PhylogÃ©nie Et Evolution Du Comportement Social Chez Les Blattes ...

More documents

Recommendations

Info

Ev o l u t i o n d u c o m p o r t e m e n t s o c i a lCo m m a n d e sCommandes utilisées lors des différentes analyses réalisées à partir d’un alignement dynamique(POY) ou statique. <strong>Les</strong> noms en italique correspondent à des noms de fichiers, des nomsd’espèces ou des variables.§§Analyse de parcimonie (POY) :Commandes relatives à la lecture et l’importation de données :set (log:“fichier.log”)read (“fichiers.txt”, “fichiers.ss”)transform (tcm:“fichier.txt”)read (prealigned:(“fichiers.fas”, tcm:(1,1)))read (custom_alphabet:(“fichier.txt”, “fichier.cout”, orientation:false, init3D:false))read (“fichier.tre”)set (root:“taxon”)select (terminals, files:(“fichier.tax”))report (data, cross_references)report (seq_stats:all)Commandes relatives à la recherche des arbres :build (all, 100)swap (all)report (timer:“nom”)fuse (iterations: 300, swap (all))report (treestats)select ()perturb (iterations:10, ratchet:(0.15,3))378
An n e x e sCommandes relatives à l’export des résultats :report (asciitrees)report (“fichier”, graphtrees)report (“fichier_con”, graphconsensus)report (“fichier.tre”, trees:(total))§§Analyse de parcimonie (PAUP) :outgroup taxon;pset opt=acctran;cstatus;set criterion=parsimony maxtrees=200 increase=auto autoinc=200;hsearch start=stepwise addseq=random nreps=1000 hold=5 swap=tbr;savetrees / brlens=yes file=fichier.tre replace=yes root=yes;contree / strict=yes save file=fichier_con.tre replace=yes;bootstrap nreps=1000 search=heuristic conlevel=50 grpfreq=yes keepall=notreefile=fichier_bootstrap.tre replace=yes brlens=yes search=heuristic/ addseq=randomnrep=1 swap=tbr;§§Analyse en maximum de vraisemblance (PHYML) :Model of nucleotide substitution = GTRBase frequency estimates = MLProportion of invariable sites = estimatedNumber of substitution rate categories = 6Gamma distribution parameter = estimatedInput tree = BIONJNon parametric bootstrap analysis = yes (1000 replicates)§§Analyse bayesienne (MrBayes) :set partition=nom autoclose=yes nowarn=yes;outgroup taxon;lset applyto=(all) nst=6 rates=invgamma;unlink Tratio=(all) Revmat=(all) statefreq=(all) shape=(all) pinvar=(all);mcmc ngen=1000000 samplefreq=100 printfreq=10000 nchains=4 savebrlens=yesfilename=fichier;379
Page 1:
UFR des Sciences de la VieEcole Doc
Page 4 and 5:
Je remercie toutes les personnes av
Page 7 and 8:
Ta b l e d e s Mat i è r e sRe m e
Page 9 and 10:
Données moléculaires sans les sé
Page 11:
Ch a p i t r e V : Di s c u s s i o
Page 14 and 15:
Figure 3.10 : Analyse cladistique d
Page 17 and 18:
Li s t e d e s Ta b l e au xTableau
Page 19:
In t r o d u c t i o nNothing in bi
Page 22 and 23:
Ev o l u t i o n d u c o m p o r t
Page 24 and 25:
Page 27 and 28:
I. An a ly s e d u c o n t e x t e
Page 29 and 30:
Page 31 and 32:
Page 33:
Page 36 and 37:
Page 38 and 39:
Page 40 and 41:
Page 42 and 43:
Page 44 and 45:
Page 46 and 47:
Page 48 and 49:
Page 50 and 51:
Page 52 and 53:
Page 54 and 55:
Page 56 and 57:
Page 58 and 59:
Page 61 and 62:
II. Mat é r i e l s e t m é t h o
Page 63 and 64:
Page 65:
ABCDEGHFJIK
Page 68 and 69:
Page 71 and 72:
Page 73 and 74:
Page 75 and 76:
Page 77 and 78:
Page 79 and 80:
Page 81 and 82:
Page 83 and 84:
Page 85 and 86:
Page 87 and 88:
Page 89 and 90:
Page 91 and 92:
Page 93 and 94:
Page 95 and 96:
Page 97 and 98:
Page 99 and 100:
Page 101 and 102:
Page 103 and 104:
Page 105 and 106:
Page 107 and 108:
Page 109 and 110:
Page 111:
Page 115 and 116:
III. Réversibilité, c o n t r a i
Page 117 and 118:
Page 119 and 120:
Page 121 and 122:
Page 123 and 124:
Page 125 and 126:
Page 127 and 128:
Page 129 and 130:
Page 131 and 132:
Page 133 and 134:
Page 135 and 136:
Page 137 and 138:
Page 139 and 140:
Page 141 and 142:
Page 143 and 144:
Page 145 and 146:
Page 147 and 148:
Page 149 and 150:
Page 151 and 152:
Page 153 and 154:
Page 155 and 156:
Page 157 and 158:
Page 159 and 160:
Page 161 and 162:
Page 163 and 164:
Page 165 and 166:
Page 167 and 168:
Page 169 and 170:
Page 171 and 172:
Page 173 and 174:
Page 175 and 176:
Page 177 and 178:
Page 179 and 180:
Page 181 and 182:
Page 183 and 184:
Page 185 and 186:
Page 187:
CHAPITRE IVEv o l u t i o n d e s c
Page 190 and 191:
Page 192 and 193:
Page 194 and 195:
Page 196 and 197:
Page 198 and 199:
Page 200 and 201:
Page 202 and 203:
Page 204 and 205:
Page 206 and 207:
Page 208 and 209:
Page 210 and 211:
Page 212 and 213:
Page 214 and 215:
Page 216 and 217:
Page 218 and 219:
Page 220 and 221:
Page 222 and 223:
Page 224 and 225:
Page 226 and 227:
Page 228 and 229:
Page 230 and 231:
Page 232 and 233:
Page 234 and 235:
Page 236 and 237:
Page 238 and 239:
Page 240 and 241:
Page 242 and 243:
Page 244 and 245:
Page 246 and 247:
Page 248 and 249:
Page 250 and 251:
Page 252 and 253:
Page 254 and 255:
Page 256 and 257:
Page 259 and 260:
V. Dis c u s s ion g é n é r a l
Page 261 and 262:
Page 263 and 264:
Page 265 and 266:
Page 267 and 268:
Page 269 and 270:
Page 271:
Page 274 and 275:
Ré f é r e n c e s b i b l i o g
Page 276 and 277:
Page 278 and 279:
Page 280 and 281:
Page 282 and 283:
Page 284 and 285:
Page 286 and 287:
Page 288 and 289:
Page 291 and 292:
ANNEXE IDéf i n i t i o n s deq u
Page 293 and 294:
ANNEXE IIPr o t o c o l e d’ex t
Page 295 and 296:
ANNEXE IIILeg e n d r e et al . (Bi
Page 297 and 298:
An n e x e sAbstractA new method is
Page 299 and 300:
An n e x e sexpressed in such non-s
Page 301 and 302:
An n e x e sanother species would a
Page 303 and 304:
An n e x e sMolecular data for all
Page 305 and 306:
An n e x e sevolutionary ecological
Page 307 and 308:
An n e x e sThe comparison of the t
Page 309 and 310:
An n e x e sDefining and including
Page 311 and 312:
An n e x e s“avoiding” acts (GD
Page 313 and 314:
An n e x e sGautier JY, Deleporte P
Page 315 and 316:
An n e x e sMcLennan DA, Brooks DR,
Page 317 and 318:
An n e x e sWenzel JW. 1993. Applic
Page 319 and 320:
An n e x e sTable 1: PCR primers na
Page 321 and 322:
An n e x e sTable 4: Phylogenetic a
Page 323 and 324:
An n e x e sPhortioeca nimbataP.n.
Page 325 and 326:
An n e x e sSchultesia lampyridifor
Page 327 and 328:
An n e x e sSpecies 1 = outgroupInd
Page 329:
An n e x e sAnalysis AEublaberus di
Page 332 and 333:
Page 334 and 335:
Page 336 and 337:
Page 338 and 339:
Page 340 and 341:
Page 342 and 343:
Page 344 and 345:
Page 346 and 347: Ev o l u t i o n d u c o m p o r t
Page 382 and 383: igureEv o l u t i o n d u c o m p o
Page 384 and 385: FigureEv o l u t i o n d u c o m p
Page 386 and 387: Figure Ev o l u t i o n d u c o m p
Page 388 and 389: FigureEv o l u t i o n d u c o m p
Page 392 and 393: ablesEvo l u t i o n d u c o m p o
Page 395: ANNEXE VICom m a n d e s de s an a
Page 415 and 416: ANNEXE XIICur r i c u l u m Vi t a
Page 417 and 418: An n e x e s
Page 419 and 420: An n e x e s
Page 421 and 422: Ré s u m éPh y l o g é n i e e t
show all

PhylogÃ©nie Et Evolution Du Comportement Social Chez Les Blattes ...

You also want an ePaper? Increase the reach of your titles

Delete template?

Save as template?