Research Topics
| Jose CastresanaSummaryCountry: Spain Publications
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Detail Information
Publications
Is mammalian chromosomal evolution driven by regions of genome fragility?Aurora Ruiz-Herrera
Evolutionary Genomics Group, Department of Botany and Zoology, University of Stellenbosch, Private Bag X1, Matieland 7602, South Africa
Genome Biol 7:R115. 2006..As a consequence, the genome is a composite of fragile regions prone to reorganization that have been conserved in different lineages, and genomic tracts that do not exhibit the same levels of evolutionary plasticity...- Molecular dating of caprines using ancient DNA sequences of Myotragus balearicus, an extinct endemic Balearic mammalCarles Lalueza-Fox
Unitat de Biologia Evolutiva, Facultat de Ciencies de la Salut i de la Vida, Universitat Pompeu Fabra, Doctor Aiguader 80, 08003 Barcelona, Spain
BMC Evol Biol 5:70. 2005..35 Mya. Thus, the sequences of Myotragus could be very valuable for calibrating the mammalian mitochondrial DNA clock and, in particular, the tree of the Caprinae subfamily, to which Myotragus belongs... - Clustering of genes coding for DNA binding proteins in a region of atypical evolution of the human genomeJose Castresana
Centre de Regulacio Genomica CRG, Programme of Bioinformatics and Genomics, Passeig Maritim 37 49, 08003, Barcelona, Spain
J Mol Evol 59:72-9. 2004..It is likely that the overall high synonymous and intron rates in chromosome 19 are a by-product of the high GC content of this chromosome... - Topological variation in single-gene phylogenetic treesJose Castresana
Department of Physiology and Molecular Biodiversity, Institute of Molecular Biology of Barcelona, CSIC, 08034 Barcelona, Spain
Genome Biol 8:216. 2007.... - The K tree score: quantification of differences in the relative branch length and topology of phylogenetic treesVictor Soria Carrasco
Department of Physiology and Molecular Biodiversity, Institute of Molecular Biology of Barcelona, CSIC, Jordi Girona 18, 08034 Barcelona, Spain
Bioinformatics 23:2954-6. 2007..In a second example, we show how the K score allows the selection of orthologous genes by choosing those that better follow the overall shape of a given reference tree. AVAILABILITY: http://molevol.ibmb.csic.es/Ktreedist.html.. - On homology searches by protein Blast and the characterization of the age of genesM Mar Albà
Research Unit on Biomedical Informatics, Catalan Institution for Advanced and Research Studies, Institut Municipal d Investigacio Medica, Universitat Pompeu Fabra, Barcelona, Spain
BMC Evol Biol 7:53. 2007..Distinguishing between these two possible explanations would be of great importance for any studies dealing with the taxon distribution of proteins and the origin of novel genes... - Paleogenomics in a temperate environment: shotgun sequencing from an extinct Mediterranean caprineOscar Ramirez
Institute of Evolutionary Biology UPF CSIC, Barcelona, Spain
PLoS ONE 4:e5670. 2009..Despite being in an unfavourable thermal environment, which explains the low yield of endogenous sequences, our study demonstrates that it is possible to obtain genomic data from extinct species from temperate regions... - Novel intron markers to study the phylogeny of closely related mammalian speciesJavier Igea
Institute of Evolutionary Biology, CSIC UPF, Passeig Maritim de la Barceloneta 37, 08003 Barcelona, Spain
BMC Evol Biol 10:369. 2010..In addition, multilocus phylogenies can help in analyses of species delimitation, gene flow and genetic differentiation within species. However, few adequate markers are available for such studies... - Phylogenetic and ecological analysis of novel marine stramenopilesRamon Massana
Department de Biologia Marina i Oceanografia, Institut de Ciencies del Mar, CMIMA, CSIC, 08003 Barcelona, Catalonia, Spain
Appl Environ Microbiol 70:3528-34. 2004..Our study expands our knowledge on the phylogenetic diversity and distribution of novel marine stramenopiles and confirms that they are fundamental members of the marine eukaryotic picoplankton... - Improvement of phylogenies after removing divergent and ambiguously aligned blocks from protein sequence alignmentsGerard Talavera
Department of Physiology, Institute of Molecular Biology of Barcelona, Barcelona, Spain
Syst Biol 56:564-77. 2007..This indicates that divergent and problematic alignment regions may lead, when present, to apparently better supported although, in fact, more biased topologies... - Estimation of phylogenetic inconsistencies in the three domains of lifeVictor Soria-Carrasco
Department of Physiology and Molecular Biodiversity, Institute of Molecular Biology of Barcelona, CSIC, Barcelona, Spain
Mol Biol Evol 25:2319-29. 2008.... - Phylogenetic position of Salinibacter ruber based on concatenated protein alignmentsVictor Soria Carrasco
Department of Physiology and Molecular Biodiversity, Institute of Molecular Biology of Barcelona, CSIC, Jordi Girona 18, 08034 Barcelona, Spain
Syst Appl Microbiol 30:171-9. 2007..For classification purposes, 16S rRNA gene analysis may remain as the most pragmatic approach to infer genealogic relationships... - Inverse relationship between evolutionary rate and age of mammalian genesM Mar Albà
Research Group on Biomedical Informatics, Departament de Ciencies Experimentals i de la Salut, Universitat Pompeu Fabra, Barcelona, Spain
Mol Biol Evol 22:598-606. 2005.... - Genes on human chromosome 19 show extreme divergence from the mouse orthologs and a high GC contentJose Castresana
European Molecular Biology Laboratory EMBL, Biocomputing Unit, Meyerhofstrasse 1, D 69117 Heidelberg, Germany
Nucleic Acids Res 30:1751-6. 2002.... - Estimation of genetic distances from human and mouse intronsJose Castresana
European Molecular Biology Laboratory EMBL, Biocomputing Unit, Meyerhofstrasse 1, D 69117 Heidelberg, Germany
Genome Biol 3:RESEARCH0028. 2002..Exons constitute only 1% of the human genome, however, and thus they cannot provide a complete picture of the mutational variation in the genome...