnef, Germany. The goals of the symposium were to delineate the blood-gas barrier phenotype across vertebrate species; to delineate the interrelationship betwee...
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PMID: 20096383
PDF is available here.
Abstract
We identified six SS genes in zebrafish and named them SS1, SS2, SS3, SS4, SS5 and SS6. We subsequently found that five SS genes (SS1, SS2, SS3, SS4 and SS5) also existed in stickleback, medaka, Takifugu and Tetraodon. Phylogenetic analysis showed that vertebrate SS genes were grouped into five clad...
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PMID: 20472043
PDF is available here.
Abstract
We will first discuss the current knowledge about the genes and their functions underlying the biochemical pathways that determine pigmentation and then give examples where the mutations responsible for colour variation have been determined. Finally, we will discuss potential evolutionary causes for...
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PMID: 20229234
PDF is available here.
Abstract
Recent genetic and functional analysis of vertebrate limb development begins to reveal how the functions of particular genes and regulatory hierarchies can drastically change over time. The temporal and spatial interplay of the two instructive signalling centres are part of a larger signalling syste...
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PMID: 20537528
PDF is available here.
Abstract
Recent developments regarding environmental impact assessment methodologies for radioactivity have precipitated the need for information on levels of naturally occurring radionuclides within and transfer to wild flora and fauna. The objectives of this study were therefore to determine activity concen...
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PMID: 20650552
PDF is available here.
Abstract
We investigated mesoderm specification in embryos from axolotls, representing urodele amphibians, since urodele embryology is basal to amphibians and was conserved during the evolution of amniotes, including mammals. We show that single copies of Nodal and Mix are required for mesoderm specification...
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PMID: 20394741
PDF is available here.
Abstract
Adaptive immunity in jawless vertebrates is mediated by antigen receptors that are fundamentally different from those of jawed vertebrates. Whereas antibodies and T cell receptors (TCRs) are composed of immunoglobulin (Ig) domains, the variable lymphocyte receptors (VLRs) of jawless fish consist of...
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PMID: 20482318
PDF is available here.
Abstract
We derive gene interaction networks for anterior-posterior (AP) patterning under two developmental paradigms. For patterning during growth (paradigm I), which is appropriate for vertebrates and short germ-band insects, the algorithm creates gene expression patterns reminiscent of Hox gene expression...
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PMID: 20570938
PDF is available here.
Abstract
We report the application of a new type of geochemical measurement to bioapatite, a "clumped-isotope" paleothermometer, based on the thermodynamically driven preference for (13)C and (18)O to bond with each other within carbonate ions in the bioapatite crystal lattice. This effect is dependent on te...
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PMID: 20498092
PDF is available here.
Abstract
In the mouse, the Otx2 gene has been shown to play essential roles in the visceral endoderm during anterior-posterior axis formation and head induction. While these are primary processes in vertebrate embryogenesis, the visceral endoderm is a tissue unique to mammals. Two enhancers (VE and CM) have...
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PMID: 20353765
PDF is available here.
Abstract
The actuarial senescence (i.e., the rate of increase in adult mortality with age) was related to body mass, development period, and age at sexual maturity across 124 taxonomic families of terrestrial vertebrates. Model selection based on Akaike's information criterion values adjusted for small size...
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PMID: 20479246
PDF is available here.
Abstract
We report the results of a wide-ranging analysis of the impact of these events on early vertebrate evolution, which was obtained from a database of vertebrate occurrences sampling over 1,250 taxa from 66 localities spanning Givetian to Serpukhovian stages (391 to 318 Ma). We show that major vertebra...
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PMID: 20479258
PDF is available here.
Abstract
We modified Escherichia coli RF1 at the helix alpha5 and recognition loop regions to mimic MTRF1. There was loss of peptidyl-tRNA hydrolysis activity with standard stop codons beginning with U (e.g., UAG), but a gain of activity with codons beginning with A (AAG in particular). A lower level of acti...
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PMID: 20421313
PDF is available here.
Abstract
Filarial nematode species can host Wolbachia bacterial endosymbionts. To understand the symbiosis, a higher level of complexity should be considered, taking in account the tripartite association between Wolbachia, filariae and mammals. This overview article discusses the biology of Wolbachia in fila...
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PMID: 20597434
PDF is available here.
Abstract
Among the notable trends seen in this year's highlights in mammalian aging research is an awakening of interest in the assessment of age-related measures of mouse health in addition to the traditional focus on longevity. One finding of note is that overexpression of telomerase extend...
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PMID: 20331443
PDF is available here.
Abstract
Among the notable trends seen in this year's highlights in mammalian aging research is an awakening of interest in the assessment of age-related measures of mouse health in addition to the traditional focus on longevity. One finding of note is that overexpression of telomerase extend...
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PMID: 20331443
PDF is available here.
Abstract
Among the notable trends seen in this year's highlights in mammalian aging research is an awakening of interest in the assessment of age-related measures of mouse health in addition to the traditional focus on longevity. One finding of note is that overexpression of telomerase extend...
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PMID: 20331443
PDF is available here.
Abstract
We have a clearer understanding of why some fitness-related traits are heritable and under selection, but are apparently not evolving. An exciting extension of this work is to identify the genes underlying phenotypic variation in natural populations. The advent of next-generation sequencing and high...
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PMID: 20444518
PDF is available here.
Dominic Schmidt,
Michael D Wilson,
Benoit Ballester,
Petra C Schwalie,
Gordon D Brown,
Aileen Marshall,
Claudia Kutter,
Stephen Watt,
Celia P Martinez-Jimenez,
Sarah Mackay,
Iannis Talianidis,
Paul Flicek and
Duncan T Odom
Abstract
We used chromatin immunoprecipitation with high-throughput sequencing (ChIP-seq) to determine experimentally the genome-wide occupancy of two TFs, CCAAT/enhancer-binding protein alpha and hepatocyte nuclear factor 4 alpha, in the livers of five vertebrates. Although each TF displays highly conserved...
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PMID: 20378774
PDF is available here.
Abstract
We report new insights into globin gene family evolution that were provided by a phylogenetic analysis of vertebrate globins combined with a comparative genomic analysis of three key sauropsid taxa: a squamate reptile (anole lizard, Anolis carolinensis), a passeriform bird (zebra finch, Taeniopygia...
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PMID: 20047955
PDF is available here.
Abstract
Genomic imprinting imposes an obligate mode of biparental reproduction in mammals. This phenomenon results from the monoparental expression of a subset of genes. This specific gene regulation mechanism affects viviparous mammals, especially eutherians, but also marsupials to a lesser extent. Oviparo...
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PMID: 20510148
PDF is available here.
Abstract
Gigantism is widespread among Palaeozoic arthropods, yet causal mechanisms, particularly the role of (abiotic) environmental factors versus (biotic) competition, remain unknown. The eurypterids (Arthropoda: Chelicerata) include the largest arthropods; gigantic predatory pterygotids (...
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PMID: 19828493
PDF is available here.
Abstract
Gigantism is widespread among Palaeozoic arthropods, yet causal mechanisms, particularly the role of (abiotic) environmental factors versus (biotic) competition, remain unknown. The eurypterids (Arthropoda: Chelicerata) include the largest arthropods; gigantic predatory pterygotids (...
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PMID: 19828493
PDF is available here.
Abstract
We quantified faunal turnover in the deep-sea benthos at a rarely examined scale (1 m-1 km). Macrofaunal community structure, megafaunal density, carbon flux, and sediment characteristics were analyzed for the soft-bottom benthos at the base of cliff faces in Monterey Canyon (northeast Pacific Ocean...
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PMID: 20462112
PDF is available here.
Abstract
We examine the spatial concordance in species richness among terrestrial vertebrates and vascular plants at two spatial grain sizes (local and regional) across China. We hypothesize that (H1) cross-taxon richness relationships are weaker at the local scale; (H2) climatic predictors of species richne...
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PMID: 20462131
PDF is available here.
Abstract
We estimated the effective gene pleiotropy for 321 vertebrate genes, and found that a gene typically affects 6-7 molecular phenotypes that correspond to the components of organismal fitness, respectively. The positive correlation of gene pleiotropy with the number of Gene Ontology biological process...
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PMID: 19637279
PDF is available here.
Abstract
During the evolution of the genus Homo, with regard to the species habilis, erectus and sapiens, malaria has played a key biological role in influencing human development. The plasmodia causing malaria have evolved in two ways, in biological and phylogenetic terms: Plasmodium vivax, Plasmodium malar...
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PMID: 20424529
PDF is available here.
Abstract
Vertebrates and insects have evolved complex repertoires of chemosensory receptors to detect and distinguish odours. With a few exceptions, vertebrate chemosensory receptors belong to the family of G protein-coupled receptors that initiate a cascade of cellular signalling events and...
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PMID: 20145624
PDF is available here.
Abstract
Biliary bile salt composition of 677 vertebrate species (103 fish, 130 reptiles, 271 birds, 173 mammals) was determined. Bile salts were of three types: C(27) bile alcohols, C(27) bile acids, or C(24) bile acids, with default hydroxylation at C-3 and C-7. C(27) bile alcohols dominated in early evolvi...
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PMID: 19638645
PDF is available here.
Abstract
We show that the mammalian (synapsid) and reptilian lineages show early in their evolutionary histories clear divergences in axial developmental plasticity, in terms of both regionalization and meristic change, with basal synapsids sharing the conserved axial configuration of crown mammals, and basa...
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PMID: 20080660
PDF is available here.
Abstract
The creatine kinase (CK) cDNA from the mandarin fish Siniperca chuatsi was cloned by RT-PCR and rapid amplification of cDNA ends (RACE) methods. The structural characteristics and phylogeny of this gene were analyzed. Sequence analysis revealed a 1586 bp cDNA sequence containing 92 bp 5'-untranslate...
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PMID: 20446457
PDF is available here.
Abstract
Vertebrates are the result of an ancient double duplication of the genome. A new study published in BMC Biology explores the selective retention of genes after this event, finding an extensive enrichment of signaling proteins and transcription factors. Analysis of their expression patterns, interact...
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PMID: 21144066
PDF is available here.
Abstract
We examined the expression pattern of AcP during the reproductive period of four species belonging to different vertebrate groups: Tilapia rendalli (Teleostei, Cichlidae), Dendropsophus minutus (Amphibia, Anura), Meriones unguiculatus (Mammalia, Rodentia), and Oryctolagus cuniculus (Mammalia, Lagomo...
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PMID: 20391346
PDF is available here.
Abstract
We report on our progressive gene order alignment approach, a and give a comparison to previous software and an analysis of 17 vertebrate genomes for conservation in gene order.CYNTENATOR has a runtime complexity of and a space complexity of with being the gene number in a genome. CYNTENATOR perform...
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PMID: 20126624
PDF is available here.
Abstract
Enterprises of whole genome sequencing together with information technology progress enable reconstruction of blood clotting evolution by bioinformatic methods. It together offers a base to conclude that the contact phase of vertebrate blood coagulation is evolutionary young and shaped merely before...
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PMID: 20499683
PDF is available here.
Abstract
Chordopoxviruses of the subfamily Chordopoxvirinae, family Poxviridae, infect vertebrates and consist of at least eight genera with broad host ranges. For most chordopoxviruses, the number of viral genes and their relative order are highly conserved in the central region. The GC content of chordopox...
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PMID: 19906902
PDF is available here.
Abstract
We conclude that non-mammalian vertebrates mainly carry type I (may have evolved a spacer different from mammalian isoforms), II and III NRG1s. The type IV NRG1 N-terminal CDSs can be identified from most of the mammalian genomes studied; however, the corresponding rodent sequences lack the start co...
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PMID: 19681757
PDF is available here.
Abstract
A defining characteristic of the brain is its remarkable capacity to undergo activity-dependent functional and morphological remodelling via mechanisms of plasticity that form the basis of our capacity to encode and retain memories. Today, it is generally accepted that one key neurob...
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PMID: 20950554
PDF is available here.
Abstract
The morphology and function of the seismo-sensory system of agnathans (Agnatha: Heterostraci) are analyzed. This system has been reconstructed in Cyathaspidiformes and Amphiaspidiformes. The seismo-sensory system of agnathans was compared with the lateral line system of fishes: the difference betwee...
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PMID: 20387381
PDF is available here.
Abstract
Principle trends in the evolution of brain associative centers are discussed. It is demonstrated that in various taxonomic groups the possibilities of adaptive changes, as far as the brain is concerned, go beyond the scope of biological, topographical, and dynamic coordinations, typical for other sc...
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PMID: 20387384
PDF is available here.
Abstract
Any cutaneous damage triggers a cascade of biological effects in the skin responsible for re-establishing skin integrity. Wound healing is a complex biological process inducing dermal remodelling leading at least to a visible scar, and sometimes to hypertrophic or keloid scars. Recent studies sugges...
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PMID: 20132781
PDF is available here.
Abstract
We hypothesize that the fusion of the three chordate linkage groups 3, 15 and 17 more than 800 MYA led to the ancestral vertebrate globin cluster during a geological period of increased atmospheric oxygen content....
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PMID: 20961401
PDF is available here.