Genome group differences in over/underabundance of protein families 36 eukaryote genomes from supfam.org were used: 18 invertebrate and 17 vertebrate. Of these 14 are aquatic, 21 are terristrial. Excluded were fungi, plants, protists. Family subset is taken from Daphnia's most significant deviations 38 of 772 families. Score is root mean square deviation from expected gene count (genome x family) contingency table. Significant (p<0.05) t-test results of RMSD are listed between aquatic/terristrial groups, and invert./vert. groups. 4 families have significant aquatic vs terristrial average difference. 28 families have significant invertebrate vs vertebrate average difference. #................... "aquatic-terristrial fam sf81320 Rhodopsin-like" ** daphnia overabundant "aquatic-terristrial fam sf51665 Xylose isomerase" ** daphnia overabundant "aquatic-terristrial fam sf53452 beta 1,4 galactosyltransferase (b4GalT1)" ** daphnia overabundant "aquatic-terristrial fam sf54929 Canonical RBD" * underabundant daphnia #.... ^^^^ daphnia deviants ^^^^ ..... #.... other aqua-terr differences, no daphnia deviation ...... "aquatic-terristrial fam sf82904 Noggin" "aquatic-terristrial fam sf82283 Homocysteine S-methyltransferase" "aquatic-terristrial fam sf81287 ML domain" "aquatic-terristrial fam sf64357 Synatpobrevin N-terminal domain" "aquatic-terristrial fam sf63984 Sir2 family of transcriptional regulators" "aquatic-terristrial fam sf63708 Ganglioside M2 (gm2) activator" "aquatic-terristrial fam sf63608 Leukotriene A4 hydrolase C-terminal domain" "aquatic-terristrial fam sf55935 Guanido kinase catalytic domain" "aquatic-terristrial fam sf55528 Matrix metalloproteases, catalytic domain" "aquatic-terristrial fam sf53496 Prolyl oligopeptidase, C-terminal domain" "aquatic-terristrial fam sf52769 Arginase-like amidino hydrolases" "aquatic-terristrial fam sf52592 G proteins" "aquatic-terristrial fam sf52468 Deoxyhypusine synthase, DHS" "aquatic-terristrial fam sf52426 Cryptochrome/photolyase, N-terminal domain" "aquatic-terristrial fam sf52002 R1 subunit of ribonucleotide reductase, C-terminal domain" "aquatic-terristrial fam sf51557 Adenosine deaminase (ADA)" "aquatic-terristrial fam sf49600 TRAF domain" "aquatic-terristrial fam sf48174 Cryptochrome/photolyase FAD-binding domain" "aquatic-terristrial fam sf48035 Guanido kinase N-terminal domain" "aquatic-terristrial fam sf47502 Calmodulin-like" "aquatic-terristrial fam sf46887 Methionine aminopeptidase, insert domain" "aquatic-terristrial fam sf110436 Ornithine cyclodeaminase-like (Pfam 02423)" "aquatic-terristrial fam sf103648 TSP type-3 repeat" "aquatic-terristrial fam sf102079 Putative alpha-L-fucosidase, catalytic domain" "aquatic-terristrial fam sf101643 Thrombospondin C-terminal domain" "aquatic-terristrial fam sf49266 Fibronectin type III" #............... Protein Structural Influences in Rhodopsin Evolution Lorraine Marsh* and Carole S. Griffiths Molecular Biology and Evolution 2005 22(4):894-904; doi:10.1093/molbev/msi081 >> has phylo tree separating Rhodopsins of teleost, mammal, amphibian, lizard/lamprey/chicken/alligator groups "The Asn83 form produces a rhodopsin that is blueshifted relative to the Asp83 form, which may be more adaptive in aquatic environments. " ...... Environmental Genome Shotgun Sequencing of the Sargasso Sea JC Venter, K Remington, JF Heidelberg, AL Halpern, et al. Science. 2004 Apr 2;304(5667):66-74. We have applied "whole-genome shotgun sequencing" to microbial populations collected en masse on tangential flow and impact filters from seawater samples collected from the Sargasso Sea near Bermuda. We have identified over 1.2 million previously unknown genes represented in these samples, including more than 782 new rhodopsin-like photoreceptors. < **** .... Xylose isomerase ... >> bacterial papers mostly ... Genetic Analysis of a Novel Pathway for D-Xylose Metabolism in Caulobacter crescentus. Craig Stephens, et al. Journal of Bacteriology, March 2007, p. 2181-2185, Vol. 189, No. 5 ... xylose metabolism has not been further examined in these diverse species. We speculate that they share with C. crescentus a common pathway for D-xylose degradation, encoded in a gene cluster that may have been horizontally transferred in aquatic and/or soil habitats. #............... > for (r in colnames(d[,selfam.d7])) { + fn<- fams[r,"name"] + tat<- t.test(d[c(sp.ai,sp.av),r],d[c(sp.ti,sp.tv),r]) + if(tat$p.value<=0.05) { print(paste("aquatic-terristrial fam",r,fn)); print(tat); } + } "aquatic-terristrial fam sf49266 Fibronectin type III" "gene counts: ai= 7.71, av= 68.00, tv=157.70, ti= 4.00" data: d[c(sp.ai, sp.av), r] and d[c(sp.ti, sp.tv), r] t = -2.32, df = 28.1, p-value = 0.02766 95 percent confidence interval: -8.509 -0.535 mean of x mean of y : -3.588 0.934 "aquatic-terristrial fam sf51665 Xylose isomerase" "gene counts: ai=2.86, av=1.57, tv=1.00, ti=1.18" data: d[c(sp.ai, sp.av), r] and d[c(sp.ti, sp.tv), r] t = 2.25, df = 19.7, p-value = 0.03618 95 percent confidence interval: 0.0545 1.4772 mean of x mean of y : 0.579 -0.187 "aquatic-terristrial fam sf53506 Gastric lipase" "gene counts: ai= 9.00, av= 1.86, tv= 9.40, ti=15.73" data: d[c(sp.ai, sp.av), r] and d[c(sp.ti, sp.tv), r] t = -2.77, df = 32.1, p-value = 0.009314 95 percent confidence interval: -5.431 -0.825 mean of x mean of y : -1.31 1.82 "aquatic-terristrial fam sf54929 Canonical RBD" "gene counts: ai= 23.7, av= 73.0, tv=109.4, ti= 27.6" data: d[c(sp.ai, sp.av), r] and d[c(sp.ti, sp.tv), r] t = -2.38, df = 32.2, p-value = 0.02358 95 percent confidence interval: -5.159 -0.398 mean of x mean of y : -2.112 0.666 "aquatic-terristrial fam sf81320 Rhodopsin-like" "gene counts: ai=24.3, av=41.9, tv=17.1, ti=11.8" data: d[c(sp.ai, sp.av), r] and d[c(sp.ti, sp.tv), r] t = 3.44, df = 16.5, p-value = 0.003218 95 percent confidence interval: 1.34 5.62 mean of x mean of y : 2.21 -1.27 "aquatic-terristrial fam sf47114 Nucleosome core histones" "gene counts: ai= 96.4, av=131.9, tv= 87.4, ti= 51.2" data: d[c(sp.ai, sp.av), r] and d[c(sp.ti, sp.tv), r] t = 1.86, df = 21.6, p-value = 0.077 95 percent confidence interval: -0.425 7.621 mean of x mean of y 2.27 -1.33 #........................................ > for (r in colnames(d[,selfam.d7])) { + fn<- fams[r,"name"] + fc<- paste(rownames(fm3), format(fm3[,r]), sep="=", collapse=", ") + tat<- t.test(d[c(sp.ai,sp.ti),r],d[c(sp.av,sp.tv),r]) + if(tat$p.value<=0.05) { + print(paste("invert-vertebrate fam",r,fn)); print(paste("gene counts: ",fc)); + print(tat); + } + } "invert-vertebrate fam sf47965 Transcription factor IIB (TFIIB), core domain" "gene counts: ai=4.57, av=5.00, tv=3.40, ti=3.45" data: d[c(sp.ai, sp.ti), r] and d[c(sp.av, sp.tv), r] t = 3.58, df = 33, p-value = 0.001092 95 percent confidence interval: 0.533 1.939 mean of x mean of y : 0.726 -0.510 "invert-vertebrate fam sf48132 Myeloperoxidase-like" "gene counts: ai=30.1, av=15.0, tv=16.8, ti=15.5" data: d[c(sp.ai, sp.ti), r] and d[c(sp.av, sp.tv), r] t = 4.25, df = 20.1, p-value = 0.0003851 95 percent confidence interval: 1.95 5.70 mean of x mean of y : 2.18 -1.64 "invert-vertebrate fam sf49266 Fibronectin type III" "gene counts: ai= 7.71, av= 68.00, tv=157.70, ti= 4.00" data: d[c(sp.ai, sp.ti), r] and d[c(sp.av, sp.tv), r] t = -6.1, df = 17.2, p-value = 1.113e-05 95 percent confidence interval: -13.39 -6.51 mean of x mean of y : -5.71 4.24 "invert-vertebrate fam sf49330 Cu,Zn superoxide dismutase-like" "gene counts: ai=6.14, av=5.00, tv=4.30, ti=4.91" data: d[c(sp.ai, sp.ti), r] and d[c(sp.av, sp.tv), r] t = 4.66, df = 24.5, p-value = 9.547e-05 95 percent confidence interval: 1.05 2.71 mean of x mean of y : 1.117 -0.761 "invert-vertebrate fam sf49971 Glycosyl hydrolase family 7 catalytic core" "gene counts: ai=1.71, av=1.00, tv=1.00, ti=1.00" data: d[c(sp.ai, sp.ti), r] and d[c(sp.av, sp.tv), r] t = 2.76, df = 17.8, p-value = 0.013 95 percent confidence interval: 0.237 1.751 mean of x mean of y : 0.611 -0.383 "invert-vertebrate fam sf50045 SH3-domain" "gene counts: ai= 6.14, av= 65.43, tv=115.40, ti= 6.18" data: d[c(sp.ai, sp.ti), r] and d[c(sp.av, sp.tv), r] t = -9.17, df = 18.3, p-value = 2.880e-08 95 percent confidence interval: -10.4 -6.5 mean of x mean of y : -4.82 3.62 "invert-vertebrate fam sf50157 PDZ domain" "gene counts: ai= 12.14, av= 80.57, tv=122.20, ti= 9.82" data: d[c(sp.ai, sp.ti), r] and d[c(sp.av, sp.tv), r] t = -9.39, df = 18, p-value = 2.357e-08 95 percent confidence interval: -9.97 -6.33 mean of x mean of y : -4.62 3.53 "invert-vertebrate fam sf50514 Eukaryotic proteases" "gene counts: ai= 15.9, av= 95.4, tv=118.5, ti= 12.2" data: d[c(sp.ai, sp.ti), r] and d[c(sp.av, sp.tv), r] t = -9.3, df = 30.4, p-value = 2.068e-10 95 percent confidence interval: -9.52 -6.10 mean of x mean of y : -4.41 3.40 "invert-vertebrate fam sf51534 Type II chitinase" "gene counts: ai=11.43, av= 7.57, tv=11.80, ti=20.36" data: d[c(sp.ai, sp.ti), r] and d[c(sp.av, sp.tv), r] t = 4.82, df = 19.5, p-value = 0.0001126 95 percent confidence interval: 2.52 6.37 mean of x mean of y : 2.64 -1.81 "invert-vertebrate fam sf51665 Xylose isomerase" "gene counts: ai=2.86, av=1.57, tv=1.00, ti=1.18" data: d[c(sp.ai, sp.ti), r] and d[c(sp.av, sp.tv), r] t = 4.97, df = 28, p-value = 3.032e-05 95 percent confidence interval: 0.726 1.745 mean of x mean of y : 0.720 -0.516 "invert-vertebrate fam sf52088 CRAL/TRIO domain" "gene counts: ai=13.1, av=11.7, tv=12.4, ti=10.3" data: d[c(sp.ai, sp.ti), r] and d[c(sp.av, sp.tv), r] t = 3.07, df = 19.4, p-value = 0.006255 95 percent confidence interval: 0.628 3.320 mean of x mean of y : 1.183 -0.791 "invert-vertebrate fam sf53188 Pancreatic carboxypeptidases" "gene counts: ai=21.6, av=22.3, tv=24.1, ti=14.5" data: d[c(sp.ai, sp.ti), r] and d[c(sp.av, sp.tv), r] t = 2.61, df = 31.7, p-value = 0.01383 95 percent confidence interval: 0.258 2.107 mean of x mean of y : 0.684 -0.498 "invert-vertebrate fam sf53402 Cystathionine synthase-like" "gene counts: ai=13.00, av= 9.29, tv= 7.20, ti= 7.55" data: d[c(sp.ai, sp.ti), r] and d[c(sp.av, sp.tv), r] t = 6.56, df = 26.8, p-value = 5.06e-07 95 percent confidence interval: 1.61 3.07 mean of x mean of y : 1.33 -1.01 "invert-vertebrate fam sf53506 Gastric lipase" "gene counts: ai= 9.00, av= 1.86, tv= 9.40, ti=15.73" data: d[c(sp.ai, sp.ti), r] and d[c(sp.av, sp.tv), r] t = 4.34, df = 21.1, p-value = 0.000285 95 percent confidence interval: 2.39 6.80 mean of x mean of y : 2.80 -1.80 "invert-vertebrate fam sf53577 Pancreatic lipase, N-terminal domain" "gene counts: ai=20.6, av=14.1, tv=11.5, ti=20.0" data: d[c(sp.ai, sp.ti), r] and d[c(sp.av, sp.tv), r] t = 4.77, df = 19.2, p-value = 0.0001299 95 percent confidence interval: 2.52 6.45 mean of x mean of y : 2.57 -1.91 "invert-vertebrate fam sf54002 Papain-like" "gene counts: ai=33.0, av=29.0, tv=23.7, ti=17.5" data: d[c(sp.ai, sp.ti), r] and d[c(sp.av, sp.tv), r] t = 3.3, df = 24.4, p-value = 0.002978 95 percent confidence interval: 0.961 4.167 mean of x mean of y : 1.49 -1.07 "invert-vertebrate fam sf54929 Canonical RBD" "gene counts: ai= 23.7, av= 73.0, tv=109.4, ti= 27.6" data: d[c(sp.ai, sp.ti), r] and d[c(sp.av, sp.tv), r] t = -3.84, df = 30.1, p-value = 0.0005884 95 percent confidence interval: -6.38 -1.95 mean of x mean of y : -2.47 1.70 "invert-vertebrate fam sf55502 Neutral endopeptidase (neprilysin)" "gene counts: ai=17.6, av= 8.0, tv=13.3, ti=15.5" data: d[c(sp.ai, sp.ti), r] and d[c(sp.av, sp.tv), r] t = 7.04, df = 22.9, p-value = 3.725e-07 95 percent confidence interval: 2.69 4.94 mean of x mean of y : 2.21 -1.60 "invert-vertebrate fam sf55516 Astacin" "gene counts: ai=14.7, av=19.4, tv= 6.5, ti=12.0" data: d[c(sp.ai, sp.ti), r] and d[c(sp.av, sp.tv), r] t = 3.29, df = 32, p-value = 0.002439 95 percent confidence interval: 0.983 4.177 mean of x mean of y : 1.51 -1.07 "invert-vertebrate fam sf55551 SH2 domain" "gene counts: ai= 18.1, av= 96.7, tv=105.1, ti= 16.5" data: d[c(sp.ai, sp.ti), r] and d[c(sp.av, sp.tv), r] t = -14.7, df = 32.8, p-value = 5.925e-16 95 percent confidence interval: -7.59 -5.74 mean of x mean of y : -3.74 2.92 "invert-vertebrate fam sf55798 PR-1-like" "gene counts: ai=13.00, av= 6.86, tv= 4.50, ti= 6.36" data: d[c(sp.ai, sp.ti), r] and d[c(sp.av, sp.tv), r] t = 4.21, df = 20.9, p-value = 0.0003948 95 percent confidence interval: 1.58 4.67 mean of x mean of y : 1.79 -1.34 "invert-vertebrate fam sf56720 Type II DNA topoisomerase" "gene counts: ai=5.43, av=4.00, tv=3.90, ti=2.82" data: d[c(sp.ai, sp.ti), r] and d[c(sp.av, sp.tv), r] t = 3.43, df = 22.2, p-value = 0.002361 95 percent confidence interval: 0.457 1.850 mean of x mean of y : 0.673 -0.480 "invert-vertebrate fam sf56802 Acetyl-CoA synthetase-like" "gene counts: ai=31.4, av=22.0, tv=27.9, ti=27.3" data: d[c(sp.ai, sp.ti), r] and d[c(sp.av, sp.tv), r] t = 7.26, df = 31.9, p-value = 3.032e-08 95 percent confidence interval: 2.86 5.09 mean of x mean of y : 2.31 -1.66 "invert-vertebrate fam sf64490 RNA-polymerase beta-prime" "gene counts: ai=11.86, av= 4.57, tv= 5.80, ti= 5.27" data: d[c(sp.ai, sp.ti), r] and d[c(sp.av, sp.tv), r] t = 4.24, df = 19.9, p-value = 0.0004063 95 percent confidence interval: 1.28 3.77 mean of x mean of y : 1.42 -1.10 "invert-vertebrate fam sf81269 Extended AAA-ATPase domain" "gene counts: ai=48.3, av=57.1, tv=53.6, ti=39.9" data: d[c(sp.ai, sp.ti), r] and d[c(sp.av, sp.tv), r] t = 5.86, df = 28, p-value = 2.705e-06 95 percent confidence interval: 1.66 3.45 mean of x mean of y : 1.49 -1.07 "invert-vertebrate fam sf82540 Trehalose-6-phosphate synthase, OtsA" "gene counts: ai=1.86, av=1.00, tv=1.00, ti=2.55" data: d[c(sp.ai, sp.ti), r] and d[c(sp.av, sp.tv), r] t = 5.58, df = 18, p-value = 2.707e-05 95 percent confidence interval: 1.17 2.57 mean of x mean of y : 1.098 -0.773 "invert-vertebrate fam sf88854 Protein kinases, catalytic subunit" "gene counts: ai=372, av=652, tv=724, ti=260" data: d[c(sp.ai, sp.ti), r] and d[c(sp.av, sp.tv), r] t = -4.71, df = 26.1, p-value = 7.125e-05 95 percent confidence interval: -6.68 -2.62 mean of x mean of y : -2.67 1.98 #.................. Aquatic-Terristrial Invert/Vert genomes from Supfam.org, feb2008: Sp Taxa Habit Name ax a t Aedes aegypti 44_1a (all transcripts) ag a t Anopheles gambiae 44_3g (all transcripts) ai a t Apis mellifera 37.2d (all transcripts) om a t Bombyx mori bv v t Bos taurus 44_3a (all transcripts) bf i a Branchiostoma floridae 1.0 (Amphioxis: invert/vert transition, aquatic swimmer) ce i t Caenorhabditis elegans WormBase WS147 (all transcripts) cw i t Caenorhabditis briggsae 2 dg v t Canis familiaris 44_2b (all transcripts) i1 i t Capitella sp. I (polychaete worm) c0 i a Ciona savignyi 44_2c (all transcripts) (Urochordata, sea squirt) is i a Ciona intestinalis 44_2e (all transcripts) ie a t Culex pipiens quinquefasciatus da v a Danio rerio 47_7a (all transcripts) d7 a a Daphnia pulex dm a t Drosophila melanogaster FlyBase 4.2 (all transcripts) do a t Drosophila pseudoobscura FlyBase 1.04 gg v t Gallus gallus 44_2b (all transcripts) gc v a Gasterosteus aculeatus 44_1b (all transcripts) (stickleback fish) hs v t Homo sapiens 47_36i (all transcripts) gy i a Lottia gigantea (marine mollusk) ru v t Macaca mulatta 44_10d (all transcripts) op v t Monodelphis domestica 44_5 (all transcripts) mm v t Mus musculus 48_37a (all transcripts) nz a t Nasonia vitripennis nw i a Nematostella vectensis 1.0 (Sea anemone, fresh aquatic preditor worms, insects,) oh v t Ornithorhynchus anatinus 43_1a (all transcripts) ol v a Oryzias latipes 44_1a (all transcripts) (killifish) xp v t Pan troglodytes 44_21c (all transcripts) rn v t Rattus norvegicus 44_34n (all transcripts) tu i a Strongylocentrotus purpuratus (purple sea urchin) to v a Takifugu rubripes 44_4e (all transcripts) tn v a Tetraodon nigroviridis 44_1h (all transcripts) xl v a Xenopus laevis xn v a Xenopus tropicalis 44_41e (all transcripts) Taxon: a,i : invertebrate; v: vertebrate Habit: a: aquatic; t: terristrial #............................................. #... other aquatic-terr. group average family differences where Daphnia isn't deviant "aquatic-terristrial fam sf82904 Noggin" "gene counts: ai=1.86, av=3.71, tv=2.00, ti=1.09" data: d[c(sp.ai, sp.av), r] and d[c(sp.ti, sp.tv), r] t = 3.34, df = 21.1, p-value = 0.003122 95 percent confidence interval: 0.25 1.08 mean of x, mean of y: 0.416 -0.248 "aquatic-terristrial fam sf82283 Homocysteine S-methyltransferase" "gene counts: ai=12.14, av= 4.29, tv= 5.30, ti= 1.82" data: d[c(sp.ai, sp.av), r] and d[c(sp.ti, sp.tv), r] t = 2.3, df = 14.8, p-value = 0.03649 95 percent confidence interval: 0.135 3.619 mean of x, mean of y: 1.125 -0.753 "aquatic-terristrial fam sf81287 ML domain" "gene counts: ai=2.86, av=2.86, tv=1.90, ti=1.55" data: d[c(sp.ai, sp.av), r] and d[c(sp.ti, sp.tv), r] t = 2.15, df = 21.2, p-value = 0.04344 95 percent confidence interval: 0.0181 1.1009 mean of x, mean of y: 0.400 -0.159 "aquatic-terristrial fam sf64357 Synatpobrevin N-terminal domain" "gene counts: ai=3.29, av=6.86, tv=2.60, ti=2.91" data: d[c(sp.ai, sp.av), r] and d[c(sp.ti, sp.tv), r] t = 2.37, df = 26.9, p-value = 0.02543 95 percent confidence interval: 0.104 1.462 mean of x, mean of y: 0.542 -0.241 "aquatic-terristrial fam sf63984 Sir2 family of transcriptional regulators" "gene counts: ai=8.29, av=9.29, tv=7.80, ti=4.73" data: d[c(sp.ai, sp.av), r] and d[c(sp.ti, sp.tv), r] t = 2.07, df = 24.1, p-value = 0.04946 95 percent confidence interval: 0.00152 1.19979 mean of x, mean of y: 0.404 -0.196 "aquatic-terristrial fam sf63708 Ganglioside M2 (gm2) activator" "gene counts: ai=2.14, av=2.57, tv=2.00, ti=1.09" data: d[c(sp.ai, sp.av), r] and d[c(sp.ti, sp.tv), r] t = 2.46, df = 18.3, p-value = 0.02394 95 percent confidence interval: 0.0688 0.8625 mean of x, mean of y: 0.316 -0.150 "aquatic-terristrial fam sf63608 Leukotriene A4 hydrolase C-terminal domain" "gene counts: ai=3.14, av=2.57, tv=2.10, ti=1.36" data: d[c(sp.ai, sp.av), r] and d[c(sp.ti, sp.tv), r] t = 2.34, df = 20.2, p-value = 0.02937 95 percent confidence interval: 0.068 1.159 mean of x, mean of y: 0.441 -0.173 "aquatic-terristrial fam sf55935 Guanido kinase catalytic domain" "gene counts: ai=12.71, av=10.71, tv= 6.40, ti= 4.36" data: d[c(sp.ai, sp.av), r] and d[c(sp.ti, sp.tv), r] t = 3.48, df = 16.2, p-value = 0.003031 95 percent confidence interval: 0.768 3.152 mean of x, mean of y: 1.266 -0.694 "aquatic-terristrial fam sf55528 Matrix metalloproteases, catalytic domain" "gene counts: ai=19.86, av=27.14, tv=24.90, ti= 4.18" data: d[c(sp.ai, sp.av), r] and d[c(sp.ti, sp.tv), r] t = 3.45, df = 26.3, p-value = 0.001902 95 percent confidence interval: 0.746 2.943 mean of x, mean of y: 0.922 -0.922 "aquatic-terristrial fam sf53496 Prolyl oligopeptidase, C-terminal domain" "gene counts: ai=3.00, av=3.86, tv=2.70, ti=1.73" data: d[c(sp.ai, sp.av), r] and d[c(sp.ti, sp.tv), r] t = 2.66, df = 32.8, p-value = 0.01189 95 percent confidence interval: 0.121 0.906 mean of x, mean of y: 0.343 -0.170 "aquatic-terristrial fam sf53452 beta 1,4 galactosyltransferase (b4GalT1)" "gene counts: ai=14.86, av=12.71, tv=11.30, ti= 5.73" data: d[c(sp.ai, sp.av), r] and d[c(sp.ti, sp.tv), r] t = 2.39, df = 20.1, p-value = 0.0267 95 percent confidence interval: 0.175 2.560 mean of x, mean of y: 0.879 -0.488 "aquatic-terristrial fam sf52769 Arginase-like amidino hydrolases" "gene counts: ai=5.86, av=7.29, tv=4.70, ti=2.36" data: d[c(sp.ai, sp.av), r] and d[c(sp.ti, sp.tv), r] t = 2.99, df = 17.3, p-value = 0.008169 95 percent confidence interval: 0.337 1.950 mean of x, mean of y: 0.691 -0.452 "aquatic-terristrial fam sf52592 G proteins" "gene counts: ai=162, av=291, tv=240, ti=104" data: d[c(sp.ai, sp.av), r] and d[c(sp.ti, sp.tv), r] t = 3.36, df = 14.6, p-value = 0.004475 95 percent confidence interval: 0.938 4.224 mean of x, mean of y: 1.39 -1.19 "aquatic-terristrial fam sf52468 Deoxyhypusine synthase, DHS" "gene counts: ai=4.86, av=3.43, tv=2.60, ti=1.82" data: d[c(sp.ai, sp.av), r] and d[c(sp.ti, sp.tv), r] t = 2.57, df = 16.7, p-value = 0.02022 95 percent confidence interval: 0.162 1.673 mean of x, mean of y: 0.615 -0.302 "aquatic-terristrial fam sf52426 Cryptochrome/photolyase, N-terminal domain" "gene counts: ai=1.86, av=2.86, tv=1.00, ti=1.00" data: d[c(sp.ai, sp.av), r] and d[c(sp.ti, sp.tv), r] t = 3.62, df = 18.9, p-value = 0.001834 95 percent confidence interval: 0.384 1.438 mean of x, mean of y: 0.615 -0.296 "aquatic-terristrial fam sf52002 R1 subunit of ribonucleotide reductase, C-terminal domain" "gene counts: ai=2.86, av=3.43, tv=2.30, ti=1.82" data: d[c(sp.ai, sp.av), r] and d[c(sp.ti, sp.tv), r] t = 2.1, df = 26.8, p-value = 0.04524 95 percent confidence interval: 0.0109 0.9448 mean of x, mean of y: 0.357 -0.121 "aquatic-terristrial fam sf51665 Xylose isomerase" "gene counts: ai=2.86, av=1.57, tv=1.00, ti=1.18" data: d[c(sp.ai, sp.av), r] and d[c(sp.ti, sp.tv), r] t = 2.25, df = 19.7, p-value = 0.03618 95 percent confidence interval: 0.0545 1.4772 mean of x, mean of y: 0.579 -0.187 "aquatic-terristrial fam sf51557 Adenosine deaminase (ADA)" "gene counts: ai=2.71, av=3.43, tv=2.40, ti=1.45" data: d[c(sp.ai, sp.av), r] and d[c(sp.ti, sp.tv), r] t = 2.39, df = 25.2, p-value = 0.02447 95 percent confidence interval: 0.0764 1.0178 mean of x, mean of y: 0.365 -0.182 "aquatic-terristrial fam sf49600 TRAF domain" "gene counts: ai=14.00, av=10.43, tv=11.00, ti= 2.64" data: d[c(sp.ai, sp.av), r] and d[c(sp.ti, sp.tv), r] t = 2.33, df = 14.9, p-value = 0.03421 95 percent confidence interval: 0.143 3.222 mean of x, mean of y: 0.960 -0.723 "aquatic-terristrial fam sf48174 Cryptochrome/photolyase FAD-binding domain" "gene counts: ai= 5.00, av=11.00, tv= 3.50, ti= 2.91" data: d[c(sp.ai, sp.av), r] and d[c(sp.ti, sp.tv), r] t = 3.28, df = 18.8, p-value = 0.003981 95 percent confidence interval: 0.604 2.737 mean of x, mean of y: 1.047 -0.623 "aquatic-terristrial fam sf48035 Guanido kinase N-terminal domain" "gene counts: ai=9.00, av=9.86, tv=6.10, ti=3.36" data: d[c(sp.ai, sp.av), r] and d[c(sp.ti, sp.tv), r] t = 3.46, df = 16.5, p-value = 0.003139 95 percent confidence interval: 0.604 2.510 mean of x, mean of y: 0.973 -0.584 "aquatic-terristrial fam sf47502 Calmodulin-like" "gene counts: ai=41.0, av=64.4, tv=54.0, ti=20.9" data: d[c(sp.ai, sp.av), r] and d[c(sp.ti, sp.tv), r] t = 2.71, df = 17.3, p-value = 0.01472 95 percent confidence interval: 0.381 3.048 mean of x, mean of y: 0.902 -0.813 "aquatic-terristrial fam sf46887 Methionine aminopeptidase, insert domain" "gene counts: ai=3.14, av=3.71, tv=3.30, ti=1.55" data: d[c(sp.ai, sp.av), r] and d[c(sp.ti, sp.tv), r] t = 2.20, df = 31.7, p-value = 0.03487 95 percent confidence interval: 0.0327 0.8310 mean of x, mean of y: 0.276 -0.155 "aquatic-terristrial fam sf110436 Ornithine cyclodeaminase-like (Pfam 02423)" "gene counts: ai=2.57, av=2.14, tv=1.80, ti=1.18" data: d[c(sp.ai, sp.av), r] and d[c(sp.ti, sp.tv), r] t = 2.51, df = 24.2, p-value = 0.01922 95 percent confidence interval: 0.0897 0.9204 mean of x, mean of y: 0.350 -0.155 "aquatic-terristrial fam sf103648 TSP type-3 repeat" "gene counts: ai=14.00, av=16.14, tv=11.10, ti= 3.18" data: d[c(sp.ai, sp.av), r] and d[c(sp.ti, sp.tv), r] t = 3.53, df = 15.1, p-value = 0.00297 95 percent confidence interval: 0.88 3.55 mean of x, mean of y: 1.264 -0.949 "aquatic-terristrial fam sf102079 Putative alpha-L-fucosidase, catalytic domain" "gene counts: ai=9.71, av=5.43, tv=4.00, ti=2.73" data: d[c(sp.ai, sp.av), r] and d[c(sp.ti, sp.tv), r] t = 2.67, df = 14.8, p-value = 0.01770 95 percent confidence interval: 0.369 3.318 mean of x, mean of y: 1.240 -0.604 "aquatic-terristrial fam sf101643 Thrombospondin C-terminal domain" "gene counts: ai= 8.71, av=10.29, tv= 6.80, ti= 2.18" data: d[c(sp.ai, sp.av), r] and d[c(sp.ti, sp.tv), r] t = 4.24, df = 15.8, p-value = 0.0006475 95 percent confidence interval: 0.87 2.62 mean of x, mean of y: 1.012 -0.731