Additional file 9.

Phylogenetic tree of BIR domains of BIRPs. BIR domains in the putative IAP genes found in Mj024A04 were compared with BIR domains from several organisms. Amino acid sequences of putative IAP gene 01, 06 and 24 were predicted by GENSCAN [42]. Each BIR domains was identified using InterProScan (version 22.0) [44]. Multiple sequence alignment and the phylogenetic tree of BIR domains were constructed using ClustalW after excluding all gap positions and assigning confidence of 1000 bootstrap samples. If multiple BIR domains were observed in a single gene, they are labelled alphabetically at the end of the gene's name. The GenBank identifier (GI) numbers for BIRP amino acid sequences and regions of BIR domains used in the analysis are as follows: bir-1_CAEEL (17564820; 15-88), bir-2_CAEEL (17557418; 22-99 and 165-242), Bir1p_SACCE (6322548; 20-117 and 153-241), bruce_DROME (45550729; 246-322), Bruce_HOMSA (153792694; 284-360), cIAP-1_HOMSA (14770185; 44-115, 182-252 and 267-338), cIAP-2_HOMSA (13639695; 27-98, 167-237 and 253-324), deterin_DROME (21355525; 26-102), gp019_BMNPV (9630835; 27-98 and 129-201), gp041_OPMNV (9629979; 22-93 and 124-195), gp242_MSEV (9631408; 15-77), IAP_GVCP (1170470; 5-75 and 106-177), IAP_PENMO (133754273; 12-83, 103-173 and 253-324), Iap2B_DROME (28573797; 7-78, 111-181 and 210-281), ML-IAP_HOMSA (11545910; 85-156), NAIP_HOMSA (119393878; 58-129, 157-229 and 276-347), OpIAP_ORGPSMNPV (9629973; 16-86 and 109-180), sfIAP_SPOFR (7021325; 98-168 and 208-279), Survivin_HOMSA (59859878; 13-89), survivin_SCHPO (162312092; 20_100 and 115-195), threadB_DROME (24664971; 42-112 and 224-295), VF193_IIV6 (33302608; 35-110), XIAP_HOMSA (12643387; 24-95, 161-232 and 263-332). GeneIDs in which Daphnia plex BIRPs were retrieved from wFleaBase [18] and regions of the BIR domains used in the analysis are as follows: Bruce_DAPPL (NCBI_GNO_248214; 320-396), Deterin_DAPPL (NCBI_GNO_774064; 21-105), IAP2_DAPPL (NCBI_GNO_324854; 9-75 and 158-229), thread_DAPPL (NCBI_GNO_284524; 52-122 and 158-229). BIR domains of putative gene 01, 06 and 24 used in the analysis are as follows: Gene 01 (18-95, 124-194 and 244-315), Gene 06 (36-106, 124-199, 268-339, 659-730 and 787-858), Gene 24 (9-80, 100-170 and 248-319).

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Koyama et al. BMC Genomics 2010 11:141   doi:10.1186/1471-2164-11-141