Making the most of phylogeny - OPUS - Universität Würzburg

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Acronyms 15-LOX-DICE 15-lipoxygenase differentiation control element AQP Aquaporin BLAST basic local alignment search tool CBC compensatory base change cDNA complementary desoxyribonucleic acid CLANS cluster analysis of sequences COG cluster of orthologous group COI Cytochrome c oxidase subunit I CPU central processing unit DBMS database management system DDBJ DNA Data Bank of Japan DNA desoxyribonucleic acid EMBL European Molecular Biology Laboratory EST expressed sequence tag ETS external transcribed spacer FABP fatty acid binding protein gDNA genomic desoxyribonucleic acid GO Gene Ontology GST Gluthathione S-transferase GTR generalised time reversible HMM hidden markov model HPC high performance computing HSP heat shock protein ITS internal transcribed spacer xi
Page 1: Making the most of phylogeny: Uniqu
Page 4 and 5: Eingereicht am: . . . . . . . . . .
Page 7 and 8: Contents Acronyms xi I. Introductio
Page 9: List of Figures Contents List of Fi
Page 13: Part I. Introduction 1
Page 16 and 17: The phylum Tardigrada Part I. Intro
Page 18 and 19: The phylum Tardigrada Part I. Intro
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Page 25: Chapter 1. Material 1.1. Hardware r
Page 28 and 29: Bioinformatical methods Part II. Ma
Page 30 and 31: Bioinformatical methods Part II. Ma
Page 32 and 33: Biochemical methods Part II. Materi
Page 35 and 36: Chapter 3. Tardigrade workbench: co
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Transcriptome analyzed at different
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Introduction Tardigrades represent
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examine which subgroups occur in th
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contrast, other elements such as th
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Specific encoded protein families a
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dihydrolipoamide acetyltransferase
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anch off to terpenoid biosynthesis
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and domain analysis did not identif
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that these are only those which can
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instance regarding storage carbohyd
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UniProtKB/TrEMBL- and NR-database.
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We conducted systematic sequence to
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6. Clegg, J. S. (2005). Desiccation
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stress tolerance in mutants lacking
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74. Orr-Weaver, T. L., Szostak, J.
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Figure Captions Fig. 1. Sequence si
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Fig. 5. Bmh2 stress pathway is cons
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Tables Table I. Regulatory Motifs f
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Table IIb. Important COGs/KOGs iden
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Table IIc. Subset of important COGs
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ec:3.1.2.22 palmitoyl[protein] hydr
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monooxygenase Retinol metabolism Re
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40 kDa DnaJ/Hsp40 (regulated respon
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Proteomic Analysis of Tardigrades:
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Figure 3. Analysis of protein degra
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Figure 6. Comparison of database pe
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Table 2. Identified proteins with a
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Table 2. Cont. Sequence coverage No
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Table 2. Cont. No. of NCBInr Tardig
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Table 2. Cont. No. of NCBInr Tardig
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Table 3. Cont. Spot no. Accession n
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Table 3. Cont. Spot no. Accession n
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Evaluation of Heat Shock Proteins b
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quality MS/MS spectra against the p
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IEF conditions. First dimension iso
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22. Mommsen TP, Walsh PJ (1988) Vit
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Cell Stress and Chaperones DOI 10.1
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Stress-gene expression in tardigrad
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Chapter 8. Tardigrade bioinformatic
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Abstract Tardigrades are an indepen
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our recent EST data, tardigrades av
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and their dynamics, however, we nee
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Philippi, N., Walter, D., Schlatter
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Table 2: Typical examples of conser
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Figure 2: Concerted changes in tard
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Published online 17 November 2009 N
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Table 1. Taxonomic breakdown of pre
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Database revealed a stereotypical I
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Keller et al. Biology Direct 2010,
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Chapter 11. ITS2 data corroborate a
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BMC Evolutionary Biology 2008, 8:21
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Distinguishing species in Paramacro
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Table 2: Compensatory base changes.
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Supplement Material Distinguishing
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222
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Part IV. General Discussion and Con
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Summary The phylum Tardigrada consi
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Zusammenfassung Der Tierstamm Tardi
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Bibliography Ewing, B., Hillier, L.
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Bibliography Bibliography Coleman,
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Bibliography Bibliography Grillo, G
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Bibliography Bibliography Keller, A
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Bibliography Bibliography Mathews,
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Bibliography Bibliography Reuner, A
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Bibliography Bibliography Tatusov,
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Contributions Chapter 3 ‘Tardigra
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Contributions Chapter 8 ‘Tardigra
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Curriculum Vitae Fundamental inform
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List of Publications Förster, F. *
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Erklärung Hiermit erkläre ich ehr
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