Self peptides bound by HLA class I molecules are derived from highly conserved regions of a set of evolutionarily conserved proteins

An evolutionary analysis of self peptides reported to be bound by HLA class I molecules showed that these peptides are largely derived from proteins that have been highly conserved in the history of mammals. These proteins also often have universal tissue expression and have a higher than average frequency of highly hydrophilic residues. The peptides themselves are generally still more highly conserved than the source proteins and have a higher frequency of highly hydrophobic residues, evidently often derived from conserved hydrophobic cores of the source proteins. These results suggest that the mechanism by which peptides are derived for MHC presentation may preferentially select peptides from conserved protein regions. In the case of parasite-derived peptides, such a mechanism would be adaptive in that it would reduce the likelihood of escape mutants.     

Watching tubules glow and branch

Branching morphogenesis is an important mechanism of animal development yet, until recently, most details about this highly dynamic process have had to be inferred from fixed tissues. Several groups have now developed transgenic animals in which branching tubules express fluorescent proteins, enabling their morphogenesis to be studied dynamically using time-lapse microscopy. The results have shown that branch emergence is highly variable, that sprouting tracheae and blood vessels guide themselves by filopodial projections, that branching morphogenesis can involve highly ordered cell rearrangements, and that branches are subject to intense remodelling. Though they are very new, these fluorescent systems have already expanded our knowledge of branching morphogenesis; future work, in which fluorescence might be used to report processes in addition to anatomy, promises an even greater advance.     

The correlation of energy-consuming and energy-synthesizing reactions in rat hepatocytes in different O2-deficient states]

It is shown that rat liver cells have different sensitivity to oxygen deficiency. Hepatocytes of highly resistant animals have higher viability and maintain higher ATP levels during acute hypoxia. The data obtained enable us to suppose that liver cells of highly resistant rats are more resistant to oxygen deficiency than nonresistant ones.     

Newly evolved highly repeated DNA sequences ofTupaia glis (Tupaiidae,Scandentia)

We have studied highly repeated DNA sequences ofTupaia glis (Tupaiidae, Scandentia) with restriction endonucleases and Southern blotting techniques. Five highly repeated DNA fragments have been isolated fromT. glis and hybridized with genomic DNAs (cleaved by different restriction enzymes) of several non-human primate species and one insectivore (E. europaeus), in order to highlight eventual differences or similarities of their highly repeated DNA sequences. Our first preliminary findings suggest that the newly isolated highly repeated DNA fragments ofT. glis are distinct from both non-human primates and insectivore, the two taxonomic groups considered most similar to the Tupaiidae.     

A novel source of highly specific chromosome painting probes for human karyotype analysis derived from primate homologues

We have established a series of highly specific painting probes for human acrocentric chromosomes. These chromosomes are involved in the formation of the nucleolar organizer region (NOR) and show DNA sequence homologies within their pericentric heterochromatin. To date, these chromosomes have shown considerable cross hybridization in chromosome painting experiments. Our probe set has been established from primate homologues that are not involved in the NOR in that particular species or from species in which highly repetitive sequences have undergone rapid sequence divergence. The new painting probes should be of particular value for automated microscopy, for which highly specific signals are required as they are recorded at low magnification, e.g. when scoring chromosome 21 domains in interphase nuclei. Received: 22 May 1997 / Accepted: 16 June 1997     

Inhalation chambers for air ion research

Many previous problems in establishing the nature of biological and behavioral effects of small air ions have been due to poor control over the ion-inhalation microclimate, resulting in nonuniform electrical fields and highly uneven concentrations of small air ions. We have developed a corona discharge air ion-inhalation system for use with animals that incorporates rigorous control over the microclimate and produces highly uniform concentrations of small air ions throughout the exposure area.     

Integration of biomolecules and nanomaterials: towards highly selective and sensitive biosensors

Significant efforts have been made toward the development of high-performance biosensors for various applications. Advances in nanotechnology have resulted in the development of highly sensitive electrochemical sensing devices. It is believed that highly sensitive and selective biosensors can be realized through the integration of biomolecules and nanomaterial-based sensor platforms. Numerous articles have described combining biomolecules as recognition elements with nanotechnology for the development of biosensors with enhanced selectivity and sensitivity. Recent advances in the development of biosensors through the integration of biomolecules with nanotechnology are reviewed in this article.     

Codon Usage in Plastid Genes Is Correlated with Context, Position Within the Gene, and Amino Acid Content

Highly expressed plastid genes display codon adaptation, which is defined as a bias toward a set of codons which are complementary to abundant tRNAs. This type of adaptation is similar to what is observed in highly expressed Escherichia coli genes and is probably the result of selection to increase translation efficiency. In the current work, the codon adaptation of plastid genes is studied with regard to three specific features that have been observed in E. coli and which may influence translation efficiency. These features are (1) a relatively low codon adaptation at the 5′ end of highly expressed genes, (2) an influence of neighboring codons on codon usage at a particular site (codon context), and (3) a correlation between the level of codon adaptation of a gene and its amino acid content. All three features are found in plastid genes. First, highly expressed plastid genes have a noticeable decrease in codon adaptation over the first 10–20 codons. Second, for the twofold degenerate NNY codon groups, highly expressed genes have an overall bias toward the NNC codon, but this is not observed when the 3′ neighboring base is a G. At these sites highly expressed genes are biased toward NNT instead of NNC. Third, plastid genes that have higher codon adaptations also tend to have an increased usage of amino acids with a high G + C content at the first two codon positions and GNN codons in particular. The correlation between codon adaptation and amino acid content exists separately for both cytosolic and membrane proteins and is not related to any obvious functional property. It is suggested that at certain sites selection discriminates between nonsynonymous codons based on translational, not functional, differences, with the result that the amino acid sequence of highly expressed proteins is partially influenced by selection for increased translation efficiency. Received: 21 July 1999 / Accepted: 5 November 1999     

Conformations of satellite DNAs.

X-ray fiber diffraction studies of satellite DNAs from Gecarcinus lateralis, Drosophila virilis and Mus musculus, all of which have highly repetitious base sequences but with different degrees of sequence complexity, reveal only classical polynucleotide duplex structures in contrast to some highly repetitious synthetic DNAs.     

Restriction endonuclease and molecular analyses of three rat genomes with special reference to chromosome rearrangement and speciation problems

When differences are found between related species of organisms, it is often assumed that the differences themselves are causal factors either in speciation itself or in processes related to speciation. Two recent proposals on the functions of satellite DNA (Hatch et al., 1976 and Fry and Salser, 1977) are that (a) large amounts of satellite DNA are important in facilitating chromosome rearrangements and hence cytogenetic evolution, and (b) satellite DNA differences between homologous chromosomes lead to pairing difficulties and are important in generating infertility barriers and hence speciation. If these proposals were to have some generality, one could expect organisms with very low amounts of highly repeated DNA to exhibit few chromosome rearrangements and to be evolutionarily conservative in a cyto-genetic sense. — We have chosen two very closely related species of rat which are phenotypically almost indistinguishable and which have undergone massive genome reorganization. They differ by 11 major centric rearrangements (2n=32, 2n=50). We have characterised their genomes by restriction endonuclease digestions, thermal denaturations, analytical ultracentrifugations and reassociation techniques, and have found that they have virtually no highly repeated DNA. Thus the 11 major chromosomal rearrangements have been fixed in present day genomes with hardly any highly repeated DNA, centric or otherwise. — It appears therefore that a large amount of highly repeated DNA is not obligatory for the formation and fixation of chromosome rearrangements. In addition, the existing literature reveals that one can find almost any situation at all, from species groups with high amounts of satellite DNA and no gross chromosomal rearrangements, to ones such as those described here, with tiny amounts of highly repeated DNA and massive chromosomal reorganisation. Since direct experimental data indicates that satellite DNA differences per se between homologous chromosomes do not cause infertility, speculations concerning modes of speciation based on satellite DNA differences between otherwise homologous chromosomes would appear to be ill founded.     

用分子遗传学及免疫学方法控制鱼类寄生性甲藻

寄生性甲藻,例如Amyloodiniumocellatum,给鱼类养殖带来严重的危害。虽然,近年来针对Amyloodinium的药物治疗有一些新的进展,如使用氯喹、过氧化氢和3,N泛影葡胺拉沙洛西等,然而,含铜类药物仍然是最有效的。近年来分子遗传学和免疫学的进展,使得我们能够更好地了解寄生性甲藻的流行病学及其防治方法。分子系统学研究认为某些寄生性甲藻,如Amyloodiniumocellatum,可以聚类为高度同源性的一支;而其它的如Piscinoodiniumpillulare,则可以认为不止一种或更高的分类阶元。这些分子分析也发展出一些高灵敏的检测技术,可以检测出环境中极少量的寄生性甲藻。通过对Amyloodinium的免疫学研究表明,鱼类能对寄生物的感染产生强烈的高度特异的保护性免疫应答,其中主要是抗体介导的免疫应答。鱼体皮肤和鳃也能表达内源非特异性多肽抗生素(类组蛋白),它们能对Amyloodinium造成致命的破坏。利用这些特异或非特异的免疫防御,将更有助于我们控制这些具有严重危害性的寄生性甲藻     

On the pleiotropic structure of the genotype-phenotype map and the evolvability of complex organisms

Analyses of effects of mutants on many traits have enabled estimates to be obtained of the magnitude of pleiotropy, and in reviews of such data others have concluded that the degree of pleiotropy is highly restricted, with implications on the evolvability of complex organisms. We show that these conclusions are highly dependent on statistical assumptions, for example significance levels. We analyze models with pleiotropic effects on all traits at all loci but by variable amounts, considering distributions of numbers of traits declared significant, overall pleiotropic effects, and extent of apparent modularity of effects. We demonstrate that these highly pleiotropic models can give results similar to those obtained in analyses of experimental data and that conclusions on limits to evolvability through pleiotropy are not robust.     

Oxyguanidines: application to non-peptidic phenyl-based thrombin inhibitors

Although thrombin has been extensively researched with many examples of potent and selective inhibitors, the key characteristics of oral bioavailability and long half-life have been elusive. We report here a novel series non-peptidic phenyl-based, highly potent, highly selective and orally bioavailable thrombin inhibitors using oxyguanidines as guanidine-mimetics.     

抗肿瘤基因工程单链抗体导向药物研究进展

过去30年肿瘤治疗取得了极大的进步,基因工程技术推动了肿瘤免疫治疗的发展,以基因工程为基础的单链抗体导向药物成为肿瘤免疫治疗的新热点,其用于治疗肿瘤的药物研究取得了重大进展。研究表明,基因工程单链抗体导向药物能特异性结合肿瘤相关靶点,对肿瘤细胞有选择性的杀伤作用,并在动物实验中有显著的疗效。基因工程单链抗体导向药物在肿瘤治疗中将发挥重要作用,具有广阔的应用前景。综述了这一领域的发展,并对其前景进行了预测。     

Teichoic acids and related cell-wall glycopolymers in Gram-positive physiology and host interactions

Most Gram-positive bacteria incorporate membrane- or peptidoglycan-attached carbohydrate-based polymers into their cell envelopes. Such cell-wall glycopolymers (CWGs) often have highly variable structures and have crucial roles in protecting, connecting and controlling the major envelope constituents. Further important roles of CWGs in host-cell adhesion, inflammation and immune activation have also been described in recent years. Identifying and harnessing highly conserved or species-specific structural features of CWGs offers excellent opportunities for developing new antibiotics, vaccines and diagnostics for use in the fight against severe infectious diseases, such as sepsis, pneumonia, anthrax and tuberculosis.     

Hydrophobicity, expressivity and aromaticity are the major trends of amino-acid usage in 999 Escherichia coli chromosome-encoded genes.

Multivariate analysis of the amino-acid compositions of 999 chromosome-encoded proteins from Escherichia coli showed that three main factors influence the variability of amino-acid composition. The first factor was correlated with the global hydrophobicity of proteins, and it discriminated integral membrane proteins from the others. The second factor was correlated with gene expressivity, showing a bias in highly expressed genes towards amino-acids having abundant major tRNAs. Just as highly expressed genes have reduced codon diversity in protein coding sequences, so do they have a reduced diversity of amino-acid choice. This showed that translational constraints are important enough to affect the global amino-acid composition of proteins. The third factor was correlated with the aromaticity of proteins, showing that aromatic amino-acid content is highly variable.     

Plants have a sensitive perception system for the most conserved domain of bacterial flagellin

The flagellum is an important virulence factor for bacteria pathogenic to animals and plants. Here we demonstrate that plants have a highly sensitive chemoperception system for eubacterial flagellins, specifically targeted to the most highly conserved domain within its N terminus. Synthetic peptides comprising 15-22 amino acids of this domain acted as elicitors of defence responses at sub-nanomolar concentrations in cells of tomato and several other plant species. Peptides comprising only the central 8 to 11 amino acids of the active domain had no elicitor activity but acted as specific, competitive inhibitors in tomato cells. These antagonists suppressed the plant's response to flagellin, crude bacterial extracts and living bacterial cells. Thus, plants have a highly sensitive and selective perception system for the flagellin of motile eubacteria.