Lecture préparative pour BIN6002

LINUX Basics

  1. Main linux commands
  2. Aide memoire des commandes linux
  3. Linux tutorials and videos

Littérature pour les présentations orales 2017

+Lu, F. et al. Switchgrass Genomic Diversity, Ploidy, and Evolution: Novel Insights from a Network-Based SNP Discovery Protocol. PLOS Genet. 9, e1003215 (2013).
+Rogers, M. B. et al. Chromosome and gene copy number variation allow major structural change between species and strains of Leishmania. Genome Res. 21, 2129?2142 (2011).
+Yoshida, K. et al. The rise and fall of the Phytophthora infestans lineage that triggered the Irish potato famine. eLife 2, e00731 (2013).

+Dolezal P1, Likic V, Tachezy J, Lithgow T. Science. 2006 Jul 21;313(5785):314-8. Evolution of the molecular machines for protein import into mitochondria.
+Eckers E, Cyrklaff M, Simpson L, Deponte Mitochondrial protein import pathways are functionally conserved among eukaryotes despite compositional diversity of the import machineries. M. Biol Chem. 2012 May;393(6):513-24.
+Höhr AI, Straub SP, Warscheid B, Becker T, Wiedemann N. Biochim Biophys Acta. 2015 Jan;1853(1):74-88. Assembly of ?-barrel proteins in the mitochondrial outer membrane.
+Mani J, Meisinger C, Schneider A.Peeping at TOMs-Diverse Entry Gates to Mitochondria Provide Insights into the Evolution of Eukaryotes. Mol Biol Evol. 2016 Feb;33(2):337-51
+Pusnik M1, Mani J, Schmidt O, Niemann M, Oeljeklaus S, Schnarwiler F, Warscheid B, Lithgow T, Meisinger C, Schneider. Mol Biol Cell. 2012 Sep;23(17):3420-8. doi: 10.1091/mbc.E12-02-0107. Epub 2012 Jul 11. An essential novel component of the noncanonical mitochondrial outer membrane protein import system of trypanosomatids.

+Burger G, Gray MW, Forget L, Lang BF. Strikingly bacteria-like and gene-rich mitochondrial genomes throughout jakobid protists. Genome Biol Evol. 2013;
+Shutt TE, Gray MW. Bacteriophage origins of mitochondrial replication and transcription proteins. Trends Genet. 2006 Feb;22(2):90-5.
+Lartillot N, Lepage T, Blanquart S.PhyloBayes 3: a Bayesian software package for phylogenetic reconstruction and molecular dating. Bioinformatics. 2009 Sep 1;25(17):2286-8.
+NA1ARA RODRtGUEZ-EZPELETA, HENNER BRINKMANN, BEATRICE ROURE, NICOLAS LARTILLOT, B. FRANZ LANG, AND HERVE PHILIPPE 2007. Detecting and Overcoming Systematic Errors in Genome-Scale Phylogenies. Syst. Biol. 56(3):389-399.
+Nicolas Cermakian, Tatsuya M. Ikeda, Pedro Miramontes, B. Franz Lang, Michael W. Gray, Robert Cedergren 1997. On the Evolution of the Single-Subunit RNA Polymerases. J Mol Evol 45:671?681

Littérature utilisée pour les présentations orales 2016

Genomics (pdf)
Proteomics (pdf)
Transcriptomics: (pdf)

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