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

PLOIDIE DU GENOME NUCLEAIRE
+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).

IMPORTATION DE PROTEINES DANS LA MITOCHONDRIE
+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.

PHYLOGENIE DE LA RNA POLYMERASE MITOCHONDRIALE
+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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