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Trends in Microbiology, 2011
Phylogenomics is aimed at studying functional and evolutionary aspects of genome biology using phylogenetic analysis of whole genomes. Current approaches to genome phylogenies are commonly founded in terms of phylogenetic trees. However, several evolutionary processes are non tree-like in nature, including recombination and lateral gene transfer (LGT).
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Phylogenomics is aimed at studying functional and evolutionary aspects of genome biology using phylogenetic analysis of whole genomes. Current approaches to genome phylogenies are commonly founded in terms of phylogenetic trees. However, several evolutionary processes are non tree-like in nature, including recombination and lateral gene transfer (LGT).
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Phylogenomic analysis of chromoviruses
Cytogenetic and Genome Research, 2005Genome sequences of model organisms provide a unique opportunity to obtain insight into the complete diversity of any transposable element (TE) group. A limited number of chromoviruses, the chromodomain containing genus of Metaviridae, is known from plant, fungal and vertebrate genomes.
B, Gorinsek, F, Gubensek, D, Kordis
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Phylogenomics of the Liquorilactobacillus Genus
Current Microbiology, 2023The genus Liquorilactobacillus is a new genus commonly found in wine and plants. Despite its significance, previous studies on Liquorilactobacillus are primarily focused on phenotypic experiments, with limited genome-level studies. This study used comparative genomics to analyze 24 genomes from the genus Liquorilactobacillus, including two novel ...
Xu, Liu +4 more
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Defining coalescent genes: Theory meets practice in organelle phylogenomics.
Systematic Biology, 2021The species tree paradigm that dominates current molecular systematic practice infers species trees from collections of sequences under assumptions of the multispecies coalescent (MSC), i.e., that there is free recombination between the sequences and no (
J. Doyle
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Phylogenomics of the nucleosome
Nature Structural & Molecular Biology, 2003Histones are best known as the architectural proteins that package the DNA of eukaryotic organisms, forming octameric nucleosome cores that the double helix wraps tightly around. Although histones have traditionally been viewed as slowly evolving scaffold proteins that lack diversification beyond their abundant tail modifications, recent studies have ...
Harmit S, Malik, Steven, Henikoff
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Phylogenomics of African guenons
Chromosome Research, 2008The karyotypes of 28 specimens belonging to 26 species of Cercopithecinae have been compared with each other and with human karyotype by chromosome banding and, for some of them, by Zoo-FISH (human painting probes) techniques. The study includes the first description of the karyotypes of four species and a synonym of Cercopithecus nictitans.
Sibyle, Moulin +3 more
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2021
Supporting sequence and alignment data for the publication Gagnon E, Hilgenhof R, Orejuela A, McDonnell A, Sablok G, Aubriot X, Giacomin L, Gouv a Y, Bragonis T, Stehmann JR, Bohs L, Dodsworth S, Martine C, Poczai P, Knapp S, S rkinen T (2021) Phylogenomic discordance suggests polytomies along the backbone of the large genus_ Solanum_.
Gagnon, Edeline +14 more
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Supporting sequence and alignment data for the publication Gagnon E, Hilgenhof R, Orejuela A, McDonnell A, Sablok G, Aubriot X, Giacomin L, Gouv a Y, Bragonis T, Stehmann JR, Bohs L, Dodsworth S, Martine C, Poczai P, Knapp S, S rkinen T (2021) Phylogenomic discordance suggests polytomies along the backbone of the large genus_ Solanum_.
Gagnon, Edeline +14 more
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Phylogenomics Using Transcriptome Data
2016This chapter presents a generalized protocol for conducting phylogenetic analyses using large-scale molecular datasets, specifically using transcriptome data from the Illumina sequencing platform. The general molecular lab bench protocol consists of RNA extraction, cDNA synthesis, and sequencing, in this case via Illumina.
Johanna Taylor, Cannon +1 more
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2015
In der Evolutionsbiologie wurde in den letzten Jahren durch Aufkommen der Phylogenomik ein neues Kapitel aufgeschlagen. Mit Hilfe genomweiter Analysen wird es zunehmend möglich, schwierige Fragestellungen zur Evolutionsgeschichten zu untersuchen, doch diese neuen Perspektiven sind gleichzeitig verbunden mit erhöhter Komplexität und anderen ...
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In der Evolutionsbiologie wurde in den letzten Jahren durch Aufkommen der Phylogenomik ein neues Kapitel aufgeschlagen. Mit Hilfe genomweiter Analysen wird es zunehmend möglich, schwierige Fragestellungen zur Evolutionsgeschichten zu untersuchen, doch diese neuen Perspektiven sind gleichzeitig verbunden mit erhöhter Komplexität und anderen ...
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Biota and Environment of Natural Areas, 2023
Phylogenomics covers various areas of research at the intersection of molecular and evolutionary biology, and in a broad sense can be considered as the science of the reconstruction of life on Earth. This paper provides a brief overview of the achievements of phylogenomics, including historical background, research approaches and methods, and specifi c
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Phylogenomics covers various areas of research at the intersection of molecular and evolutionary biology, and in a broad sense can be considered as the science of the reconstruction of life on Earth. This paper provides a brief overview of the achievements of phylogenomics, including historical background, research approaches and methods, and specifi c
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