Runs of homozygosity analysis reveals adaptation to heat stress in a paternal broiler line J. A. P. Marchesi, M. E. Buzanskas, M. E. Cantão, A. M. G. Ibelli, J. O. Peixoto, L. B. Joaquim, G. C. M. Moreira, T. F. Godoy, A. P. Sbardella, E. A. P. Figueiredo, L. L Coutinho, D. P. Munari, M. C. Ledur Supplementary material S1 - Gene Onthology (GO) analysis. Category Term Description Count PValue Genes Fold Enrichment Bonferroni Benjamini FDR GOTERM_BP_DIRECT GO:0009952 anterior/posterior pattern specification 8 0.007258759 "ENSGALG00000025774; ENSGALG00000001939; ENSGALG00000027903; ENSGALG00000000284; ENSGALG00000029090; ENSGALG00000000672; ENSGALG00000028726; ENSGALG00000026306" 3.500973141 0.999964135 0.999964135 11.31582209 GOTERM_BP_DIRECT GO:0032091 negative regulation of protein binding 6 0.007704267 "ENSGALG00000000498; ENSGALG00000000840; ENSGALG00000001600; ENSGALG00000006598; ENSGALG00000002836; ENSGALG00000026306" 4.743253933 0.999980911 0.995630925 11.96957907 GOTERM_BP_DIRECT GO:0043433 negative regulation of sequence-specific DNA binding transcription factor activity 6 0.008833263 "ENSGALG00000000840; ENSGALG00000000887; ENSGALG00000027300; ENSGALG00000004640; ENSGALG00000002836; ENSGALG00000026306" 4.595027248 0.999996144 0.984318771 13.60609913 GOTERM_BP_DIRECT GO:0071456 cellular response to hypoxia 6 0.010071569 "ENSGALG00000002588; ENSGALG00000010079; ENSGALG00000000636; ENSGALG00000003109; ENSGALG00000003339; ENSGALG00000026379" 4.455783998 0.999999334 0.971435028 15.36818753 GOTERM_BP_DIRECT GO:0043410 positive regulation of MAPK cascade 6 0.01142391 "ENSGALG00000004796; ENSGALG00000000469; ENSGALG00000004419; ENSGALG00000001882; ENSGALG00000027311; ENSGALG00000021567" 4.324731527 0.999999902 0.960386909 17.25395223 GOTERM_BP_DIRECT GO:0048812 neuron projection morphogenesis 5 0.012930297 "ENSGALG00000000816; ENSGALG00000004043; ENSGALG00000002802; ENSGALG00000002556; ENSGALG00000001129" 5.327567824 0.999999989 0.952526817 19.30802757 GOTERM_BP_DIRECT GO:0009056 catabolic process 3 0.015219311 "ENSGALG00000010828; ENSGALG00000004119; ENSGALG00000021598" 14.70408719 1 0.953958738 22.33780062 GOTERM_BP_DIRECT GO:0097190 apoptotic signaling pathway 5 0.022566978 "ENSGALG00000002588; ENSGALG00000004419; ENSGALG00000001882; ENSGALG00000004426; ENSGALG00000027311" 4.538298517 1 0.981843562 31.35709017 GOTERM_BP_DIRECT GO:0043123 positive regulation of I-kappaB kinase/NF-kappaB signaling 9 0.024863651 "ENSGALG00000001569; ENSGALG00000000525; ENSGALG00000001473; ENSGALG00000013740; ENSGALG00000028437; ENSGALG00000027021; ENSGALG00000003109; ENSGALG00000013356; ENSGALG00000000685" 2.535187447 1 0.980367351 33.96795319 GOTERM_BP_DIRECT GO:0051881 regulation of mitochondrial membrane potential 4 0.025230011 "ENSGALG00000002519; ENSGALG00000027021; ENSGALG00000003109; ENSGALG00000026379" 6.126702997 1 0.972409979 34.37570237 GOTERM_BP_DIRECT GO:0050482 arachidonic acid secretion 4 0.0297339 "ENSGALG00000000498; ENSGALG00000018977; ENSGALG00000014176; ENSGALG00000018981" 5.766308703 1 0.978835644 39.19898448 GOTERM_BP_DIRECT GO:0003334 keratinocyte development 3 0.030278832 "ENSGALG00000004796; ENSGALG00000000902; ENSGALG00000028115" 10.50291942 1 0.972674273 39.75943074 GOTERM_BP_DIRECT GO:0015937 coenzyme A biosynthetic process 3 0.030278832 "ENSGALG00000000870; ENSGALG00000004882; ENSGALG00000001165" 10.50291942 1 0.972674273 39.75943074 GOTERM_BP_DIRECT GO:0048704 embryonic skeletal system morphogenesis 5 0.032050913 "ENSGALG00000025774; ENSGALG00000027903; ENSGALG00000000284; ENSGALG00000029090; ENSGALG00000028726" 4.084468665 1 0.970421013 41.54859841 GOTERM_BP_DIRECT GO:0000387 spliceosomal snRNP assembly 4 0.034631901 "ENSGALG00000001504; ENSGALG00000002773; ENSGALG00000028409; ENSGALG00000000137" 5.44595822 1 0.970904387 44.06537551 GOTERM_BP_DIRECT GO:0010107 potassium ion import 4 0.034631901 "ENSGALG00000001181; ENSGALG00000009935; ENSGALG00000006469; ENSGALG00000001167" 5.44595822 1 0.970904387 44.06537551 GOTERM_BP_DIRECT GO:0061436 establishment of skin barrier 3 0.039300918 "ENSGALG00000004568; ENSGALG00000000902; ENSGALG00000028115" 9.190054496 1 0.976610684 48.36158985 GOTERM_BP_DIRECT GO:0007088 regulation of mitotic nuclear division 3 0.039300918 "ENSGALG00000004796; ENSGALG00000027784; ENSGALG00000001382" 9.190054496 1 0.976610684 48.36158985 GOTERM_BP_DIRECT GO:0007166 cell surface receptor signaling pathway 9 0.048159159 "ENSGALG00000002473; ENSGALG00000000371; ENSGALG00000013528; ENSGALG00000013953; ENSGALG00000000274; ENSGALG00000000251; ENSGALG00000002554; ENSGALG00000003034; ENSGALG00000019797" 2.227891999 1 0.986887645 55.67409019 GOTERM_BP_DIRECT GO:0002011 morphogenesis of an epithelial sheet 3 0.049194203 "ENSGALG00000025774; ENSGALG00000000284; ENSGALG00000001532" 8.16893733 1 0.984534875 56.46196746 GOTERM_BP_DIRECT GO:0050821 protein stabilization 7 0.051128272 "ENSGALG00000001162; ENSGALG00000001600; ENSGALG00000000723; ENSGALG00000000636; ENSGALG00000004833; ENSGALG00000027021; ENSGALG00000003109" 2.599207332 1 0.983368964 57.89904974 GOTERM_BP_DIRECT GO:0010629 negative regulation of gene expression 7 0.051128272 "ENSGALG00000000498; ENSGALG00000004796; ENSGALG00000028318; ENSGALG00000021656; ENSGALG00000003109; ENSGALG00000000249; ENSGALG00000026379" 2.599207332 1 0.983368964 57.89904974 GOTERM_BP_DIRECT GO:0045665 negative regulation of neuron differentiation 5 0.052338629 "ENSGALG00000002055; ENSGALG00000000653; ENSGALG00000001532; ENSGALG00000027300; ENSGALG00000004662" 3.500973141 1 0.981225692 58.77559277 GOTERM_BP_DIRECT GO:0007411 axon guidance 7 0.057638005 "ENSGALG00000000653; ENSGALG00000004741; ENSGALG00000004631; ENSGALG00000001600; ENSGALG00000000644; ENSGALG00000027311; ENSGALG00000021567" 2.522760058 1 0.984554647 62.41544628 GOTERM_BP_DIRECT GO:0007275 multicellular organism development 13 0.059232525 "ENSGALG00000001956; ENSGALG00000014154; ENSGALG00000008433; ENSGALG00000000895; ENSGALG00000027903; ENSGALG00000000284; ENSGALG00000000777; ENSGALG00000004419; ENSGALG00000001882; ENSGALG00000004426; ENSGALG00000013454; ENSGALG00000028726; ENSGALG00000013455" 1.789823348 1 0.983179488 63.4501129 GOTERM_BP_DIRECT GO:0000398 mRNA splicing. via spliceosome 6 0.059240331 "ENSGALG00000003662; ENSGALG00000001540; ENSGALG00000001186; ENSGALG00000028409; ENSGALG00000013639; ENSGALG00000002002" 2.827709076 1 0.979758032 63.45511191 GOTERM_BP_DIRECT GO:0030433 ER-associated ubiquitin-dependent protein catabolic process 5 0.062022678 "ENSGALG00000004657; ENSGALG00000000564; ENSGALG00000023958; ENSGALG00000000349; ENSGALG00000001848" 3.31173135 1 0.97998689 65.19652606 GOTERM_BP_DIRECT GO:0030036 actin cytoskeleton organization 6 0.076539124 "ENSGALG00000002199; ENSGALG00000004796; ENSGALG00000001516; ENSGALG00000000680; ENSGALG00000004034; ENSGALG00000002871" 2.625729856 1 0.990547615 73.08690446 GOTERM_BP_DIRECT GO:0010628 positive regulation of gene expression 10 0.076861362 "ENSGALG00000000745; ENSGALG00000004796; ENSGALG00000021656; ENSGALG00000001309; ENSGALG00000000887; ENSGALG00000027300; ENSGALG00000002556; ENSGALG00000000379; ENSGALG00000000249; ENSGALG00000002583" 1.914594687 1 0.988831332 73.24129082 GOTERM_BP_DIRECT GO:0007267 cell-cell signaling 5 0.078184343 "ENSGALG00000002550; ENSGALG00000000469; ENSGALG00000028258; ENSGALG00000002556; ENSGALG00000003034" 3.063351499 1 0.987713718 73.86646135 GOTERM_BP_DIRECT GO:0032460 negative regulation of protein oligomerization 2 0.079735948 "ENSGALG00000006598; ENSGALG00000026379" 24.50681199 1 0.986753192 74.58218211 GOTERM_BP_DIRECT GO:0031424 keratinization 2 0.079735948 "ENSGALG00000004796; ENSGALG00000028115" 24.50681199 1 0.986753192 74.58218211 GOTERM_BP_DIRECT GO:1905037 autophagosome organization 2 0.079735948 "ENSGALG00000003774; ENSGALG00000000623" 24.50681199 1 0.986753192 74.58218211 GOTERM_BP_DIRECT GO:0031333 negative regulation of protein complex assembly 3 0.083273996 "ENSGALG00000004796; ENSGALG00000001270; ENSGALG00000009929" 6.126702997 1 0.987258088 76.14593983 GOTERM_BP_DIRECT GO:0045987 positive regulation of smooth muscle contraction 3 0.083273996 "ENSGALG00000000469; ENSGALG00000013953; ENSGALG00000000667" 6.126702997 1 0.987258088 76.14593983 GOTERM_BP_DIRECT GO:0030182 neuron differentiation 5 0.083995063 "ENSGALG00000001939; ENSGALG00000001532; ENSGALG00000026821; ENSGALG00000004790; ENSGALG00000023768" 2.988635608 1 0.985743438 76.45334744 GOTERM_BP_DIRECT GO:0030216 keratinocyte differentiation 4 0.08713602 "ENSGALG00000001262; ENSGALG00000001405; ENSGALG00000023768; ENSGALG00000001331" 3.770278768 1 0.986014296 77.74951419 GOTERM_BP_DIRECT GO:0006351 transcription. DNA-templated 23 0.093791654 "ENSGALG00000027903; ENSGALG00000003669; ENSGALG00000001551; ENSGALG00000002588; ENSGALG00000000777; ENSGALG00000000887; ENSGALG00000027300; ENSGALG00000001141; ENSGALG00000002170; ENSGALG00000001229; ENSGALG00000002906; ENSGALG00000003782; ENSGALG00000000678; ENSGALG00000002055; ENSGALG00000001136; ENSGALG00000000284; ENSGALG00000001143; ENSGALG00000004848; ENSGALG00000004640; ENSGALG00000028726; ENSGALG00000013454; ENSGALG00000006515; ENSGALG00000013455" 1.40562762 1 0.988479663 80.27788001 GOTERM_BP_DIRECT GO:0051091 positive regulation of sequence-specific DNA binding transcription factor activity 5 0.1026405 "ENSGALG00000000840; ENSGALG00000008433; ENSGALG00000000892; ENSGALG00000003109; ENSGALG00000000991" 2.784864999 1 0.991391374 83.22331599 GOTERM_BP_DIRECT GO:0010482 regulation of epidermal cell division 2 0.117193315 "ENSGALG00000000902; ENSGALG00000028115" 16.33787466 1 0.995043359 87.18682566 GOTERM_BP_DIRECT GO:1901727 positive regulation of histone deacetylase activity 2 0.117193315 "ENSGALG00000000551; ENSGALG00000003109" 16.33787466 1 0.995043359 87.18682566 GOTERM_BP_DIRECT GO:0051646 mitochondrion localization 2 0.117193315 "ENSGALG00000027021; ENSGALG00000004523" 16.33787466 1 0.995043359 87.18682566 GOTERM_BP_DIRECT GO:2000483 negative regulation of interleukin-8 secretion 2 0.117193315 "ENSGALG00000021656; ENSGALG00000008216" 16.33787466 1 0.995043359 87.18682566 GOTERM_BP_DIRECT GO:0014858 positive regulation of skeletal muscle cell proliferation 2 0.117193315 "ENSGALG00000004790; ENSGALG00000001003" 16.33787466 1 0.995043359 87.18682566 GOTERM_BP_DIRECT GO:0014902 myotube differentiation 2 0.117193315 "ENSGALG00000001197; ENSGALG00000001229" 16.33787466 1 0.995043359 87.18682566 GOTERM_BP_DIRECT GO:0022010 central nervous system myelination 2 0.117193315 "ENSGALG00000000653; ENSGALG00000001141" 16.33787466 1 0.995043359 87.18682566 GOTERM_BP_DIRECT GO:0071205 protein localization to juxtaparanode region of axon 2 0.117193315 "ENSGALG00000000653; ENSGALG00000000644" 16.33787466 1 0.995043359 87.18682566 GOTERM_BP_DIRECT GO:0030327 prenylated protein catabolic process 2 0.117193315 "ENSGALG00000000855; ENSGALG00000013878" 16.33787466 1 0.995043359 87.18682566 GOTERM_BP_DIRECT GO:0008380 RNA splicing 4 0.130277477 "ENSGALG00000000988; ENSGALG00000002906; ENSGALG00000004848; ENSGALG00000001283" 3.162169289 1 0.99687394 89.98246993 GOTERM_BP_DIRECT GO:0006397 mRNA processing 5 0.144928105 "ENSGALG00000001555; ENSGALG00000000988; ENSGALG00000002906; ENSGALG00000004848; ENSGALG00000001283" 2.450681199 1 0.998136234 92.42920666 GOTERM_BP_DIRECT GO:0045893 positive regulation of transcription. DNA-templated 12 0.147991399 "ENSGALG00000001162; ENSGALG00000001405; ENSGALG00000003669; ENSGALG00000008433; ENSGALG00000002588; ENSGALG00000001600; ENSGALG00000026821; ENSGALG00000001143; ENSGALG00000004790; ENSGALG00000004640; ENSGALG00000009929; ENSGALG00000001063" 1.555988063 1 0.998070774 92.8640996 GOTERM_BP_DIRECT GO:1902476 chloride transmembrane transport 4 0.149281464 "ENSGALG00000001262; ENSGALG00000000745; ENSGALG00000004590; ENSGALG00000003713" 2.970522665 1 0.997843439 93.04013157 GOTERM_BP_DIRECT GO:0042177 negative regulation of protein catabolic process 3 0.150528848 "ENSGALG00000001162; ENSGALG00000000636; ENSGALG00000004640" 4.324731527 1 0.997599156 93.20645396 GOTERM_BP_DIRECT GO:0035264 multicellular organism growth 5 0.152555713 "ENSGALG00000001262; ENSGALG00000004796; ENSGALG00000000943; ENSGALG00000000557; ENSGALG00000003339" 2.402628626 1 0.997428667 93.46877155 GOTERM_BP_DIRECT GO:0050691 regulation of defense response to virus by host 2 0.153130056 "ENSGALG00000000724; ENSGALG00000000249" 12.25340599 1 0.997085512 93.54135486 GOTERM_BP_DIRECT GO:0007168 receptor guanylyl cyclase signaling pathway 2 0.153130056 "ENSGALG00000004574; ENSGALG00000004572" 12.25340599 1 0.997085512 93.54135486 GOTERM_BP_DIRECT GO:0045606 positive regulation of epidermal cell differentiation 2 0.153130056 "ENSGALG00000000902; ENSGALG00000028115" 12.25340599 1 0.997085512 93.54135486 GOTERM_BP_DIRECT GO:0071340 skeletal muscle acetylcholine-gated channel clustering 2 0.153130056 "ENSGALG00000001600; ENSGALG00000021683" 12.25340599 1 0.997085512 93.54135486 GOTERM_BP_DIRECT GO:0060070 canonical Wnt signaling pathway 5 0.168250294 "ENSGALG00000008433; ENSGALG00000004796; ENSGALG00000001600; ENSGALG00000001532; ENSGALG00000004790" 2.311963395 1 0.998187471 95.20077936 GOTERM_BP_DIRECT GO:0016042 lipid catabolic process 4 0.179293375 "ENSGALG00000018977; ENSGALG00000021658; ENSGALG00000014176; ENSGALG00000018981" 2.72297911 1 0.998652955 96.14977056 GOTERM_BP_DIRECT GO:0006355 regulation of transcription. DNA-templated 20 0.179347373 "ENSGALG00000004089; ENSGALG00000027903; ENSGALG00000001543; ENSGALG00000003669; ENSGALG00000000777; ENSGALG00000002906; ENSGALG00000003782; ENSGALG00000002055; ENSGALG00000000583; ENSGALG00000001136; ENSGALG00000010079; ENSGALG00000001143; ENSGALG00000004848; ENSGALG00000000672; ENSGALG00000002139; ENSGALG00000013454; ENSGALG00000028726; ENSGALG00000013455; ENSGALG00000001063; ENSGALG00000027677" 1.32469254 1 0.998432502 96.15394416 GOTERM_BP_DIRECT GO:0048015 phosphatidylinositol-mediated signaling 3 0.179733219 "ENSGALG00000000623; ENSGALG00000002583; ENSGALG00000000783" 3.86949663 1 0.99821174 96.18364366 GOTERM_BP_DIRECT GO:0007602 phototransduction 3 0.179733219 "ENSGALG00000001418; ENSGALG00000002848; ENSGALG00000001431" 3.86949663 1 0.99821174 96.18364366 GOTERM_BP_DIRECT GO:0010944 negative regulation of transcription by competitive promoter binding 2 0.187607743 "ENSGALG00000001162; ENSGALG00000004640" 9.802724796 1 0.998477045 96.74469024 GOTERM_BP_DIRECT GO:0097237 cellular response to toxic substance 2 0.187607743 "ENSGALG00000003109; ENSGALG00000026379" 9.802724796 1 0.998477045 96.74469024 GOTERM_BP_DIRECT GO:0010460 positive regulation of heart rate 2 0.187607743 "ENSGALG00000006490; ENSGALG00000000667" 9.802724796 1 0.998477045 96.74469024 GOTERM_BP_DIRECT GO:0031284 positive regulation of guanylate cyclase activity 2 0.187607743 "ENSGALG00000001418; ENSGALG00000001431" 9.802724796 1 0.998477045 96.74469024 GOTERM_BP_DIRECT GO:2000288 positive regulation of myoblast proliferation 2 0.187607743 "ENSGALG00000003782; ENSGALG00000002588" 9.802724796 1 0.998477045 96.74469024 GOTERM_BP_DIRECT GO:0046847 filopodium assembly 2 0.187607743 "ENSGALG00000004796; ENSGALG00000000816" 9.802724796 1 0.998477045 96.74469024 GOTERM_BP_DIRECT GO:0006892 post-Golgi vesicle-mediated transport 2 0.187607743 "ENSGALG00000006598; ENSGALG00000006512" 9.802724796 1 0.998477045 96.74469024 GOTERM_BP_DIRECT GO:0045053 protein retention in Golgi apparatus 2 0.187607743 "ENSGALG00000004291; ENSGALG00000006598" 9.802724796 1 0.998477045 96.74469024 GOTERM_BP_DIRECT GO:0030334 regulation of cell migration 4 0.18964079 "ENSGALG00000001287; ENSGALG00000000379; ENSGALG00000003034; ENSGALG00000001264" 2.64938508 1 0.998375591 96.87640629