Badyaev AV. Stress-induced variation in evolution: from behavioural plasticity to genetic assimilation. Proc Biol Sci. 2005;272(1566):877–86.
Article
PubMed
PubMed Central
Google Scholar
Elena SF, de Visser JA. Environmental stress and the effects of mutation. J Biol. 2003;2(2):12.
Article
PubMed
PubMed Central
Google Scholar
Hoffmann AA, Hercus MJ. Environmental stress as an evolutionary force. Bioscience. 2000;50(3):217–26.
Article
Google Scholar
Ahuja I, de Vos RC, Bones AM, Hall RD. Plant molecular stress responses face climate change. Trends Plant Sci. 2010;15(12):664–74.
Article
CAS
PubMed
Google Scholar
Nardone A, Ronchi B, Lacetera N, Ranieri MS, Bernabucci U. Effects of climate changes on animal production and sustainability of livestock systems. Livest Sci. 2010;130(1–3):57–69.
Article
Google Scholar
Thornton PK, Ericksen PJ, Herrero M, Challinor AJ. Climate variability and vulnerability to climate change: a review. Glob Chang Biol. 2014;20(11):3313–28.
Article
PubMed
PubMed Central
Google Scholar
Koenraadt CJ, Githeko AK, Takken W. The effects of rainfall and evapotranspiration on the temporal dynamics of Anopheles gambiae s.s. and Anopheles arabiensis in a Kenyan village. Acta Trop. 2004;90(2):141–53.
Article
CAS
PubMed
Google Scholar
St-Pierre NR, Cobanov B, Schnitkey G. Economic losses from heat stress by US livestock industries. J Dairy Sci. 2003;86:E52–77.
Article
Google Scholar
Renaudeau D, Collin A, Yahav S, de Basilio V, Gourdine JL, Collier RJ. Adaptation to hot climate and strategies to alleviate heat stress in livestock production. Animal. 2012;6(5):707–28.
Article
CAS
PubMed
Google Scholar
Quinteiro-Filho WM, Ribeiro A, Ferraz-de-Paula V, Pinheiro ML, Sakai M, Sa LR, Ferreira AJ, Palermo-Neto J. Heat stress impairs performance parameters, induces intestinal injury, and decreases macrophage activity in broiler chickens. Poult Sci. 2010;89(9):1905–14.
Article
CAS
PubMed
Google Scholar
Ajakaiye JJ, Ayo JO, Ojo SA. Effects of heat stress on some blood parameters and egg production of Shika Brown layer chickens transported by road. Biol Res. 2010;43(2):183–9.
Article
PubMed
Google Scholar
Altan O, Pabuccuoglu A, Altan A, Konyalioglu S, Bayraktar H. Effect of heat stress on oxidative stress, lipid peroxidation and some stress parameters in broilers. Brit Poultry Sci. 2003;44(4):545–50.
Article
CAS
Google Scholar
Azad MAK, Kikusato M, Sudo S, Amo T, Toyomizu M. Time course of ROS production in skeletal muscle mitochondria from chronic heat-exposed broiler chicken. Comp Biochem Phys A. 2010;157(3):266–71.
Article
CAS
Google Scholar
Lin H, Decuypere E, Buyse J. Acute heat stress induces oxidative stress in broiler chickens. Comp Biochem Physiol A Mol Integr Physiol. 2006;144(1):11–7.
Article
PubMed
Google Scholar
Mujahid A, Akiba Y, Toyomizu M. Acute heat stress induces oxidative stress and decreases adaptation in young white leghorn cockerels by downregulation of avian uncoupling protein. Poult Sci. 2007;86(2):364–71.
Article
CAS
PubMed
Google Scholar
Mujahid A, Yoshiki Y, Akiba Y, Toyomizu M. Superoxide radical production in chicken skeletal muscle induced by acute heat stress. Poult Sci. 2005;84(2):307–14.
Article
CAS
PubMed
Google Scholar
Pamok S, Aengwanich W, Komutrin T. Adaptation to oxidative stress and impact of chronic oxidative stress on immunity in heat-stressed broilers. J Therm Biol. 2009;34(7):353–7.
Article
CAS
Google Scholar
Allen RG, Tresini M. Oxidative stress and gene regulation. Free Radic Biol Med. 2000;28(3):463–99.
Article
CAS
PubMed
Google Scholar
Covarrubias L, Hernandez-Garcia D, Schnabel D, Salas-Vidal E, Castro-Obregon S. Function of reactive oxygen species during animal development: passive or active? Dev Biol. 2008;320(1):1–11.
Article
CAS
PubMed
Google Scholar
Endemann DH, Schiffrin EL. Endothelial dysfunction. J Am Soc Nephrol. 2004;15(8):1983–92.
Article
CAS
PubMed
Google Scholar
Gomez AP, Moreno MJ, Iglesias A, Coral PX, Hernandez A. Endothelin 1, its endothelin type A receptor, connective tissue growth factor, platelet-derived growth factor, and adrenomedullin expression in lungs of pulmonary hypertensive and nonhypertensive chickens. Poult Sci. 2007;86(5):909–16.
Article
CAS
PubMed
Google Scholar
Pan JQ, Tan X, Li JC, Sun WD, Wang XL. Effects of early feed restriction and cold temperature on lipid peroxidation, pulmonary vascular remodelling and ascites morbidity in broilers under normal and cold temperature. Br Poult Sci. 2005;46(3):374–81.
Article
CAS
PubMed
Google Scholar
Qanbari S, Seidel M, Strom TM, Mayer KF, Preisinger R, Simianer H. Parallel selection revealed by population sequencing in chicken. Genome Biol Evol. 2015;7(12):3299–306.
Article
PubMed
PubMed Central
Google Scholar
Qanbari S, Strom TM, Haberer G, Weigend S, Gheyas AA, Turner F, Burt DW, Preisinger R, Gianola D, Simianer H. A high resolution genome-wide scan for significant selective sweeps: an application to pooled sequence data in laying chickens. PLoS One. 2012;7(11), e49525.
Article
CAS
PubMed
PubMed Central
Google Scholar
Rubin CJ, Zody MC, Eriksson J, Meadows JR, Sherwood E, Webster MT, Jiang L, Ingman M, Sharpe T, Ka S, et al. Whole-genome resequencing reveals loci under selection during chicken domestication. Nature. 2010;464(7288):587–91.
Article
CAS
PubMed
Google Scholar
Fan WL, Ng CS, Chen CF, Lu MY, Chen YH, Liu CJ, Wu SM, Chen CK, Chen JJ, Mao CT, et al. Genome-wide patterns of genetic variation in two domestic chickens. Genome Biol Evol. 2013;5(7):1376–92.
Article
PubMed
PubMed Central
Google Scholar
Elferink MG, Megens HJ, Vereijken A, Hu X, Crooijmans RP, Groenen MA. Signatures of selection in the genomes of commercial and non-commercial chicken breeds. PLoS One. 2012;7(2), e32720.
Article
CAS
PubMed
PubMed Central
Google Scholar
Stainton JJ, Haley CS, Charlesworth B, Kranis A, Watson K, Wiener P. Detecting signatures of selection in nine distinct lines of broiler chickens. Anim Genet. 2015;46(1):37–49.
Article
CAS
PubMed
Google Scholar
Gheyas AA, Boschiero C, Eory L, Ralph H, Kuo R, Woolliams JA, Burt DW. Functional classification of 15 million SNPs detected from diverse chicken populations. DNA Res. 2015;22(3):205–17.
Article
PubMed
PubMed Central
Google Scholar
Wang MS, Li Y, Peng MS, Zhong L, Wang ZJ, Li QY, Tu XL, Dong Y, Zhu CL, Wang L, et al. Genomic analyses reveal potential independent adaptation to high altitude in Tibetan chickens. Mol Biol Evol. 2015;32(7):1880–9.
Article
PubMed
Google Scholar
Sharma J, Semambo D, Galukande E. Kuroiler project overview. In: Pan-african conference on the launch of the Kuroiler in Uganda. Uganda: National Animal Genetic Resources Centre And Data B; 2011.
Google Scholar
Chang CC, Chow CC, Tellier LC, Vattikuti S, Purcell SM, Lee JJ. Second-generation PLINK: rising to the challenge of larger and richer datasets. Gigascience. 2015;4:7.
Article
PubMed
PubMed Central
Google Scholar
Purcell S, Neale B, Todd-Brown K, Thomas L, Ferreira MA, Bender D, Maller J, Sklar P, de Bakker PI, Daly MJ, et al. PLINK: a tool set for whole-genome association and population-based linkage analyses. Am J Hum Genet. 2007;81(3):559–75.
Article
CAS
PubMed
PubMed Central
Google Scholar
Ye C, Liu J, Ren F, Okafo N. Design of experiment and data analysis by JMP (SAS institute) in analytical method validation. J Pharm Biomed Anal. 2000;23(2–3):581–9.
Article
CAS
PubMed
Google Scholar
Paradis E, Claude J, Strimmer K. APE: analyses of phylogenetics and evolution in R language. Bioinformatics. 2004;20(2):289–90.
Article
CAS
PubMed
Google Scholar
Schliep KP. phangorn: phylogenetic analysis in R. Bioinformatics. 2011;27(4):592–3.
Article
CAS
PubMed
PubMed Central
Google Scholar
SNP & Variation Suite (Version 8.x) [Software]. Bozeman, MT: Golden Helix, Inc. Available from http://www.goldenhelix.com. Accessed on 24 May 2015, and downloaded to local server for consistent use of this version.
Alexander DH, Novembre J, Lange K. Fast model-based estimation of ancestry in unrelated individuals. Genome Res. 2009;19(9):1655–64.
Article
CAS
PubMed
PubMed Central
Google Scholar
Boyle EI, Weng S, Gollub J, Jin H, Botstein D, Cherry JM, Sherlock G. GO::TermFinder--open source software for accessing Gene Ontology information and finding significantly enriched Gene Ontology terms associated with a list of genes. Bioinformatics. 2004;20(18):3710–5.
Article
CAS
PubMed
PubMed Central
Google Scholar
Supek F, Bosnjak M, Skunca N, Smuc T. REVIGO summarizes and visualizes long lists of gene ontology terms. PLoS One. 2011;6(7), e21800.
Article
CAS
PubMed
PubMed Central
Google Scholar
Scheet P, Stephens M. A fast and flexible statistical model for large-scale population genotype data: applications to inferring missing genotypes and haplotypic phase. Am J Hum Genet. 2006;78(4):629–44.
Article
CAS
PubMed
PubMed Central
Google Scholar
Gautier M, Vitalis R. rehh: an R package to detect footprints of selection in genome-wide SNP data from haplotype structure. Bioinformatics. 2012;28(8):1176–7.
Article
CAS
PubMed
Google Scholar
Voight BF, Kudaravalli S, Wen X, Pritchard JK. A map of recent positive selection in the human genome. PLoS Biol. 2006;4(3), e72.
Article
PubMed
PubMed Central
Google Scholar
Luan T, Yu X, Dolezal M, Bagnato A, Meuwissen TH. Genomic prediction based on runs of homozygosity. Genet Sel Evol. 2014;46:64.
Article
PubMed
PubMed Central
Google Scholar
Kawai J, Ando K, Tojo A, Shimosawa T, Takahashi K, Onozato ML, Yamasaki M, Ogita T, Nakaoka T, Fujita T. Endogenous adrenomedullin protects against vascular response to injury in mice. Circulation. 2004;109(9):1147–53.
Article
PubMed
Google Scholar
Evans JL, Goldfine ID, Maddux BA, Grodsky GM. Oxidative stress and stress-activated signaling pathways: a unifying hypothesis of type 2 diabetes. Endocr Rev. 2002;23(5):599–622.
Article
CAS
PubMed
Google Scholar
Galvez A, Morales MP, Eltit JM, Ocaranza P, Carrasco L, Campos X, Sapag-Hagar M, Diaz-Araya G, Lavandero S. A rapid and strong apoptotic process is triggered by hyperosmotic stress in cultured rat cardiac myocytes. Cell Tissue Res. 2001;304(2):279–85.
Article
CAS
PubMed
Google Scholar
Puvadolpirod S, Thaxton JP. Model of physiological stress in chickens 1. Response parameters. Poult Sci. 2000;79(3):363–9.
Article
CAS
PubMed
Google Scholar
Kubista H, Hawkins T, Moss SE. Characterisation of calcium signalling in DT40 chicken B-cells. Bba Mol Cell Res. 1998;1448(2):299–310.
CAS
Google Scholar
Murphy JK, Hoyal CR, Livingston FR, Forman HJ. Modulation of the Alveolar Macrophage Respiratory Burst by Hydroperoxides. Free Radical Bio Med. 1995;18(1):37–45.
Article
CAS
Google Scholar
Rajan Choudhary SK, Swamiappan S. Bioactivity studies of calcium magnesium silicate prepared from eggshell waste by sol–gel combustion synthesis. J Asian Ceram Soc. 2015;3(2):173–7.
Article
Google Scholar
Deng XX, Wang YJ, Zhou YD, Soboloff J, Gill DL. STIM and Orai: Dynamic intermembrane coupling to control cellular calcium signals. J Biol Chem. 2009;284(34):22501–5.
Article
CAS
PubMed
PubMed Central
Google Scholar
Coble DJ, Fleming D, Persia ME, Ashwell CM, Rothschild MF, Schmidt CJ, Lamont SJ. RNA-seq analysis of broiler liver transcriptome reveals novel responses to high ambient temperature. BMC Genomics. 2014;15:1084.
Article
PubMed
PubMed Central
Google Scholar
Zhang KZ, Kaufman RJ. From endoplasmic-reticulum stress to the inflammatory response. Nature. 2008;454(7203):455–62.
Article
CAS
PubMed
PubMed Central
Google Scholar
Perkins ND. Integrating cell-signalling pathways with NF-[kappa]B and IKK function. Nat Rev Mol Cell Biol. 2007;8(1):49–62.
Article
CAS
PubMed
Google Scholar
Welc SS, Clanton TL, Dineen SM, Leon LR. Heat stroke activates a stress-induced cytokine response in skeletal muscle. J Appl Physiol. 2013;115(8):1126–37.
Article
CAS
PubMed
Google Scholar
Koch S, Claesson-Welsh L. Signal transduction by vascular endothelial growth factor receptors. Cold Spring Harb Perspect Med. 2012;2(7):a006502.
Article
PubMed
PubMed Central
Google Scholar
Horowitz M. Heat acclimation and cross-tolerance against novel stressors: genomic-physiological linkage. Prog Brain Res. 2007;162:373–92.
Article
CAS
PubMed
Google Scholar
Horowitz M, Eli-Berchoer L, Wapinski I, Friedman N, Kodesh E. Stress-related genomic responses during the course of heat acclimation and its association with ischemic-reperfusion cross-tolerance. J Appl Physiol. 2004;97(4):1496–507.
Article
CAS
PubMed
Google Scholar
Liu HM, Sorensen AC, Meuwissen THE, Berg P. Allele frequency changes due to hitch-hiking in genomic selection programs. Genet Sel Evol. 2014;46.
MacLeod IM, Larkin DM, Lewin HA, Hayes BJ, Goddard ME. Inferring demography from runs of homozygosity in whole-genome sequence, with correction for sequence errors. Mol Biol Evol. 2013;30(9):2209–23.
Article
CAS
PubMed
PubMed Central
Google Scholar
Purfield DC, Berry DP, McParland S, Bradley DG. Runs of homozygosity and population history in cattle. BMC Genet. 2012;13:70.
Article
CAS
PubMed
PubMed Central
Google Scholar
Bosse M, Megens HJ, Madsen O, Paudel Y, Frantz LA, Schook LB, Crooijmans RP, Groenen MA. Regions of homozygosity in the porcine genome: consequence of demography and the recombination landscape. PLoS Genet. 2012;8(11), e1003100.
Article
CAS
PubMed
PubMed Central
Google Scholar
Lencz T, Lambert C, DeRosse P, Burdick KE, Morgan TV, Kane JM, Kucherlapati R, Malhotra AK. Runs of homozygosity reveal highly penetrant recessive loci in schizophrenia. Proc Natl Acad Sci U S A. 2007;104(50):19942–7.
Article
CAS
PubMed
PubMed Central
Google Scholar
Kim ES, Sonstegard T, Van Tassell CP, Wiggans G, Rothschild MF. The relationship between runs of homozygosity and inbreeding in Jersey cattle under selection. PLoS One. 2015;10(7):e0129967. doi:10.1371/journal.pone.0129967.
Article
PubMed
PubMed Central
Google Scholar
Aitboulahsen A, Garlich JD, Edens FW. Calcium deficiency and food-deprivation improve the response of chickens to acute heat-stress. J Nutr. 1993;123(1):98–105.
CAS
Google Scholar
UniProt C. UniProt: a hub for protein information. Nucleic Acids Res. 2015;43(Database issue):D204–12.
Google Scholar
Mei N, Guo L, Liu R, Fuscoe JC, Chen T. Gene expression changes induced by the tumorigenic pyrrolizidine alkaloid riddelliine in liver of Big Blue rats. BMC Bioinformatics. 2007;8 Suppl 7:S4.
Article
PubMed
PubMed Central
Google Scholar
Jenuth JP. The NCBI. Publicly available tools and resources on the Web. Methods Mol Biol. 2000;132:301–12.
CAS
PubMed
Google Scholar
Li C, Wang X, Wang G, Li N, Wu C. Expression analysis of global gene response to chronic heat exposure in broiler chickens (Gallus gallus) reveals new reactive genes. Poult Sci. 2011;90(5):1028–36.
Article
CAS
PubMed
Google Scholar
Sun SS, Elhalawani ME. Protein-Kinase-C mediates chicken vasoactive-intestinal-peptide stimulated prolactin secretion and gene-expression in turkey primary pituitary-cells. Gen Comp Endocrinol. 1995;99(3):289–97.
Article
CAS
PubMed
Google Scholar
Lennartsson AK, Jonsdottir IH. Prolactin in response to acute psychosocial stress in healthy men and women. Psychoneuroendocrinology. 2011;36(10):1530–9.
Article
CAS
PubMed
Google Scholar
Littlejohn MD, Henty KM, Tiplady K, Johnson T, Harland C, Lopdell T, Sherlock RG, Li W, Lukefahr SD, Shanks BC, et al. Functionally reciprocal mutations of the prolactin signalling pathway define hairy and slick cattle. Nat Commun. 2014;5:5861.
Article
CAS
PubMed
PubMed Central
Google Scholar
Mariasegaram M, Chase Jr CC, Chaparro JX, Olson TA, Brenneman RA, Niedz RP. The slick hair coat locus maps to chromosome 20 in Senepol-derived cattle. Anim Genet. 2007;38(1):54–9.
Article
CAS
PubMed
Google Scholar
Ye S, Lowther S, Stambas J. Inhibition of reactive oxygen species production ameliorates inflammation induced by influenza A viruses via upregulation of SOCS1 and SOCS3. J Virol. 2015;89(5):2672–83.
Article
PubMed
PubMed Central
Google Scholar
Yoshimura A, Suzuki M, Sakaguchi R, Hanada T, Yasukawa H. SOCS, Inflammation, and Autoimmunity. Front Immunol. 2012;3:20.
Article
PubMed
PubMed Central
Google Scholar
Maglott D, Ostell J, Pruitt KD, Tatusova T. Entrez Gene: gene-centered information at NCBI. Nucleic Acids Res. 2005;33(Database issue):D54–8.
Article
CAS
PubMed
PubMed Central
Google Scholar
Yu XZ, Robinson JF, Sidhu JS, Hong S, Faustman EM. A system-based comparison of gene expression reveals alterations in oxidative stress, disruption of ubiquitin--proteasome system and altered cell cycle regulation after exposure to cadmium and methylmercury in mouse embryonic fibroblast. Toxicol Sci. 2010;114(2):356–77.
Article
CAS
PubMed
PubMed Central
Google Scholar
Shih YP, Takada Y, Lo SH. Silencing of DLC1 upregulates PAI-1 expression and reduces migration in normal prostate cells. Mol Cancer Res. 2012;10(1):34–9.
Article
CAS
PubMed
PubMed Central
Google Scholar
Hobbs GA, Zhou B, Cox AD, Campbell SL. Rho GTPases, oxidation, and cell redox control. Small GTPases. 2014;5(2), e28579.
Article
PubMed
PubMed Central
Google Scholar
Zudaire E, Cuesta N, Martinez A, Cuttitta F. Characterization of adrenomedullin in birds. Gen Comp Endocrinol. 2005;143(1):10–20.
Article
CAS
PubMed
Google Scholar
Yoshimoto T, Gochou N, Fukai N, Sugiyama T, Shichiri M, Hirata Y. Adrenomedullin inhibits angiotensin II-induced oxidative stress and gene expression in rat endothelial cells. Hypertens Res. 2005;28(2):165–72.
Article
CAS
PubMed
Google Scholar
Rahman M, Nishiyama A, Guo P, Nagai Y, Zhang GX, Fujisawa Y, Fan YY, Kimura S, Hosomi N, Omori K, et al. Effects of adrenomedullin on cardiac oxidative stress and collagen accumulation in aldosterone-dependent malignant hypertensive rats. J Pharmacol Exp Ther. 2006;318(3):1323–9.
Article
CAS
PubMed
Google Scholar
Ridnour LA, Thomas DD, Mancardi D, Espey MG, Miranda KM, Paolocci N, Feelisch M, Fukuto J, Wink DA. The chemistry of nitrosative stress induced by nitric oxide and reactive nitrogen oxide species. Putting perspective on stressful biological situations. Biol Chem. 2004;385(1):1–10.
Article
CAS
PubMed
Google Scholar
Tetievsky A, Horowitz M. Posttranslational modifications in histones underlie heat acclimation-mediated cytoprotective memory. J Appl Physiol. 2010;109(5):1552–61.
Article
CAS
PubMed
Google Scholar
Gough J, Karplus K, Hughey R, Chothia C. Assignment of homology to genome sequences using a library of hidden Markov models that represent all proteins of known structure. J Mol Biol. 2001;313(4):903–19.
Article
CAS
PubMed
Google Scholar
Salminen A, Paimela T, Suuronen T, Kaamiranta K. Innate immunity meets with cellular stress at the IKK complex: Regulation of the IKK complex by HSP70 and HSP90. Immunol Lett. 2008;117(1):9–15.
Article
CAS
PubMed
Google Scholar
Tam AB, Mercado EL, Hoffmann A, Niwa M. ER stress activates NF-kappaB by integrating functions of basal IKK activity, IRE1 and PERK. PLoS One. 2012;7(10):e45078.
Article
CAS
PubMed
PubMed Central
Google Scholar
Lee BR, Kim H, Park TS, Moon S, Cho S, Park T, Lim JM, Han JY. A set of stage-specific gene transcripts identified in EK stage X and HH stage 3 chick embryos. BMC Dev Biol. 2007;7:60.
Article
PubMed
PubMed Central
Google Scholar
Yen SY, Tseng JK, Chuang SM, Chen SE, Ju JC. Expression and activation of mitogen-activated protein kinases in matured porcine oocytes under thermal stress. J Reprod Dev. 2014;60(5):388–394.
Article
CAS
PubMed
PubMed Central
Google Scholar
Flint MS, Budiu RA, Teng PN, Sun M, Stolz DB, Lang MG, Hood BL, Vlad AM, Conrads TP. Restraint stress and stress hormones significantly impact T lymphocyte migration and function through specific alterations of the actin cytoskeleton. Brain Behav Immun. 2011;25(6):1187–1196.
Article
CAS
PubMed
Google Scholar
Mashaly MM, Hendricks GL, 3rd, Kalama MA, Gehad AE, Abbas AO, Patterson PH. Effect of heat stress on production parameters and immune responses of commercial laying hens. Poult Sci. 2004;83(6):889–894.
Article
CAS
PubMed
Google Scholar