Gas 152

- see also group A streptococcus GBS 155 ff.

- see also group B streptococcus GCA see group C streptococcus GEIs 95 ff.

- see also genomic island gene context

- STRING 6 gene synteny 426

gene-survey sequence tags (GSS) 419 genetic distance

- evolutionary trees 375 genetic relatedness 375

- distance 375

- DNACOMP 375

- DNAMOVE 375

- DNAPARS 375

- DNAPENNY 375

- EMBOSS 375

- FITCH 375

- KITCH 375

- MacClade 375

- maximum likelihood 375

- maximum parsimony 375

- MEGA 375

- MESQUITE 375

- PAML 376

- PAUP 375

- PHYLIP 375,376

- PROTPARS 375

- TREE-PUZZLE 376 genome annotation platform

- BioScout 15

- GenDB 15

- MAGPIE 15

- PEDANT 15

genome-scale mutational analyses 72

- Bacillus subtilis 75

- Mycoplasma genitalium 76

- Mycoplasma pneumoniae 76

- Neisseria meningitidis 77

- Pseudomonas aeruginosa 76

- Saccharomyces cerevisiae 73 ff.

- staphylococcus aureus 77

genomic island/pathogenicity island 86, 92,

95, 286 Giardia 431 ff.

- complete nucleotide sequence 432

- genome sequence 432 glycolysis 46, 56, 60

gonococcus 231

GSS see gene-survey sequence tag h

H. influenzae 71 heat stress 60

- GroEL/S 60 Helicobacter 301 ff.

- genome comparison 307

- H. hepaticus 301

- H. mustelae 301

- H. pylori 301 Helicobacter hepaticus 305 ff.

- cytolethal distending toxin (CDT) 307

- genome sequence 305

- HHGI1 genomic island 306

- motility 306

- urease 306 Helicobacter pylori 302 ff.

- allelic variatin 305

- cag pathogenicity island 304

- CagA 304

- comparison 303

- genome 303

- genome comparison 303

- motility 302

- outer membrane proteins 303

- phase variation 302 ff.

- type IV secretion system 304

- urease 302

HGT see horizontal gene transfer Histoplasma

- genome projects 391

- Histoplasma capsulatum 390 ff.

- phase-specific genes 391 horizontal gene transfer 154,161 host models 445 ff.

- Arabidopsis thaliana 445

- Caenorhabditis elegans 445

- Danio rerio 445

- Dictyostelium discoideum 445

- Drosophila melanogaster 445

- immunity 446

- Mus musculus 445

- susceptbility 446 host pathogen interaction

- LRR proteins 448 host response 457 host restriction 115,119 host-pathogen interaction 445 ff., 457

- host defense systems 447

- Leucine-rich repeat(LRR) proteins 447 HPI 96

Hpt see hexose phosphate transporter human host response

- ADAM 462

- adhesion molecules 460

- alginate 466 ff.

- apoptosis 462

- apoptosis regulators 460

- Bartonella henselae 468

- cagA-modulated hostresponses 463

- cell cycle 462

- chemokines 469

- common activation program of macrophages 459

- common signatures 469

- cystic fibrosis transmembrane conductance regulator CFTR 467 ff.

- cytokines 469

- dendritic cells 458, 459

- elongin B 462

- environmental and genetic factors 463

- ExoT 467

- ExoU 467

- flagella 466 ff.

- gene expression profiles 458

- glucocorticoid-induced leucine zipper (GILZ) 464

- H. pylori response 462

- Helicobacter pylori 462 ff.

- inflammatory mediators 460

- innate immune response 462

- innate immunity 469

- interferon-induced antiviral activities 460

- interferon-induced chemokines 460

- interferon-induced proliferation 460

- interferon-induced signaling 460

- invasins 464

- Kruppel-like factor (KLF)2 464

- macrophages 458, 459

- MAPK signaling pathways 464

- NF-kB signaling pathway 460

- pathogen-associated molecular patterns (PAMPs) 469

- pattern recognition receptors (PRRs) 469

- Pseudomans aeruginosa 466

- pYV virulenceplasmid 464

- RhoB 464

- septicemia 460

- TNF-related molecules 460

- Toll-like receptor (TLR) 469

- transcription profiles 458 ff.

- type III secretion system 467

- type IV pili 466,467

- Yersinia enterocolitica 464 ff.

- Yersinia-mediated gene repression 466

- Yersinia-outer proteins (Yops) 464 human host response 457 hydrogen sulfide 110

- 1,2-propanediol 110 ff.

IHTs see islands of horizontally transferred DNA

infection susceptibility 471

- genetic predisposition 471

- NEMO 471

- TLR signaling 471 innate immunity 457

insertion sequence elements 86, 177 ff. interaction between pathogenic microorganisms and their host 457 intragenic recombinations 158 invasion 111 ipaH

- Shigellaflexneri 92

- see also insertion sequence element island 155

k kinetoplastids

- Leishmania 429

- Trypanosoma brucei 429

- Trypanosoma cruzi 429 ff. Koch's postulates 407

l labeling

labeling/reverse transcription 30 ff. LEE 96

- see also locus of enterocyte effacement Legionella 315 ff.

- L.feeleii 316

- L. longbeachae 316

- L. micdadei 316

Legionella pneumophila 315 ff., 448

- ankyrin repeat-containing proteins 319

- apyrases 324

- autotransporter 328

- comparative genomics 329

- deletions 333

- dot/icm type IV secretion system 325 ff., 333

- eukaryotic-like proteins 318 ff.

- F-box domains 319

- genome rearrangements 333

- genome sequence 317

- genomic islands 329 ff., 333

- insertion 333

- LepA 325

- LepB 325

- LidA 325

- lssXYZABD locus 326

- lvh region 330

- lvh type IV secretion system 326

- macrophages 448

- protein secretion 324

- RalF 325

- spingosine-1-phosphate lyase 324

- twin arginine translocation (TAT) pathway 327

- type I secretion system 326

- type II secretion system 327

- type IV secretion system 325

- type V secretion system 328

- U-box domains 319 Leihsmania

- genome 431

- introns 431

- L. braziliensis 431

- L. major 431 lipoteichoic acid 138 Listeria 348 ff.

- ActA show 349

- competence genes 349

- evolution 350

- internalins 349

- L. monocytogenes 348, 349

- L. seeligeri 349

- L. welshimeri 348, 349

- listeriolysin 349

- phospholipase 349

- virulence gene cluster 349 ff. Listeria monocytogenes 339ff.

- actin polymerization 343

- anaerobic degradation of ethanolamine 354

- autolysin 352

- carbohydrate transport 346

- cell-wall-anchored surface protein 355

- E-cadherin 341

- fibronectin-binding proteins 352

- gene duplications 346

- genome comparison 346

- hexose phosphate transporter 352 ff.

- host cell invasion 342

- internalins 340 ff., 351

- intracellular growth 352

- intracellular motility 343 ff.

- lipoate protein ligase (LplAl) 352

- lipoproteins 351

- listeriolysin O 342

- LPXTG motif 341,355

- metalloprotease Mpl 343

- phospholipase 342

- plasmids 348

- postgenomics 351, 358

- pregenomics 340, 358

- PrfA box 356

- PrfA regulon 356

- regulation ofvirulence gene expression 344ff., 354

- resistance to bile 353

- SigL 357

- sigma B-regulons 356

- sigma factor 357

- signature-tagged mutagenesis 352

- surface protein 346

- Tn916 348

- transport proteins 346

- two-component system 354

- two-dimensional gel electrophoresis 355

- virulence gene cluster 340

- vitamin B12 biosynthesis 354 LLO see listeriolysin O loss-of-function 88

m meningococcus 231 metabolic pathway 156 metagenomics 496 methicillin-resistant

- Staphylococcus aureus (MRSA) 486

- Spa ("Staphylococcus aureus encoded protein A') 7 MIC see minimal inhibitory concentration microarray 8ff., 21 ff., 382, 484

- cold labeling 31

- data analysis 9

- data normalization and analysis 32

- direct labeling 30

- DNA-DNA arrays 25

- dye switch experiments 9

- experimental design 25

- hybridization 31

- internal standard 9

- labelling/reverse transcription 30 ff.

- replicates 28, 29

- RNA extraction 28

- scanning 31

- standardization 37 microbial

- antimicrobial susceptibility 483

- conventional culture-based methods 483

- detection ofbiological warfare agents 482

- environmental microbiology 482

- medical microbiology 482 ff. microbial diagnostics 482 ff.

- antibiotic resistance 486

- FISH 484

- fluorescence in situ Hybridization 484 ff.

- molecular typing 485

- polymerase chain reaction (PCR) 485 ff.

- real-time PCR 485 microsporidia 402 ff.

- Antonospora locustae 403

- Encephalitozoon cuniculi 402 ff.

- Encephalitozoon intestinalis 402 ff.

- genome compaction 403

- Glugea atherinae 402 ff.

- reductive evolution 402 ff. multilocus enzyme electrophoresis (MLEE)

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