Cardiac transcriptome study of the effect of heat stress in yellow-feather broilers

References

• Anders S, Huber W. 2010. Differential expression analysis for sequence count data. Genome Biol. 11:1–12.
   Web of Science ®Google Scholar
• Anders S, Pyl PT, Huber W. 2015. HTSeq-a Python framework to work with high-throughput sequencing data. Bioinformatics. 31:166–169.
   PubMed Web of Science ®Google Scholar
• Angelica VG, Bolek KJ, Ashwell CM, Persia ME, Rothschild MF, Schmidt CJ, Lamont SJ. 2015. Identification of quantitative trait loci for body temperature, body weight, breast yield, and digestibility in an advanced intercross line of chickens under heat stress. Genet Sel Evol. 47:96.
   PubMed Web of Science ®Google Scholar
• Baghbanzadeh A, Decuypere E. 2008. Ascites syndrome in broilers: physiological and nutritional perspectives. Avian Pathol. 37:117–126.
   PubMed Web of Science ®Google Scholar
• Brudvig GW, Wikström M. 2005. Mechanistic comparisons between photosystem II and cytochrome c oxidase. Netherlands: Springer.
   Google Scholar
• Cahaner A, Leenstra F. 1992. Effects of high temperature on growth and efficiency of male and female broilers from lines selected for high weight gain, favorable feed conversion, and high or low fat content. Poult Sci. 71:1237.
   PubMed Web of Science ®Google Scholar
• Chang J, Jung HJ, Jeong SH, Kim HK, Han J, Kwon HJ. 2014. A mutation in the mitochondrial protein UQCRB promotes angiogenesis through the generation of mitochondrial reactive oxygen species. Biochem Bioph Res Co. 455:290–297.
   PubMed Web of Science ®Google Scholar
• Chang J, Jung HJ, Park HJ, Cho S, Lee SK, Kwon HJ. 2015. Cell-permeable mitochondrial ubiquinol-cytochrome c reductase binding protein induces angiogenesis in vitro and in vivo. Cancer Lett. 366:52–60.
   PubMed Web of Science ®Google Scholar
• Cheng C, Tu W, Chen C, Chan H, Chen C, Chen H, Tang P, Lee YP, Chen S, Huang S. 2018. Functional genomics study of acute heat stress response in the small yellow follicles of layer-type chickens. Sci Rep. 8:1320.
   PubMed Web of Science ®Google Scholar
• Cho YS, Jung HJ, Seok SH, Payumo AY, Chen JK, Kwon HJ. 2013. Functional inhibition of UQCRB suppresses angiogenesis in zebrafish. Biochem Biophys Res Co. 433:396–400.
   PubMed Web of Science ®Google Scholar
• Deeb N, Cahaner A. 2002. Genotype-by-environment interaction with broiler genotypes differing in growth rate. 3. Growth rate and water consumption of broiler progeny from weight-selected versus nonselected parents under normal and high ambient temperatures. Poult Sci. 81:293.
   PubMed Web of Science ®Google Scholar
• Deeb N, Lamont SJ. 2002. Genetic architecture of growth and body composition in unique chicken populations. J Hered. 93:107.
   PubMed Web of Science ®Google Scholar
• Finsterer J, Kothari S. 2014. Cardiac manifestations of primary mitochondrial disorders. Int J Cardiol. 177:754–763.
   PubMed Web of Science ®Google Scholar
• Fornuskova D, Stiburek L, Wenchich L, Vinsova K, Hansikova H, Zeman J. 2010. Novel insights into the assembly and function of human nuclear-encoded cytochrome c oxidase subunits 4, 5a, 6a, 7a and 7b. Biochem J. 428:363–374.
   PubMed Web of Science ®Google Scholar
• Gabaldon T, Rainey D, Huynen MA. 2005. Tracing the evolution of a large protein complex in the eukaryotes, NADH: ubiquinone oxidoreductase (complex I). J Mol Biol. 348:857–870.
   PubMed Web of Science ®Google Scholar
• Geraert PA, Padilha JC, Guillaumin S. 1996. Metabolic and endocrine changes induced by chronic heat exposure in broiler chickens: growth performance, body composition and energy retention. Br J Nutr. 75:195.
   PubMed Web of Science ®Google Scholar
• Jafri MS, Dudycha SJ, O’Rourke B. 2001. Cardiac energy metabolism: models of cellular respiration. Annu Rev Biomed Eng. 3:57–81.
   PubMed Web of Science ®Google Scholar
• Jung HJ, Kim KH, Kim ND, Han G, Kwon HJ. 2011. Identification of a novel small molecule targeting UQCRB of mitochondrial complex III and its anti-angiogenic activity. Bioorg Med Chem Lett. 21:1052–1056.
   PubMed Web of Science ®Google Scholar
• Kanehisa M, Goto S. 2000. KEGG: Kyoto encyclopedia of genes and genomes. Nucleic Acids Res. 28:27–30.
   PubMed Web of Science ®Google Scholar
• Kim D, Langmead B, Salzberg SL. 2015. HISAT: a fast spliced aligner with low memory requirements. Nat Methods. 12:357–360.
   PubMed Web of Science ®Google Scholar
• Kirby DM, Crawford M, Cleary M, Dahl HHM, Dennett X, Thorburn DR. 1999. Respiratory chain complex I deficiency: an underdiagnosed energy generation disorder. Neurology. 52:1255–1255.
   PubMed Web of Science ®Google Scholar
• Kirby DM, Salemi R, Sugiana C, Ohtake A, Parry L, Bell KM, Kirk EP, Boneh A, Taylor RW, Dahl HHM, et al. 2004. NDUFS6 mutations are a novel cause of lethal neonatal mitochondrial complex I deficiency. J Clin Invest. 114:837–845.
   PubMed Web of Science ®Google Scholar
• Limongelli G, Tome-Esteban M, Dejthevaporn C, Rahman S, Hanna MG, Elliott PM. 2010. Prevalence and natural history of heart disease in adults with primary mitochondrial respiratory chain disease. Eur J Heart Fail. 12:114–121.
   PubMed Web of Science ®Google Scholar
• Livak KJ, Schmittgen TD. 2001. Analysis of relative gene expression data using real-time quantitative PCR and the 2(-Delta Delta C(T)) Method. Methods. 25:402–408.
   PubMed Web of Science ®Google Scholar
• Loeffen J, Den Heuvel LV, Smeets R, Triepels R, Sengers RCA, Trijbels FJM, Smeitink J. 1998. cDNA sequence and chromosomal localization of the remaining three human nuclear encoded iron sulphur protein (IP) subunits of complex I: the human IP fraction is completed. Biochem Bioph Res Co. 247:751–758.
   PubMed Web of Science ®Google Scholar
• Loeffen J, Smeitink JAM, Trijbels JMF, Janssen AJM, Triepels R, Sengers RCA, Den Heuvel L. 2000. Isolated complex I deficiency in children: clinical, biochemical and genetic aspects. Hum Mutat. 15:123–134.
   PubMed Web of Science ®Google Scholar
• Lu Q, Wen J, Zhang H. 2007. Effect of chronic heat exposure on fat deposition and meat quality in two genetic types of chicken. Poult Sci. 86:1059.
   PubMed Web of Science ®Google Scholar
• Mao X, Cai T, Olyarchuk JG, Wei L. 2005. Automated genome annotation and pathway identification using the KEGG Orthology (KO) as a controlled vocabulary. Bioinformatics. 21:3787–3793.
   PubMed Web of Science ®Google Scholar
• Mckay JC, Barton NF, Koerhuis ANM, Mcadam J. 2000. The challenge of genetic change in the broiler chicken. 27:1–7.
   Google Scholar
• Olkowski AA. 2007. Pathophysiology of heart failure in broiler chickens: structural, biochemical, and molecular characteristics. Poult Sci. 86:999–1005.
   PubMed Web of Science ®Google Scholar
• Quinteirofilho WM, Ribeiro A, Ferrazdepaula V, Pinheiro ML, Sakai M, Sá LRM, Ferreira AJP, Palermoneto J. 2010. Heat stress impairs performance parameters, induces intestinal injury, and decreases macrophage activity in broiler chickens. Poult Sci. 89:1905.
   PubMed Web of Science ®Google Scholar
• Sohail MU, Hume ME, Byrd JA, Nisbet DJ, Ijaz A, Sohail A, Shabbir MZ, Rehman H. 2012. Effect of supplementation of prebiotic mannan-oligosaccharides and probiotic mixture on growth performance of broilers subjected to chronic heat stress. Poult Sci. 91:2235.
   PubMed Web of Science ®Google Scholar
• Spiegel R, Shaag A, Mandel H, Reich D, Penyakov M, Hujeirat Y, Saada A, Elpeleg O, Shalev SA. 2009. Mutated NDUFS6 is the cause of fatal neonatal lactic acidemia in Caucasus Jews. Eur J Hum Genet. 17:1200–1203.
   PubMed Web of Science ®Google Scholar
• Trapnell C, Williams BA, Pertea G, Mortazavi A, Kwan G, Van Baren MJ, Salzberg SL, Wold BJ, Pachter L. 2010. Transcript assembly and quantification by RNA-Seq reveals unannotated transcripts and isoform switching during cell differentiation. Nat Biotechnol. 28:511–515.
   PubMed Web of Science ®Google Scholar
• Ven LJF, Van De Wagenberg AV, Van Decuypere E, Kemp B, Brand H. Van Den 2013. Perinatal broiler physiology between hatching and chick collection in 2 hatching systems. Poult Sci. 92:1050–1061.
   PubMed Web of Science ®Google Scholar
• Windhorst HW. 2006. Changes in poultry production and trade worldwide. World’s Poult Sci J. 62:585–602.
   Web of Science ®Google Scholar
• Young MD, Wakefield MJ, Smyth GK, Oshlack A. 2010. Gene ontology analysis for RNA-seq: accounting for selection bias. Genome Biol. 11:1–12.
   Web of Science ®Google Scholar
• Zhang J, Schmidt CJ, Lamont SJ. 2017. Transcriptome analysis reveals potential mechanisms underlying differential heart development in fast- and slow-growing broilers under heat stress. BMC Genomics. 18:295.
   PubMed Web of Science ®Google Scholar