PPT-Genome evolution Lecture 2:

population genetics I models and drift Reading Course slides on the web Hartl and Clark Principle of population genetics Rick Durret Probability models for DNA sequence evolution Gillespie Pop Genetics A concise guide. Sequencing strategies. Hierarchical genome shotgun HGS – Human Genome Project. “map first, sequence second. ”. clone-by-clone … cloning is performed twice (BAC, plasmid). Sequencing strategies. Active Roles in Evolution of . Immunity and Pregnancy . Retroviruses 2015. Chicago, June 8, 2015. James A. Shapiro. University of . Chicago. jsha@uchicago.edu. www.shapiro.bsd.uchicago.edu. . Evolutionary time: Genome writing . Endosymbionts. February 11, . 2012. Seth Bordenstein. Departments of Biological Sciences &. Pathology, Microbiology, and Immunology. s.bordenstein@vanderbilt.edu. Symbiosis: . “The living together of dissimilar organisms” de . Chapter 21. You must know. How prokaryotic genomes compare to eukaryotic genomes.. Applications of bioinformatics to medicine, evolution, and health.. The activity and role of transposable elements and retrotransposons in generating genetic diversity.. BRIM. Exome. sequencing project. Alexei Fedorov. TOPICS:. Files: . Fastq. , . sam. , bam, . vcf. , bed;. Reference Human Genome;. Transferring files (FTP, SFTP, . wget. ). Input data: “. Fastq. ” files. Key considerations:. Genes . Chromosomes. C value paradox. Gene regulation. Epigenetics. Transposable elements. DNA . ……..……..mRNA……….…….Protein . Plant . Estimated # genes. Arabidposis. Key considerations:. Genes . Chromosomes. C value paradox. Gene regulation. Epigenetics. Transposable elements. DNA . ……..……..mRNA……….…….Protein . Plant . Estimated # genes. Arabidposis. Jan Pačes. Institute of Molecular Genetics AS CR. sizes of selected completed genomes. genome. chromosomes. size. genes. Mycoplasma. . genitalium. 0.58 . Mbp. 521. Escherichia coli. 4.6 . Mbp. (5.4. What you need to know:. The major goals of the Human Genome Project.. How . prokaryotic genomes compare to eukaryotic genomes. .. Applications of bioinformatics to medicine, evolution, and health.. The activity and role of transposable elements and . October 1, 2019. Jeremy . Glasner. PhD. Science, 1997. Variation among genomes arises as they diverge from a common ancestor. Point mutations introduce small changes in one or the other lineages (SNPs, small insertions and deletions).. Summary of Research Interests. Gene identification and genome annotation. The evolution of genome-sequence compositional properties. Models of protein evolution. The phylogeny of Bacteria. Measures of differentiation from genomic and . in Development, Evolution and History. Manfred D. Laubichler. Arizona State University. Santa Fe Institute. Marine Biological . Laboratory. Max Planck Institute for the History of Science. John’s Challenge for Future Work:. xxia@uottawa.ca. http://dambe.bio.uottawa.ca. Definitions. Genome: the . entire complement of genetic material carried by an individual. Transcriptome with two definitions:. the . entire set of . transcribable sequences from the genome (operationally all RNA sequences from annotated productive genes in a genome). [22]. The pattern of blocks was assessed to see whether theirarrangement in the ancestral genome prior to duplicationarrangement in the ancestral genome prior to duplicationequally parsimonious series