eTRFa(bp) | dTRFa(bp) | dTRF shiftedb(bp) | Countsc(−) | Relative contribution to T-RFd(%) | Phylogenetic affiliatione | Reference OTUf | Reference GenBank accession numberg | SW mapping scoreh(−) | Normalized SW mapping scorei(−) |
---|---|---|---|---|---|---|---|---|---|
Aerobic granular sludge biofilms from wastewater treatment reactors | |||||||||
n.a. (32)j | 39 | 34 | 550 | 70.6 | F: Xanthomonadaceae | 4015 | GQ396926 | 386 | 0.960 |
(276) | (35.0) | (G: Thermomonas) | (4045) | (EU834762) | (452) | (0.983) | |||
(128) | (16.0) | (G: Pseudoxanthomonas) | (4035) | (EU834761) | (385) | (0.955) | |||
 |  |  | 112 | 14.3 | O: Flavobacteriales | 1151 | AY468464 | 434 | 1.000 |
 |  |  | 46 | 5.9 | F: Rhodobacteraceae | 2718 | AY212706 | 448 | 1.000 |
 |  |  | 37 | 4.8 | S: Rhodocyclus tenuis | 3160 | AB200295 | 363 | 0.917 |
 |  |  | 18 | 2.3 | O: Sphingobacteriales | 1229 | GU454872 | 394 | 0.990 |
 |  |  | 5 | 0.6 | C: Gammaproteobacteria | 3370 | AY098896 | 403 | 0.906 |
 |  |  | 4 | 0.5 | O: Rhizobiales | 2549 | EU429497 | 360 | 0.981 |
 |  |  | 4 | 0.5 | O: Myxococcales | 3246 | DQ228369 | 302 | 0.765 |
 |  |  | 1 | 0.1 | O: Bacteroidales | 991 | EU104248 | 180 | 0.636 |
194 | 198 | 193 | 10 | 90.9 | G: Acidovorax | 3011 | AJ864847 | 384 | 1.000 |
 |  |  | 1 | 9.1 | F: Xanthomonadaceae | 4035 | EF027004 | 303 | 0.819 |
214 | 219 | 214 | 769 | 99.6 | S: Rhodocyclus tenuis | 3160 | AB200295 | 371 | 0.949 |
 |  |  | 1 | 0.1 | G: Methyloversatilis | 3158 | DQ066958 | 368 | 0.958 |
 |  |  | 1 | 0.1 | G: Dechloromonas | 3156 | DQ413103 | 321 | 0.988 |
 |  |  | 1 | 0.1 | G: Nitrosomonas | 3136 | EU937892 | 278 | 0.753 |
220 | 225 | 220 | 50 | 92.6 | O: Rhizobiales | 2580 | NR025302 | Â | Â |
(31) | (57.0) | (G: Aminobacter) | |||||||
 |  |  | 2 | 3.7 | S: Rhodocyclus tenuis | 3160 | AB200295 | 206 | 0.703 |
 |  |  | 1 | 1.9 | F: Hyphomonadaceae | 2656 | AF236001 | 229 | 0.636 |
 |  |  | 1 | 1.9 | P: Firmicutes | 2235 | DQ413080 | 284 | 1.000 |
216 | 221 | 216 | 10 | 34.5 | S: Rhodocyclus tenuis | 3160 | AF502230 | 296 | 0.773 |
 |  |  | 8 | 27.6 | G: Nitrosomonas | 3136 | GU183579 | 364 | 0.948 |
 |  |  | 6 | 20.7 | C: Anaerolineae | 1317 | EU104216 | 202 | 0.598 |
 |  |  | 3 | 10.3 | G: Methyloversatilis | 3158 | CU922545 | 360 | 0.909 |
 |  |  | 1 | 3.4 | G: Aminobacter | 2580 | L20802 | 281 | 0.829 |
 |  |  | 1 | 3.4 | G: Dechloromonas | 3156 | DQ413103 | 273 | 0.898 |
223 | 228 | 223 | 44 | Â | F: Intrasporangiaceae | 418 | AF255629 | Â | Â |
 | (G: Tetrasphaera) |  |  | ||||||
 |  |  | 15 | 24.6 | F: Hyphomonadaceae | 2656 | AF236001 | 298 | 0.674 |
 |  |  | 1 | 1.6 | F: Microbacteriaceae | 441 | GQ009478 | 228 | 0.544 |
 |  |  | 1 | 1.6 | O: Acidimicrobiales | 268 | GQ009478 | 153 | 0.447 |
239 | 243 | 238 | 275 | 98.9 | C: Gammaproteobacteria | 3370 | EU529737 | 446 | 0.982 |
 |  |  | 2 | 0.7 | G: Leptospira | 4092 | AB476706 | 350 | 0.926 |
 |  |  | 1 | 0.4 | P: Armatimonadetes | 975 | EU332819 | 275 | 0.846 |
249 | 253 | 249 | 9 | 100.0 | S: Rhodocyclus tenuis | 3160 | AB200295 | 228 | 0.752 |
255 | 258 | 253 | 7 | 100.0 | O: Sphingobacteriales | 1171 | FJ793188 | 355 | 0.989 |
260 | 263 | 258 | 16 | 94.1 | G: Nitrospira | 2360 | GQ487996 | 389 | 0.982 |
 |  |  | 1 | 5.9 | O: Sphingobacteriales | 1171 | FJ536916 | 251 | 0.640 |
260 | 264 | 259 | 38 | 97.4 | O: Sphingobacteriales | 1170 | EU104185 | 267 | 0.706 |
 |  |  | 1 | 2.6 | G: Nitrospira | 2360 | GQ487996 | 319 | 0.788 |
297 | 302 | 297 | 26 | 100.0 | G: Herpetosiphon | 1359 | NC009972 | 339 | 0.867 |
307 | 311 | 306 | 38 | 97.4 | P: Armatimonadetes | 975 | CU921283 | 218 | 0.472 |
 |  |  | 1 | 2.6 | O: Sphingobacteriales | 1171 | EU104210 | 196 | 0.525 |
321 | 323 | 318 | 17 | 100.0 | G: Cytophaga | 1208 | EU104191 | 367 | 0.968 |
393 | 397 | 392 | 33 | 100.0 | G: Bdellovibrio | 3173 | CU466777 | 262 | 0.663 |
Groundwater samples from chloroethene-contaminated aquifers | |||||||||
63 | 69 | 64 | 93 | 85.3 | F: Methylococcaceae | 3686 | AB354618 | 432 | 0.915 |
 |  |  | 14 | 12.8 | F: Crenotrichaceae | 3681 | GU454947 | 290 | 0.816 |
 |  |  | 1 | 0.9 | F: Ectothiorhodospiraceae | 3510 | AM902494 | 168 | 0.542 |
 |  |  | 1 | 0.9 | P: candidate phylum OP3 | 2388 | GQ356152 | 187 | 0.488 |
165 | 168 | 163 | 143 | 100.0 | G: Dehalococcoides | 1368 | EF059529 | 448 | 0.953 |
190 | 193 | 191 | 12 | 54.6 | F: Desulfobulbaceae | 3177 | AJ389624 | 379 | 0.945 |
 |  |  | 4 | 13.6 | F: Sphingomonadaceae | 2880 | AY785128 | 263 | 0.555 |
 |  |  | 2 | 9.1 | F: Erythrobacteraceae | 2872 | DQ811848 | 343 | 0.771 |
 |  |  | 2 | 9.1 | C: Alphaproteobacteria | 2451 | AY921822 | 337 | 0.926 |
 |  |  | 1 | 4.6 | F: Rhodospirillaceae | 2793 | AY625147 | 294 | 0.679 |
 |  |  | 1 | 4.6 | F: Rhodobiaceae | 2641 | AB374390 | 328 | 0.877 |
198 | 201 | 196 | 140 | 98.6 | G: Desulfovibrio | 3215 | FJ810587 | 473 | 1.000 |
 |  |  | 2 | 1.4 | F: Comamonadaceae | 3039 | FN428768 | 311 | 0.814 |
210 | 214 | 209 | 233 | 98.3 | F: Dehalococcoidaceae | 1367 | EU679418 | 262 | 0.665 |
 |  |  | 2 | 0.8 | O: Burkhorderiales | 3009 | AM777991 | 367 | 0.927 |
 |  |  | 1 | 0.4 | F: Spirochaetaceae | 4130 | EU073764 | 295 | 0.848 |
 |  |  | 1 | 0.4 | P: candidate phylum TM7 | 4379 | DQ404736 | 277 | 0.723 |
216 | 221 | 216 | 1010 | 90.9 | F: Gallionellaceae | 3080 | EU802012 | 353 | 0.869 |
 |  |  | 94 | 8.5 | G: Rhodoferax | 3050 | DQ628925 | 369 | 0.920 |
 |  |  | 3 | 0.3 | G: Methylotenera | 3093 | AY212692 | 291 | 0.744 |
 |  |  | 1 | 0.1 | G: Methyloversatilis | 3158 | GQ340363 | 296 | 0.765 |
 |  |  | 1 | 0.1 | F: Clostridiaceae | 2005 | AJ863357 | 338 | 0.833 |
 |  |  | 1 | 0.1 | C: Anaerolineae | 1315 | AB179693 | 229 | 0.511 |
 |  |  | 1 | 0.1 | C: Actinobacteria | 949 | EU644115 | 372 | 0.907 |
243 | 247 | 243 | 389 | 99.7 | F: Dehalococcoidaceae | 1367 | EU679418 | 255 | 0.631 |
 |  |  | 1 | 0.3 | F: Anaerolinaceae | 1321 | AB447642 | 253 | 0.806 |