imported>Gydbwiki at 15:23, 17 June 2010

2010-06-17T15:23:24Z

New page

[[Category:Phylogeny]]
{{Phylogeny
|map=<imagemap>
Image:AP_retroel_2a.png|center
rect 377 64 408 80 [[Element:Tork4|Tork4]]
rect 377 81 406 97 [[Element:Sto-4|Sto-4]]
rect 377 116 412 132 [[Element:Batata|Batata]]
rect 377 151 398 167 [[Element:V12|V12]]
rect 377 169 405 185 [[Element:Tnt-1|Tnt-1]]
rect 377 134 409 150 [[Element:RTvr2|RTvr2]]
rect 377 99 401 115 [[Element:Tto1|Tto1]]
rect 377 46 405 62 [[Element:Fourf|Fourf]]
rect 377 204 410 220 [[Element:Copia|Copia]]
rect 377 221 405 237 [[Element:Koco|Koco]]
rect 377 186 430 202 [[Element:Yokozuna|Yokozuna]]
rect 377 256 417 272 [[Element:Mtanga|Mtanga]]
rect 377 274 429 290 [[Element:Humnum|Humnum]]
rect 377 239 425 255 [[Element:pCretro3|pCretro3]]
rect 377 291 430 307 [[Element:PyRE1G1|PyRE1G1]]
rect 377 309 421 325 [[Element:Tricopia|Tricopia]]
rect 377 344 427 360 [[Element:Hydra1-2|Hydra1-2]]
rect 377 361 427 377 [[Element:Hydra1-1|Hydra1-1]]
rect 377 326 425 342 [[Element:pCretro6|pCretro6]]
rect 377 379 425 395 [[Element:Xanthias|Xanthias]]
rect 377 396 405 412 [[Element:1731|1731]]
rect 377 29 424 45 [[Element:Melmoth|Melmoth]]
rect 377 413 424 429 [[Element:Vitico1-1|Vitico1-1]]
rect 377 431 405 447 [[Element:Poco|Poco]]
rect 377 448 426 464 [[Element:Oryco1-1|Oryco1-1]]
rect 377 466 426 482 [[Element:Oryco1-2|Oryco1-2]]
rect 377 483 408 499 [[Element:Araco|Araco]]
rect 377 501 421 517 [[Element:ToRTL1|ToRTL1]]
rect 377 518 414 534 [[Element:Opie-2|Opie-2]]
rect 377 536 406 552 [[Element:TSI-9|TSI-9]]
rect 377 553 436 569 [[Element:Endovir1-1|Endovir1-1]]
rect 377 571 423 587 [[Element:SIRE1-4|SIRE1-4]]
rect 377 588 424 604 [[Element:Vitico1-2|Vitico1-2]]
rect 377 623 409 639 [[Element:Koala|Koala]]
rect 377 641 436 657 [[Element:Hopscotch|Hopscotch]]
rect 377 606 416 622 [[Element:Retrofit|Retrofit]]
rect 377 12 411 28 [[Element:Osser|Osser]]
rect 377 711 422 727 [[Element:CoDi5.1|CoDi5.1]]
rect 377 728 422 744 [[Element:CoDi5.2|CoDi5.2]]
rect 377 746 422 762 [[Element:CoDi5.3|CoDi5.3]]
rect 377 693 422 709 [[Element:CoDi5.6|CoDi5.6]]
rect 377 676 422 692 [[Element:CoDi5.4|CoDi5.4]]
rect 377 658 422 674 [[Element:CoDi5.5|CoDi5.5]]
rect 377 763 422 779 [[Element:CoDi6.5|CoDi6.5]]
rect 377 798 422 814 [[Element:CoDi6.7|CoDi6.7]]
rect 377 815 422 831 [[Element:CoDi6.6|CoDi6.6]]
rect 377 780 422 796 [[Element:CoDi6.1|CoDi6.1]]
rect 377 850 422 866 [[Element:CoDi6.2|CoDi6.2]]
rect 377 868 422 884 [[Element:CoDi6.3|CoDi6.3]]
rect 377 833 422 849 [[Element:CoDi6.4|CoDi6.4]]
rect 377 885 405 901 [[Element:Tse1|Tse1]]
rect 377 903 403 919 [[Element:pCal|pCal]]
rect 377 938 405 954 [[Element:Tdh2|Tdh2]]
rect 377 955 396 971 [[Element:Ty4|Ty4]]
rect 377 920 408 936 [[Element:Tkm1|Tkm1]]
rect 377 973 396 989 [[Element:Ty2|Ty2]]
rect 377 990 404 1006 [[Element:Ty1B|Ty1B]]
rect 377 1025 422 1041 [[Element:CoDi2.4|CoDi2.4]]
rect 377 1043 422 1059 [[Element:CoDi3.1|CoDi3.1]]
rect 377 1060 422 1076 [[Element:CoDi4.5|CoDi4.5]]
rect 377 1095 422 1111 [[Element:CoDi4.3|CoDi4.3]]
rect 377 1113 422 1129 [[Element:CoDi4.4|CoDi4.4]]
rect 377 1078 422 1094 [[Element:CoDi7.1|CoDi7.1]]
rect 377 1008 422 1024 [[Element:CoDi4.1|CoDi4.1]]
rect 377 1182 411 1198 [[Element:Zeco2|Zeco2]]
rect 377 1200 411 1216 [[Element:Zeco1|Zeco1]]
rect 377 1165 409 1181 [[Element:Olco1|Olco1]]
rect 377 1147 409 1163 [[Element:Cico1|Cico1]]
rect 377 1130 418 1146 [[Element:GalEa1|GalEa1]]
rect 377 1270 422 1286 [[Element:Calypso|Calypso]]
rect 377 1287 432 1303 [[Element:Cyclops-2|Cyclops-2]]
rect 377 1252 425 1268 [[Element:Athila4-1|Athila4-1]]
rect 377 1235 428 1251 [[Element:Diaspora|Diaspora]]
rect 377 1217 415 1233 [[Element:Bagy-2|Bagy-2]]
rect 377 1340 436 1356 [[Element:Grande1-4|Grande1-4]]
rect 377 1357 413 1373 [[Element:RIRE2|RIRE2]]
rect 377 1322 444 1338 [[Element:B1147A04.5|B1147A04.5]]
rect 377 1375 433 1391 [[Element:RetroSor1|RetroSor1]]
rect 377 1392 420 1408 [[Element:Cinful-1|Cinful-1]]
rect 377 1305 404 1321 [[Element:Ogre|Ogre]]
rect 377 1410 412 1426 [[Element:Tat4-1|Tat4-1]]
rect 377 1427 397 1443 [[Element:Tft2|Tft2]]
rect 377 1462 404 1478 [[Element:Cer5|Cer5]]
rect 377 1480 404 1496 [[Element:Cer6|Cer6]]
rect 377 1445 404 1461 [[Element:Cer4|Cer4]]
rect 377 1514 410 1530 [[Element:SURL|SURL]]
rect 377 1532 400 1548 [[Element:Mag|Mag]]
rect 377 1584 404 1600 [[Element:DRM|DRM]]
rect 377 1602 402 1618 [[Element:SPM|SPM]]
rect 377 1567 409 1583 [[Element:CFG1|CFG1]]
rect 377 1549 427 1565 [[Element:Hydra2-1|Hydra2-1]]
rect 377 1497 418 1513 [[Element:Gulliver|Gulliver]]
rect 377 1672 411 1688 [[Element:Cigr-1|Cigr-1]]
rect 377 1637 404 1653 [[Element:Cer2|Cer2]]
rect 377 1619 404 1635 [[Element:Cer3|Cer3]]
rect 377 1654 404 1670 [[Element:Cer1|Cer1]]
rect 377 1899 422 1915 [[Element:Legolas|Legolas]]
rect 377 1881 402 1897 [[Element:Tma|Tma]]
rect 377 1864 396 1880 [[Element:Del|Del]]
rect 377 1847 425 1863 [[Element:Peabody|Peabody]]
rect 377 1829 415 1845 [[Element:Bagy-1|Bagy-1]]
rect 377 1812 435 1828 [[Element:Retrosat-2|Retrosat-2]]
rect 377 1777 419 1793 [[Element:Tntom1|Tntom1]]
rect 377 1759 418 1775 [[Element:Monkey|Monkey]]
rect 377 1794 427 1810 [[Element:Galadriel|Galadriel]]
rect 377 1724 406 1740 [[Element:Gimli|Gimli]]
rect 377 1742 397 1758 [[Element:Ifg7|Ifg7]]
rect 377 1707 406 1723 [[Element:Gloin|Gloin]]
rect 377 1689 410 1705 [[Element:Reina|Reina]]
rect 377 1934 418 1950 [[Element:Cereba|Cereba]]
rect 377 1916 404 1932 [[Element:CRM|CRM]]
rect 377 1951 419 1967 [[Element:Beetle1|Beetle1]]
rect 377 1969 427 1985 [[Element:G-Rhodo|G-Rhodo]]
rect 377 1986 410 2002 [[Element:REM1|REM1]]
rect 377 2039 407 2055 [[Element:Cgret|Cgret]]
rect 377 2056 404 2072 [[Element:Pyret|Pyret]]
rect 377 2021 413 2037 [[Element:Skippy|Skippy]]
rect 377 2004 403 2020 [[Element:Cft-1|Cft-1]]
rect 377 2091 412 2107 [[Element:Maggy|Maggy]]
rect 377 2109 418 2125 [[Element:Dane-1|Dane-1]]
rect 377 2074 413 2090 [[Element:marY1|marY1]]
rect 377 2161 432 2177 [[Element:Sushi-ichi|Sushi-ichi]]
rect 377 2179 427 2195 [[Element:Amn-san|Amn-san]]
rect 377 2144 416 2160 [[Element:Amn-ni|Amn-ni]]
rect 377 2126 425 2142 [[Element:Amn-ichi|Amn-ichi]]
rect 377 2196 418 2212 [[Element:MGLR3|MGLR3]]
rect 377 2231 409 2247 [[Element:Pyggy|Pyggy]]
rect 377 2249 403 2265 [[Element:Real|Real]]
rect 377 2266 407 2282 [[Element:Ty3-1|Ty3-1]]
rect 377 2283 419 2299 [[Element:Skipper|Skipper]]
rect 377 2318 398 2334 [[Element:TF2|TF2]]
rect 377 2336 398 2352 [[Element:TF1|TF1]]
rect 377 2301 405 2317 [[Element:Tse3|Tse3]]
rect 377 2353 422 2369 [[Element:Osvaldo|Osvaldo]]
rect 377 2371 405 2387 [[Element:Woot|Woot]]
rect 377 2388 406 2404 [[Element:Circe|Circe]]
rect 377 2406 422 2422 [[Element:Ulysses|Ulysses]]
rect 377 2423 408 2439 [[Element:Gmr1|Gmr1]]
rect 377 2441 412 2457 [[Element:rGmr1|rGmr1]]
rect 377 2476 408 2492 [[Element:XEN1|XEN1]]
rect 377 2493 426 2509 [[Element:ZFERV-2|ZFERV-2]]
rect 377 2511 408 2527 [[Element:SnRV|SnRV]]
rect 377 2528 423 2544 [[Element:ASSBSV|ASSBSV]]
rect 377 2546 415 2562 [[Element:ZFERV|ZFERV]]
rect 377 2563 410 2579 [[Element:WdSV|WdSV]]
rect 377 2633 432 2649 [[Element:RCHO-K1|RCHO-K1]]
rect 377 2650 407 2666 [[Element:MuLV|MuLV]]
rect 377 2616 405 2632 [[Element:FeLV|FeLV]]
rect 377 2598 416 2614 [[Element:BAEVM|BAEVM]]
rect 377 2668 437 2684 [[Element:PERV-MSL|PERV-MSL]]
rect 377 2685 401 2701 [[Element:REV|REV]]
rect 377 2720 408 2736 [[Element:MdEV|MdEV]]
rect 377 2738 408 2754 [[Element:KoRV|KoRV]]
rect 377 2703 407 2719 [[Element:GALV|GALV]]
rect 377 2581 422 2597 [[Element:HERV-E|HERV-E]]
rect 377 2458 421 2474 [[Element:RTVL-Ia|RTVL-Ia]]
rect 377 2808 418 2824 [[Element:HTLV-1|HTLV-1]]
rect 377 2790 418 2806 [[Element:HTLV-2|HTLV-2]]
rect 377 2773 399 2789 [[Element:BLV|BLV]]
rect 377 2878 410 2894 [[Element:MPMV|MPMV]]
rect 377 2895 412 2911 [[Element:SRV-1|SRV-1]]
rect 377 2860 409 2876 [[Element:SERV|SERV]]
rect 377 2913 423 2929 [[Element:SMRV-H|SMRV-H]]
rect 377 2930 407 2946 [[Element:JSRV|JSRV]]
rect 377 2965 422 2981 [[Element:K-HERV|K-HERV]]
rect 377 2983 436 2999 [[Element:HERV-K10|HERV-K10]]
rect 377 2948 409 2964 [[Element:MMTV|MMTV]]
rect 377 2843 401 2859 [[Element:RSV|RSV]]
rect 377 3000 408 3016 [[Element:LPDV|LPDV]]
rect 377 3017 414 3033 [[Element:PyERV|PyERV]]
rect 377 2755 428 2771 [[Element:MuERV-L|MuERV-L]]
rect 377 3070 420 3086 [[Element:SIVMAC|SIVMAC]]
rect 377 3087 407 3103 [[Element:HIV-2|HIV-2]]
rect 377 3052 407 3068 [[Element:HIV-1|HIV-1]]
rect 377 3105 422 3121 [[Element:SIVMND|SIVMND]]
rect 377 3122 420 3138 [[Element:SIVAGM|SIVAGM]]
rect 377 3035 402 3051 [[Element:EIAV|EIAV]]
rect 377 3157 394 3173 [[Element:FIV|FIV]]
rect 377 3192 408 3208 [[Element:CAEV|CAEV]]
rect 377 3210 428 3226 [[Element:SA-OMVV|SA-OMVV]]
rect 377 3175 400 3191 [[Element:VMV|VMV]]
rect 377 3140 395 3156 [[Element:BIV|BIV]]
rect 377 3245 407 3261 [[Element:Mdg3|Mdg3]]
rect 377 3262 429 3278 [[Element:Blastopia|Blastopia]]
rect 377 3280 407 3296 [[Element:Mdg1|Mdg1]]
rect 377 3297 398 3313 [[Element:412|412]]
rect 377 3227 423 3243 [[Element:Micropia|Micropia]]
rect 377 3332 403 3348 [[Element:Yoyo|Yoyo]]
rect 377 3350 446 3366 [[Element:HMS-Beagle|HMS-Beagle]]
rect 377 3315 418 3331 [[Element:Nomad|Nomad]]
rect 377 3402 422 3418 [[Element:Gypsyvir|Gypsyvir]]
rect 377 3419 410 3435 [[Element:Gypsy|Gypsy]]
rect 377 3384 422 3400 [[Element:Burdock|Burdock]]
rect 377 3367 424 3383 [[Element:Springer|Springer]]
rect 377 3489 402 3505 [[Element:Tom|Tom]]
rect 377 3507 398 3523 [[Element:297|297]]
rect 377 3472 401 3488 [[Element:17.6|17.6]]
rect 377 3454 405 3470 [[Element:Idefix|Idefix]]
rect 377 3437 396 3453 [[Element:Tv1|Tv1]]
rect 377 3524 402 3540 [[Element:Zam|Zam]]
rect 377 3542 398 3558 [[Element:Ted|Ted]]
rect 377 3594 410 3610 [[Element:SFV-1|SFV-1]]
rect 377 3612 400 3628 [[Element:HFV|HFV]]
rect 377 3629 399 3645 [[Element:BFV|BFV]]
rect 377 3647 399 3663 [[Element:EFV|EFV]]
rect 377 3577 398 3593 [[Element:FFV|FFV]]
rect 377 3559 415 3575 [[Element:DrFV-1|DrFV-1]]
rect 377 3699 410 3715 [[Element:Nabel|Nabel]]
rect 377 3717 408 3733 [[Element:Tribel|Tribel]]
rect 377 3682 395 3698 [[Element:Bel|Bel]]
rect 377 3734 400 3750 [[Element:Roo|Roo]]
rect 377 3751 398 3767 [[Element:Max|Max]]
rect 377 3664 414 3680 [[Element:Moose|Moose]]
rect 377 3769 404 3785 [[Element:Cer7|Cer7]]
rect 377 3786 410 3802 [[Element:Mabel|Mabel]]
rect 377 3804 398 3820 [[Element:Tas|Tas]]
rect 377 3839 423 3855 [[Element:Spirobel|Spirobel]]
rect 377 3856 427 3872 [[Element:Hydra3-1|Hydra3-1]]
rect 377 3821 422 3837 [[Element:Cer10-1|Cer10-1]]
rect 377 3891 412 3907 [[Element:Saci-6|Saci-6]]
rect 377 3909 416 3925 [[Element:Sinbad|Sinbad]]
rect 377 3874 409 3890 [[Element:Kobel|Kobel]]
rect 377 3926 406 3942 [[Element:Ninja|Ninja]]
rect 377 3944 407 3960 [[Element:Tamy|Tamy]]
rect 377 3961 399 3977 [[Element:Pao|Pao]]
rect 377 3979 408 3995 [[Element:Zebel|Zebel]]
rect 377 3996 410 4012 [[Element:Cubel|Cubel]]
rect 377 4031 410 4047 [[Element:Gabel|Gabel]]
rect 377 4049 404 4065 [[Element:Suzu|Suzu]]
rect 377 4014 413 4030 [[Element:Purbel|Purbel]]
rect 377 4084 402 4100 [[Element:Tor2|Tor2]]
rect 377 4101 402 4117 [[Element:Tor1|Tor1]]
rect 377 4066 409 4082 [[Element:Tor4a|Tor4a]]
rect 377 4119 428 4135 [[Element:Boudicca|Boudicca]]
rect 377 4136 415 4152 [[Element:Kabuki|Kabuki]]
rect 377 4153 418 4169 [[Element:CsRN1|CsRN1]]
rect 377 4223 442 4239 [[Element:BRRV|BRRV]]
rect 377 4206 449 4222 [[Element:CSVMV|CSVMV]]
rect 377 4188 449 4204 [[Element:SbCMV|SbCMV]]
rect 377 4171 441 4187 [[Element:PCSV|PCSV]]
rect 377 4241 407 4257 [[Element:TVCV|TVCV]]
rect 377 4328 414 4344 [[Element:LLDAV|LLDAV]]
rect 377 4346 409 4362 [[Element:CaMV|CaMV]]
rect 377 4311 410 4327 [[Element:CERV|CERV]]
rect 377 4363 405 4379 [[Element:MiMV|MiMV]]
rect 377 4381 400 4397 [[Element:FMV|FMV]]
rect 377 4293 407 4309 [[Element:SVBV|SVBV]]
rect 377 4276 408 4292 [[Element:EVCV|EVCV]]
rect 377 4258 416 4274 [[Element:RuFDV|RuFDV]]
rect 377 4398 427 4414 [[Element:CmYLCV|CmYLCV]]
rect 377 4416 417 4432 [[Element:SbCMV|SbCMV]]
rect 377 4433 410 4449 [[Element:BRRV|BRRV]]
rect 377 4451 409 4467 [[Element:PCSV|PCSV]]
rect 377 4486 408 4502 [[Element:RTBV|RTBV]]
rect 377 4503 408 4519 [[Element:PVCV|PVCV]]
rect 377 4468 417 4484 [[Element:CSVMV|CSVMV]]
rect 377 4520 416 4536 [[Element:BSGFV|BSGFV]]
rect 377 4538 414 4554 [[Element:BSVAV|BSVAV]]
rect 377 4555 416 4571 [[Element:BSOLV|BSOLV]]
rect 377 4573 407 4589 [[Element:KTSV|KTSV]]
rect 377 4590 414 4606 [[Element:BSMyV|BSMyV]]
rect 377 4608 409 4624 [[Element:CLNV|CLNV]]
rect 377 4625 427 4641 [[Element:ComYMV|ComYMV]]
rect 377 4643 406 4659 [[Element:DrMV|DrMV]]
rect 377 4660 418 4676 [[Element:ScBIMV|ScBIMV]]
rect 377 4678 423 4694 [[Element:BSCVBV|BSCVBV]]
rect 377 4695 406 4711 [[Element:TaBV|TaBV]]
rect 377 4713 401 4729 [[Element:DBV|DBV]]
rect 377 4730 409 4746 [[Element:CYMV|CYMV]]
rect 377 4748 409 4764 [[Element:CSSV|CSSV]]
rect 379 2213 452 2229 [[Element:Grasshopper|Grasshopper]]
rect 376 2827 462 2843 [[Element:STcLV2PP1664|STcLV2PP1664]]
</imagemap>
|method=
Phylogenetic reconstruction inferred based on the protease protein (AP) -encoded by the pol internal region common to ''Ty3/Gypsy'', ''Retroviridae'', ''Bel/Pao'', ''Caulimoviridae'' and ''Ty1/Copia'' LTR retroelement families- and on a second non-pol protease-like domain, encoded by the ORF7 of three soymoviruses and by the C-terminus of CSVMV-ORF I ''Cavemovirus'' (downstream to the MOV region) (highlighted in red). The tree has been reconstructed using Felsenstein´s protein sequence parsimony method based on ([[Literature:19822|Eck and Dayhoff 1966]]) and ([[Literature:85508|Fitch 1971]]) to generate a majority-rule consensus tree ([[Literature:47231|Margush and McMorris 1981]]). As majority-rule consensus tree usually consists of all groups that occur more than 50% of the time, we take consensus values upper to 50 as an equivalent-bootstrapping reference

}}

Phylogeny:AP LTR retroelements - Revision history

imported>Gydbwiki at 15:23, 17 June 2010