BMC Genomics 2006, 7:282 http://www.biomedcentral.com/1471-2164/7/282 PY00479 PF13_0080 Pv122530 PY00479 PF13_0080 Pv122530 PY00479 PF13_0080 Pv122530 PY00479 PF13_0080 Pv122530 PY00479 PF13_0080 Pv122530 PY00479 PF13_0080 Pv122530 PY00479 PF13_0080 Pv122530 1 ------DNGNGEKNVNKVYMHKIKNMIEKRNFLLKLNCINNFFSKKLRINWIPKKKGLRP 1028 NEKNNIDDSNLEKKKKKIYIYKIKNIIEKRNFMLKLNSINHFISKKLRINWIPKKKGLRP 1434 ------ETAKSAKSAKKTHVHKIKSVIEKRNFLLKLNAINRFFSKRLRINWVPKKKGLRP 1271 : .: *. :* :::***.:******:****.**.*:**:*****:******** 2 LINLSTLNIPESVKARVTEILKNKKSSEFYYHNILENLERKKEKNNPLRKKKYNRKNYNP 1088 LINLSTLNVPEIVKQRIFEILKSKKSSEFYFHNILNNLEREKKDKNIKKRKKYNKKNFNP 1494 LINLSTLNIPESVKNRIREILKNKKSSEFYFHTILNNMERDSKEKNS-RRKKYNRKNFNP 1330 ********:** ** *: ****.*******:*.**:*:**..:.:* ::****:**:** 2 A VSLNNICKFSLKCLGNARSNNSCLFKNTLTKTNEIELKLKNWLEDIKNCFYRKKIYRKYI 1148 VSLNNICNFSLKCLGNMRHNNNSLFKNTLTKTGEIELKLKKWLHYLKNWFYKKKRMKKYI 1554 VSLNHICNFSLKCLGNVRNNNSALFRNTLTKTNETELKLKKWLDYLKNWFYRKKKNKKYI 1390 ****:**:******** * **..**:******.* *****:**. :** **:** :*** A KNKLRNNKIIYAYICVGDFSNCYEHINHNYLFKFLKHFFDQVSNFEFVYLFKRSFRLYNK 1208 KNKLKNNKKIYAYICIGDFSNCYEHINHNYLFKILKNFFDNINNFEFIYLFKRSFRLYNK 1614 KNKLKKGKIIYAYICIGDFSNCYEHINHNYLFKMLKHFFHGITNFEFIYVFKRSFRLYNH 1450 ****::.* ******:*****************:**:**. :.****:*:*********: B’ 1500 IGDHNIKKENNLVILQNDRERTLPIPQPNESFNLGDKTETNKIYSEKKILTFLDKNIISN 1568 1859 NSKNDIIKYHKTIDTDNSK---------------------NHTYFKNKFLNFLDKKIISN 1919 1730 NSASNCAANSASNCASNCAAN----------CAANFLDRTPRTPAEKHFLTFQDKKIISD 1790 . : .* : ::::*.* **:***: B’ ICGLPQGFSLSNILCSLYYAYLDKNKEFQNILYIERKE--SNKTNNSINKKIYCNPLNTN 1626 IYGLPQGFSLSNILCSLYYAYLDKNEEFQNLLYSEKQI--NNKYFLANG---TCNYFNLN 1974 ICGLPQGFSLSNILCSLYYAYLDRNEDFQNVLYSEKGQGRTASPLPQNEKAKGVNYQNLN 1850 * *********************:*::***:** *: . . * * * C D SLLIRFIDDFLFSTLNKKNIRIFKNLLLKRKIWGENINSSKTKIFKIPLIYKNNLFIYNI 1686 SLILRFIDDFLFITLNKKNIKIFKNLLLKKKIWGSNINSSKTKIFKIPLIYKNDLLIYNF 2034 SLLIRFIDDFLFITVNKRNMKRFKKLLLTRKIWGGNINSSKTKIFKLPLIYRSDLLLENV 1910 **::******** *:**:*:: **:***.:**** ***********:****:.:*:: *. FMiuglutirpele3sequence alignment of PyTERT, PfTERT and PvTERT Multiple sequence alignment of PyTERT, PfTERT and PvTERT. Evidence for the putative P. y. yoelii (PY00479) and P. falciparum (PF13_0080) TERTs has been published previously [10-12]. The candidate P. vivax TERT (Pv122530) was identified in this study. Shaded blocks represent RT conserved domains. * residues common toall three sequences. : conserved residues. . semi-conserved residues 1 or 10. Despite the relatively high E values there were few positive hits (see Results) and we eliminated potential false positives by excluding sequences that demonstrated random homology patterns or which demonstrated no homology in the conserved domains. To further refine and validate our data we excluded ORFs that could potentially represent contaminating DNA. This was done by scanning the genomes of the vertebrate hosts that were used in the respective sequencing projects. All available Saimiri boliviensis boliviensis sequences and the related Mucaca mulatta genome were searched for ORFs with similarity to the potential P. vivax MGEs identified in this study. Similarly, the Mus musculus and the Homo sapi- ens genomes were scanned for ORFs with similarity to the potential MGE domains detected in P. y. yoelii and P. fal- ciparum respectively (see Methods). No potential contam- inating vertebrate host DNA was identified amongst the potential P. vivax and P. falciparum MGE domains. How- ever, several P. y. yoelii sequences demonstrated >80% Page 6 of 10 (page number not for citation purposes)