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Basic facts about SARS are presented, including epidemiology, clinical symptoms and the course of disease, multinational search of etiological factor, diagnostic approaches and others. The role of molecular biology in elucidating structure, features and phylogenetic aspects of SARS coronavirus is underlined.
Development and formation of neuronal architectonic of organotypic structures of sensomotor cortex of 7-8-day-old rats was studied in roller cultures. Free-floating cortical slices were cultured for 2-3 weeks. Serial paraffin sections of cultured tissue were stained with cresyl violet fast using Nissl's method. It was shown that during cultivation cortical slices changed their initial flat configuration and transformed into spherical bodies that retained main histiotypic features of cortical formations. Radially oriented pyramidal and fusiform neurons formed cortical structure that was not subdivided into individual layers and covered the whole surface of spherical tissue bodies. It is concluded that histogenetical processes were continuing in free-floating slices of sensomotor cortex of 7-8-day-old rats during roller cultivation. They result in formation of histiotypic cortical structure similar to phylogenetically more ancient allocortical formations of the forebrain.
Comparative analysis of levels of the allozymic variation in the vertebrates is conducted using evaluation of a) within population heterozygosity of ferment coding homologous loci, b) average (per each species) allele frequencies of homologous loci, and c) overall sample of the loci being analyzed. It is established that amphibians and reptiles are characterized by the highest, birds and mammals--by the lowest, and fishes--by the middle level of genetic diversity. The diversity of genetic systems, if the constant heterozygosity of duplicated loci is taken into consideration, decreases from fishes to mammals and from cold-blooded to warm-blooded vertebrates. This tendency could be considered as an extrapolation of the "progressive specialization" rule on molecular level. Three basic factors determining certain level of genetic diversity of a species are acknowledged position in the phylogenetic system, population structure, and level of introgressive hybridization. From methodological viewpoint, evaluation of the genetic diversity by homologous loci seems to be most valid in comparative studies.
BACKGROUND: To study the polymorphism of human cytomegalovirus US28 gene in children and investigate the relationship between the polymorphism and pathogenesis. METHODS: The FQ-PCR was carried out to determine the DNA quantity of clinical isolate and then the segmental PCR and HMA-SSCP were performed to test the mutation of US28 gene. The typical isolates from different diseases were selected to clone and sequence, then the results were analyzed. RESULTS: The nucleic acid mutation is frequent among the sequence of US28, those mutations focus on the two ends of US28, but most of them are sense mutation. The important functional groups of US28 are highly conserved. The amino acid mutation of some isolates resulted in the change of secondary structure, but the phylogenetic tree analysis did not show any clear association between the pathogenesis and the distribution of clinical isolates. The comparison of US28 sequences from AIDS patients with the sequences from children in our study showed that both sequences have their own specific high mutation points. CONCLUSION: There is polymorphism among the HCMV-US28 gene of clinical isolates from children. There observed no clear relationship was between the pathogenesis and the distribution of clinical isolates.
The experiments on white rats have shown that animals with distinct tolerance to hypoxia were characterized by individual metabolic changes in phylogenetically different brain structures. Adaptation to hypoxia in animals with high tolerance was associated with metabolic changes in the reticular formation and in animals with low tolerance with changes in the cerebral cortex. The experiments have shown that white rats with distinct individual tolerance to hypoxia are characterized by an inherent level of plastic metabolism in different brain structures. A correlation between brain tissue metabolism and individual tolerance of animals to hypoxia is suggested.
In this introductory paper, the authors review the macromolecular basis of extracellular matrix. 4 principal groups of macromolecules are known: collagen, elastin, proteoglycans and structural glycoproteins. The phylogenetic evolution lead to the great complexity of this matrix. The interest of a more specific pharmacology directed towards this extracellular matrix is emphasised.
The complete amino acid sequence of the macaque proline-rich phosphoglycoprotein (MPRP) was determined by automated Edman degradation of the protein, fragments F-1 and F-2 derived from the protein by an intrinsic salivary protease, and chymotryptic, tryptic, Staphylococcus aureus V8 protease, and endoproteinase lysine-C peptides. MPRP contains 115 amino acid residues including phosphorylated serine at residues 1, 2, 6, 12, and 15, and 6 O-glycosidic carbohydrate units at residues 69, 75, 87 (threonine) and 96, 103, and 106 (serine). The Mr of the polypeptide moiety of the protein is 12,656. The amino-terminal domain contains all 5 phosphoserine residues and most of the other negatively charged and hydrophilic residues, whereas the carboxyl-terminal domain contains 24 of 25 proline residues, and 6 O-glycosidic oligosaccharides. Comparison of MPRP with the four major anionic proline-rich proteins (PRPs) from human glandular secretion shows that 57% of the amino acid residues are identical if gaps are introduced to maximize homology, suggesting that these proteins are phylogenetically related. Significant structural and functional differences occur between the macaque and human proteins. MPRP has 5 phosphoserines, PRPs have 2. MPRP is a glycoprotein, PRPs are not. MPRP inhibits the spontaneous precipitation (primary precipitation) of calcium phosphate salts from supersaturated solutions in addition to inhibiting seeded crystal growth (secondary precipitation) (Oppenheim, F. G., Offner, G. D., and Troxler, R. F. (1982) J. Biol. Chem. 257, 9271-9282), whereas PRPs inhibit only secondary precipitation. MPRP is the only major anionic proline-rich protein in macaque glandular secretion; in contrast, there are four major anionic PRPs and these display a genetic polymorphism. The significance of these structural differences with respect to biological function and the possible relationship of MPRP to salivary mucins are discussed.
Cytoarchitectonics of the lateral tuberal nucleus--a phylogenetically new hypothalamic structure--was investigated using morphometric methods. The most characteristic feature of the human lateral tuberal nucleus is an extremely great variability of its shape and segmentation. The lateral tuberal nucleus consists mostly of several separated neuronal groups; in each brain the arrangement of these groups is different. In macaca the lateral tuberal nucleus is a single elongated neuronal structure much less variable than in man. The human LTN is approximately ten times larger than that in macaca, but the number of neurons is only about four times higher due to a lower neuronal density. The lateral tuberal nucleus both of man and macaca is a homogenous neuronal population with a very low coefficient of variability of cross-section neuronal area (30% and 24% respectively). The size of neuronal bodies in the lateral tuberal nucleus is about 42% smaller in macaca than in man. However, the size of neuronal nuclei is slightly (15%) bigger and the nucleus/cell body area ratio is about twice as high in macaca as that in man (40% and 21% respectively).
In the past, most researchers used a single technique for identification of cryptic taxa, population structures, biosystematics, and phylogenetic studies. Our experience with the Anopheles quadrimaculatus complex shows the importance of using several methods on individual mosquitoes. This approach consists of analysis of the polytene chromosomes in ovarian nurse cells, gas chromatographic profiles of cuticular hydrocarbons, isozyme electrophoresis, and restriction site analysis of mitochondrial or genomic DNA. We recommend use of this multiple-technique approach when analyzing feral populations for the first time, or for correlating information obtained by investigators using different techniques.
Superficial and deep veins have different evolutions, structures and functions. Phylogenetically, superficial veins of limbs appear before the deep ones. In mammals other than man, both anatomical and histological abnormalities of superficial and deep veins have been noticed. In phlebology, the date of the first appearance of these veins was examined, from the infantile age to the age of 60 in 2,259 patients. Incomplete truncal varicose veins or an excess of certain perforating veins were found in 13.9% cases among children of school age. In 71.0% cases, these defects had a hereditary origin.
Release of HCN from cyanogenic glycosides is due to the cleavage of the carbohydrate moiety by beta-glucosidases to yield the corresponding alpha-hydroxynitrile, which dissociates spontaneously into HCN and a carbonyl compound, or by action of an alpha-hydroxynitrile lyase (HNL). A short review of the regulation of the catabolism of cyanogenic glycosides during cyanogenesis and germination of cyanogenic plants is given. The major biochemical properties of HNLs purified from various species of higher plants are summarized. Thereafter the phylogenetic relationship, molecular structure and catalytic mechanism of these enzymes are discussed. Finally we give an overview of recent progress in the use of HNLs as biocatalysts for the synthesis of optically active alpha-hydroxynitriles which are important building blocks in the fine chemical and pharmaceutical industries.
According to the modern affect theory, the human being is equipped from birth with a number of affect programmes which can be activated both by internal and external signals and by the memory. According to theory, facial expressions constitute an important component of the affect programme. Research findings suggest the human being to be biologically programmed both to send and receive communications via facial expressions. Emotional communication seems to occur at an unconscious level, and to precede conscious information processing. There is scientific evidence that the emotional components of information processing are faster and occur in phylogenetically older brain structures. The right hemisphere appears to be more closely related than the left hemisphere to the autonomic nervous system, and thus more intimately linked with the physiological and automatic components of the emotions. Modern psychodynamic theory, in which emotion and unconscious processes are seen as human driving forces, derives scientific support from emotion research based both upon experimental psychology and neuroscience.
To investigate the phylogenetic relationships and geographical structure among landlocked populations of the black mudfish, Neochanna diversus, mitochondrial DNA nucleotide sequence data were sampled from seven populations from the Waikato and Northland regions of New Zealand. The complete D-loop region was sequenced from 70 individuals, with 913 bp from the tRNA-pro end used in population and phylogenetic analysis. A tandem repeat array, which ranged in size up to 200 bp, was found in most populations at the 3' end of the D-loop that was not able to be aligned for analysis. Of the seven sites sampled, two from Northland exhibited significant sequence divergence from all other sites. There was also a clear distinction among remaining Northland sites and those from the Waikato. An additional 518 bp segment of the 16S region was sequenced from all sites and compared with the other New Zealand mudfish species, N. apoda, N. burrowsius and the Tasmanian mudfish Galaxias (Neochanna) cleaveri using Galaxias maculatus as an outgroup. Both D-loop and 16S sequence data provided strong evidence for a cryptic species of mudfish present in Northland. The significant genetic structure apparent in the black mudfish appears most probably to be attributed to geological conditions during the Pliocene, where peat wetlands became apparent in the Waikato while Northland consisted of disjunct 'islands'. Conservation and management of these populations must take into account the historical processes that have shaped these patterns of genetic diversity.
BACKGROUND: Comparative analysis of RNA sequences is the basis for the detailed and accurate predictions of RNA structure and the determination of phylogenetic relationships for organisms that span the entire phylogenetic tree. Underlying these accomplishments are very large, well-organized, and processed collections of RNA sequences. This data, starting with the sequences organized into a database management system and aligned to reveal their higher-order structure, and patterns of conservation and variation for organisms that span the phylogenetic tree, has been collected and analyzed. This type of information can be fundamental for and have an influence on the study of phylogenetic relationships, RNA structure, and the melding of these two fields. RESULTS: We have prepared a large web site that disseminates our comparative sequence and structure models and data. The four major types of comparative information and systems available for the three ribosomal RNAs (5S, 16S, and 23S rRNA), transfer RNA (tRNA), and two of the catalytic intron RNAs (group I and group II) are: (1) Current Comparative Structure Models; (2) Nucleotide Frequency and Conservation Information; (3) Sequence and Structure Data; and (4) Data Access Systems. CONCLUSIONS: This online RNA sequence and structure information, the result of extensive analysis, interpretation, data collection, and computer program and web development, is accessible at our Comparative RNA Web (CRW) Site http://www.rna.icmb.utexas.edu. In the future, more data and information will be added to these existing categories, new categories will be developed, and additional RNAs will be studied and presented at the CRW Site.
Phylogenetic comparative analyses of RNase P RNA-encoding gene sequences from Chlorobium limicola, Chlorobium tepidum, Bacteroides thetaiotaomicron, and Flavobacterium yabuuchiae refine the secondary structure model of the general (eu)bacterial RNase P RNA and show that a highly conserved feature of that RNA is not essential. Two helices, comprised of 2 base pairs each, are added to the secondary structure model and form part of a cruciform in the RNA. Novel sequence variations in the B. thetaiotaomicron and F. yabuuchiae RNA indicate the likelihood that all secondary structure resulting from canonical base-pairing has been detected: there are no remaining unpaired, contiguous, canonical complementarities in the structure model common to all bacterial RNase P RNAs. A nomenclature for the elements of the completed secondary structure model is proposed. The Chlorobium RNase P RNAs lack a stem-loop structure that is otherwise universally present and highly conserved in structure in other (eu)bacterial RNase P RNAs. The Chlorobium RNAs are nevertheless catalytic, with kinetic properties similar to those of RNase P RNAs of Escherichia coli and other Bacteria. Removal of this stem-loop structure from the E. coli RNA affects neither its affinity for nor its catalytic rate for cleavage of a precursor transfer RNA substrate. These results show that this structural element does not play a direct role in substrate binding or catalysis.
The database on small ribosomal subunit RNA structure contained 1804 nucleotide sequences on April 23, 1993. This number comprises 365 eukaryotic, 65 archaeal, 1260 bacterial, 30 plastidial, and 84 mitochondrial sequences. These are stored in the form of an alignment in order to facilitate the use of the database as input for comparative studies on higher-order structure and for reconstruction of phylogenetic trees. The elements of the postulated secondary structure for each molecule are indicated by special symbols. The database is available on-line directly from the authors by ftp and can also be obtained from the EMBL nucleotide sequence library by electronic mail, ftp, and on CD ROM disk.
Caliciviridae and Picornaviridae belong to the same subphylum and genera within Picornaviridae are well characterized. Until 1998, Caliciviridae included one genus Calicivirus, containing strains with distinct structural and genomic features. Phylogenetic analyses of capsid genes revealed five clusters within Caliciviridae corresponding to differences in genome organization. In order to determine to what taxonomic level these clusters correspond, genomic sequences of caliciviruses, picornavirus prototypes, and two togavirus strains were analyzed. Distance and maximum likelihood methods were used to estimate the phylogenetic relationships among strains. Analysis of the capsid gene revealed separation of five main clusters (Norwalk-like, and Sapporo-like human caliciviruses, hepatitis E virus, vesicular exanthem of swine-like, and lapine caliciviruses) and distances corresponding to those observed among picornavirus genera. Utilizing more conserved (presumed helicase and polymerase) regions for the analyses, only major groups of caliciviruses were separated with confidence, with distances also comparable to those separating picornavirus genera. Analysis in these regions that included togavirus sequences moved HEV strains out of the calicivirus cluster. Our findings support the reclassification of caliciviruses into four genera. The phylogenetic position of hepatitis E virus, by analysis of non-structural genes, is outside of the caliciviruses, in an uncertain taxonomic position.
Matrix (M) and nonstructural (NS) genes of thirteen equine H3N8 and H7N7 influenza viruses were sequenced and analyzed from an evolutionary point of view. The M and NS genes of H3N8 viruses isolated between 1989 and 1993 evolved into two minor branch clusters, including isolates from Europe and the American continent, respectively. It was noteworthy to reveal that the nucleotide sequences of the M and NS genes of an earlier American strain showed highest homology to those of recent European viruses. "Frozen evolution" was observed in the M and NS genes of A/eq/LaPlata/1/88. It was also evident that the NS gene of an H7N7 virus from 1977 was very similar to that of a 1979-H3N8 virus, while the M gene was closest phylogenetically to that of the earliest H7N7 virus isolated in 1956. Furthermore, the M2 protein of A/eq/Newmarket/1/77 virus contained a carboxyl terminal deletion of three amino acids. The evolutionary rates of the M and NS genes of H3N8 equine influenza viruses were estimated to be 5.4 x 10(-4) and 5.1 x 10(-4) substitutions per site per year, respectively, which were slower than those of human viruses.