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  • 1
    Electronic Resource
    Electronic Resource
    A method for determining the position and size of optimal sequence regions for phylogenetic analysis (1995)
    Springer
    Journal of molecular evolution 41 (1995), S. 1128-1138 
    Details
    ISSN: 1432-1432
    Keywords: Phylogeny ; Neighbor joining method ; Bootstrap ; Optimal size ; Optimal position ; Nonrandom sequence ; Information ; Foot-and-mouth disease virus
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology
    Notes: Abstract The availability of fast and accurate sequencing procedures along with the use of PCR has led to a proliferation of studies of variability at the molecular level in populations. Nevertheless, it is often impractical to examine long genomic stretches and a large number of individuals at the same time. In order to optimize this kind of study, we suggest a heuristic procedure for detection of the shortest region whose informational content can be considered sufficient for significant phylogenetic reconstruction. The method is based on the comparison of the pairwise genetic distances obtained from a set of sequences of reference to those obtained for different windows of variable size and position by means of a simple index. We also present an approach for testing whether the informative content in the stretches selected in this way is significantly different from the corresponding content shown by the larger genomic regions used as reference. Application of this test to the analysis of the VP1 protein gene of foot-and-mouth-disease type C virus allowed us to define optimal stretches whose informative content is not significantly different from that displayed by the complete VP1 sequence. We showed that the predictions made for type C sequences are valid for type O sequences, indicating that the results of the procedure are consistent.
    Type of Medium: Electronic Resource
    URL: http://dx.doi.org/10.1007/BF00173194
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  • 2
    Electronic Resource
    Electronic Resource
    Phylogenetic analysis of the thiolase family. Implications for the evolutionary origin of peroxisomes (1992)
    Springer
    Journal of molecular evolution 35 (1992), S. 147-155 
    Details
    ISSN: 1432-1432
    Keywords: Thiolase ; Peroxisome evolution ; Bootstrap analysis ; Saccharomyces cerevisiae
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology
    Notes: Summary The thiolase family is a widespread group of proteins present in prokaryotes and three cellular compartments of eukaryotes. This fact makes this family interesting in order to study the evolutionary process of eukaryotes. Using the sequence of peroxisomal thiolase from Saccharomyces cerevisiae recently obtained by us and the other known thiolase sequences, a phylogenetic analysis has been carried out. It shows that all these proteins derived from a primitive enzyme, present in the common ancestor of eubacteria and eukaryotes, which evolved into different specialized thiolases confined to various cell compartments. The evolutionary tree obtained is compatible with the endosymbiotic theory for the origin of peroxisomes.
    Type of Medium: Electronic Resource
    URL: http://dx.doi.org/10.1007/BF00183226
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    Paper (German National Licenses)
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  • 3
    Electronic Resource
    Electronic Resource
    Fixation of mutations at the VP1 gene of foot-and-mouth disease virus. Can quasispecies define a transient molecular clock?
    Amsterdam : Elsevier
    Gene 103 (1991), S. 147-153 
    Details
    ISSN: 0378-1119
    Keywords: RNA heterogeneity ; epizootic ; genetic distance ; molecular epidemiology ; viral evolution
    Source: Elsevier Journal Backfiles on ScienceDirect 1907 - 2002
    Topics: Biology
    Type of Medium: Electronic Resource
    URL: http://linkinghub.elsevier.com/retrieve/pii/0378-1119(91)90267-F
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  • 4
    Electronic Resource
    Electronic Resource
    Immunogenicity of non-structural proteins of foot-and-mouth disease virus: differences between infected and vaccinated swine (1994)
    Springer
    Archives of virology 136 (1994), S. 123-131 
    Details
    ISSN: 1432-8798
    Source: Springer Online Journal Archives 1860-2000
    Topics: Medicine
    Notes: Summary Non-structural as well as VP1 recombinant proteins of foot-and-mouth disease virus (FMDV) produced inE. coli, have been used to study the specific antibody response of infected or vaccinated swine. An analysis of sera from infected pigs, using a direct ELISA, showed that polypeptide 3ABC (spanning non-structural proteins 3A, 3B and 3C) was the most antigenic among the recombinant proteins studied and allowed specific detection of FMDV infected swine from the second week after the infection. The sensitivity of this assay was comparable to that obtained when the whole FMDV was used as ELISA antigen. Conversely, use of polypeptide 3ABC did not allow detection of significant levels of antibodies in sera from vaccinated animals. This differential pattern of ELISA reactivities offers a promising approach for the distinction of infected from vaccinated pigs. In addition, a highly specific and sensitive method of diagnosis for FMDV replication was achieved using an immunoblotting assay which detected antibodies against the 3ABC polypeptide.
    Type of Medium: Electronic Resource
    URL: http://dx.doi.org/10.1007/BF01538822
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    Paper (German National Licenses)
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  • 5
    Electronic Resource
    Electronic Resource
    A strain-type clustering of potato virus Y based on the genetic distance between isolates calculated by RFLP analysis of the amplified coat protein gene (1996)
    Springer
    Archives of virology 141 (1996), S. 2425-2442 
    Details
    ISSN: 1432-8798
    Source: Springer Online Journal Archives 1860-2000
    Topics: Medicine
    Notes: Summary Potato virus Y (PVY) isolates have been classified into genetic strains by a host-independent criterion using a molecular typing method. The method used extracts from infected tissue, and included immunocapture-RT-PCR-RFLP analysis using 5 different restriction endonucleases (Dde I,Eco RV,Hinf I,Rsa I andTaq I). Genetic distances between the different PVY “restrictotypes” were calculated and used to define the PVY genetic strains. Three main clusters were found: PVYO, PVYN, and non-potato PVY (PVYNP), in good agreement with classical PVY strain definitions that combine different biological criteria. Our approach was incomparably quicker and more reliable and reproducible than biotyping. The potential of this approach for very quick, simple and automatable molecular epidemiological studies is discussed.
    Type of Medium: Electronic Resource
    URL: http://dx.doi.org/10.1007/BF01718641
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    Paper (German National Licenses)
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  • 6
    Electronic Resource
    Electronic Resource
    Sequence analysis of HIV-1vif gene in Spanish isolates (1995)
    Springer
    Virus genes 9 (1995), S. 283-288 
    Details
    ISSN: 1572-994X
    Keywords: HIV-1 ; Vif ; nucleotide sequence ; variability
    Source: Springer Online Journal Archives 1860-2000
    Topics: Medicine
    Notes: Abstract We have determined the nucleotide sequence of the HIV-1vif gene in viruses obtained from symptomatic patients of distinct risk groups in Madrid. The genetic diversity among the isolates was estimated in 4.6% (±1.4 standard deviation), a similar value to that obtained for thegag gene 3.9% (±0.8 standard deviation) andenv 4.1% (±1 standard deviation) (Rojas et al., Virus Res31, 331–342, 1994). Amino acid sequence analysis revealed the presence of hypermutable residues at positions 101 and 167, close to antigenically relevant sequential epitopes (comprising amino acids 87–94 and 172–178). Phylogenetic analysis supports the existence of two virus lineages circulating preferentially within different risk groups.
    Type of Medium: Electronic Resource
    URL: http://dx.doi.org/10.1007/BF01702884
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    Paper (German National Licenses)
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