TABLE 1

Cross-species comparisons of sequence divergence levels and ortholog detection analyses for individual D. melanogaster ACPs

GeneFunctional classdN simdS simdN/dS simdN yakdS yakdN/dS yakWGATBN
Conserved in D. pseudoobscura
CG1262 (Acp62F)Trypsin protease inhibitor0.0500.1260.3990.2190.3590.611+NA
CG1462aAlkaline phosphatase0.0130.1250.1070.0340.3480.097+NA
CG1652aC-type lectin0.0210.1480.1400.0520.2810.186+NA
CG1656aC-type lectin0.0160.0960.1710.0710.2620.273+NA
CG3359aFasciclin0.0100.0910.1040.0060.2000.028+NA
CG4605 (Acp32CD)0.0140.0121.1760.0690.2200.312+NA
CG4847aCysteine protease0.0200.1140.1770.0430.2820.151+NA
CG6069aSerine protease0.0160.1310.1190.1200.4040.297+NA
CG6168aSerine protease0.0360.1760.2030.0850.3650.232+NA
CG8093aAcid lipase0.0050.1190.0390.0160.3990.040+NA
CG8194aRNase0.0110.1210.0940.0200.2760.072+NA
CG8622 (Acp53Ea)0.0390.1430.2750.1200.2820.425+NA
CG9024 (Acp26Ab)0.0180.0590.3050.1500.3560.422+NA
CG9029a0.0770.1560.4940.3090.4440.695+NA
CG9997aSerine protease0.0310.1080.2910.1000.3930.254+NA
CG10284aCRISP0.0440.1060.4130.1350.3480.387+NA
CG10363aα-Macroglobulin0.0150.0710.2100.0360.2910.123+NA
CG10433aDefensin0.0090.0270.3170.0370.1050.347+NA
CG11598aAcid lipase0.0260.2170.1210.4661.4210.328+NA
CG11864aMetalloprotease0.0200.0900.2270.0990.3390.293+NA
CG13309a0.0290.1170.2460.0850.3010.282+NA
CG16707a0.0520.1080.4830.0640.2110.304+NA
CG17097aAcid lipase0.0100.1250.0820.0640.2080.309+NA
CG17575aCRISP0.0070.1650.0390.0160.1720.093+NA
CG17673 (Acp70A)0.0280.1240.2270.1460.2940.497+NA
CG17843aThioredoxin0.0190.1100.1750.0590.4030.147+NA
CG17924 (Acp95EF)0.0370.2230.1640.2590.4110.630+NA
CG18284aAcid lipase0.0340.1900.1790.1040.4240.244+NA
CG32952-A (Acp33A)0.0070.0810.0850.1290.5310.243+NA
Without a D. pseudoobscura true ortholog
CG3801 (Acp76A)Serpin0.0250.1420.1780.1690.4670.361+
CG49860.1580.1610.9780.5280.5890.897
CG50160.0000.0000.0000.1560.3680.423
CG6289aSerpin0.0770.1250.6160.3590.4140.867+
CG7157 (Acp36DE)0.0490.1320.3710.2920.6330.461
CG8137aSerpin0.0830.0940.8820.1690.3900.433+
CG8982 (Acp26Aa)0.1560.1670.9340.4840.4651.040
CG90740.0400.2530.1570.1740.6190.282+
CG9334aSerpin0.0870.1180.7370.1600.3990.402+
CG10852 (Acp63F)0.1320.1760.7520.4210.5520.763
CG10956aSerpin0.0310.1320.2380.0670.3460.193+
CG11664aSerine protease0.0290.1600.1830.1030.4030.255+
CG14034aPhospholipase0.0220.1610.1380.1210.3850.315+
CG14560a0.0710.1450.4920.2070.4460.463+
CG17797 (Acp29AB)C-type lectin0.0780.2530.3080.4340.9730.446+
CG31056 (Acp98AB)0.1190.000NA0.0670.2610.257
CG31872aAcid lipase0.0320.2340.1360.1830.3680.497c/bNA
CG32952-B (Acp33A)0.0070.0810.085NANANANA
BG642378(6h1)aSerpin0.0630.1500.4210.1690.3600.469+
BG642167(1a8)a0.1540.3110.4940.1480.3220.458
BG642312(4h1)a0.0840.1600.5210.1450.1820.798
BG642163(1a3)a0.0780.0501.5680.4010.5640.711
All Acp averages0.0450.1310.4730.1610.3970.407
  • D. melanogaster ACPs conserved in D. pseudoobscura are listed first and D. melanogaster ACPs not identifiable via our WGA detection methods are listed second. c/b, contig breakpoint at site of an Acp, presence of ortholog undeterminable; TBN, TBLASTN hits against the D. pseudoobscura genome; WGA, SMASH blocks-based whole-genome alignment identification of true Acp orthologs in D. pseudoobscura; sim, D. simulans; yak, D. yakuba; dN, nonsynonymous nucleotide substitution value; dS, synonymous nucleotide substitution value; NA, not applicable.

  • a The 34 new ACPs selected from Swanson et al. (2001a) EST that fit our newly defined criteria.