Kristensen HH, Wathes CM. Ammonia and poultry welfare: a review. World’s Poultry Sci J. 2000;56(03):235–45.
Behera SN, Sharma M, Aneja VP, Balasubramanian R. Ammonia in the atmosphere: a review on emission sources, atmospheric chemistry and deposition on terrestrial bodies. Environ Sci Pollution Res Int. 2013;20(11):8092–131.
David B, Mejdell C, Michel V, Lund V, Moe RO. Air Quality in Alternative Housing Systems May Have an Impact on Laying Hen Welfare. Part II—Ammonia. Animals. 2015;5(3):886–96.
Dai X-R, Saha CK, Ni J-Q, Heber AJ, Blanes-Vidal V, Dunn JL. Characteristics of pollutant gas releases from swine, dairy, beef, and layer manure, and municipal wastewater. Water Res. 2015;76:110–9.
David B, Moe RO, Michel V, Lund V, Mejdell C. Air quality in alternative housing systems may have an impact on laying hen welfare. Part I—Dust. Animals. 2015;5(3):495–511.
Green AR, Wathes CM, Demmers TG, Clark JM, Xin H. Development and application of a novel environmental preference chamber for assessing responses of laboratory mice to atmospheric ammonia. J Am Assoc Lab Animal Sci JAALAS. 2008;47(2):49–56.
Miles DM, Branton SL, Lott BD. Atmospheric Ammonia is Detrimental to the Performance of Modern Commercial Broilers. Poult Sci. 2004;83(10):1650–4.
Monfort P, Kosenko E, Erceg S, Canales J-J, Felipo V. Molecular mechanism of acute ammonia toxicity: role of NMDA receptors. Neurochem Int. 2002;41(2–3):95–102.
Braissant O, Mclin VA, Cudalbu C. Ammonia toxicity to the brain. J Inherit Metab Dis. 2013;36(4):595–612.
Auron A, Brophy PD. Hyperammonemia in review: pathophysiology, diagnosis, and treatment. Pediatric Nephrol (Berlin, Germany). 2012;27(2):207–22.
Ferrecchia CE, Jensen K, Van Andel R. Intracage Ammonia Levels in Static and Individually Ventilated Cages Housing C57BL/6 Mice on 4 Bedding Substrates. J Am Assoc Lab Animal Sci Jaalas. 2014;53(2):146–51.
Wei FX, Hu XF, Sa RN, Liu FZ, Li SY, Sun QY. Antioxidant capacity and meat quality of broilers exposed to different ambient humidity and ammonia concentrations. Genet Mol Res. 2014;13(2):3117–27.
Piórkowska K, Żukowski K, Nowak J, Połtowicz K, Ropka-Molik K, Gurgul A. Genome-wide RNA-Seq analysis of breast muscles of two broiler chicken groups differing in shear force. Anim Genet. 2015;47(1):68–80.
Mutryn MF, Brannick EM, Fu W, Lee WR, Abasht B. Characterization of a novel chicken muscle disorder through differential gene expression and pathway analysis using RNA-sequencing. BMC Genomics. 2015;16(1):399–417.
Li T, Wu R, Zhang Y, Zhu D. A systematic analysis of the skeletal muscle miRNA transcriptome of chicken varieties with divergent skeletal muscle growth identifies novel miRNAs and differentially expressed miRNAs. BMC Genomics. 2011;12(1):1–20.
Cogburn LA, Wang X, Carre W, Rejto L, Aggrey SE, Duclos MJ, Simon J, Porter TE. Functional genomics in chickens: development of integrated-systems microarrays for transcriptional profiling and discovery of regulatory pathways. Comp Funct Genomics. 2004;5(3):253–61.
Picard B, Lebret B, Cassar-Malek I, Liaubet L, Berri C, Le Bihan-Duval E, Hocquette JF, Renand G. Recent advances in omic technologies for meat quality management. Meat Sci. 2015;109:18–26.
D’Alessandro A, Zolla L. Meat science: From proteomics to integrated omics towards system biology. J Proteome. 2013;78:558–77.
Wang Z, Gerstein M, Snyder M. RNA-Seq: a revolutionary tool for transcriptomics. Nat Rev Genet. 2009;10(1):57–63.
Yan Y, Yang N, Cheng HH, Song J, Qu L. Genome-wide identification of copy number variations between two chicken lines that differ in genetic resistance to Marek’s disease. BMC Genomics. 2015;16:843.
Buermans HPJ, den Dunnen JT. Next generation sequencing technology: Advances and applications. Biochim Biophys Acta (BBA) - Mol Basis Dis. 2014;1842(10):1932–41.
Perumbakkam S, Muir WM, Black-Pyrkosz A, Okimoto R, Cheng HH. Comparison and contrast of genes and biological pathways responding to Marek’s disease virus infection using allele-specific expression and differential expression in broiler and layer chickens. BMC Genomics. 2013;14(1):64.
Wei FX, Hu XF, Xu B, Zhang MH, Li SY, Sun QY, Lin P. Ammonia concentration and relative humidity in poultry houses affect the immune response of broilers. Genet Mol Res. 2015;14(2):3160–9.
Zhang J, Li C, Tang X, Lu Q, Sa R, Zhang H. High Concentrations of Atmospheric Ammonia Induce Alterations in the Hepatic Proteome of Broilers (Gallus gallus): An iTRAQ-Based Quantitative Proteomic Analysis. PLoS One. 2015;10(4):e0123596.
Połtowicz K, Doktor J. Effect of slaughter age on performance and meat quality of slow-growing broiler chickens. Ann Anim Sci. 2012;12(4):621–31.
da Huang W, Sherman BT, Lempicki RA. Systematic and integrative analysis of large gene lists using DAVID bioinformatics resources. Nat Protoc. 2009;4(1):44–57.
Haas BJ, Papanicolaou A, Yassour M, Grabherr M, Blood PD, Bowden J, Couger MB, Eccles D, Li B, Lieber M. De novo transcript sequence reconstruction from RNA-seq using the Trinity platform for reference generation and analysis. Nat Protoc. 2013;8(8):1494–512.
Hillier LW, Miller W, Birney E, Warren W, Hardison RC, Ponting CP, Bork P, Burt DW, Groenen MAM, Delany ME, et al. Sequence and comparative analysis of the chicken genome provide unique perspectives on vertebrate evolution. Nature. 2004;432(7018):695–716.
Rekaya R, Sapp RL, Wing T, Aggrey SE. Genetic evaluation for growth, body composition, feed efficiency, and leg soundness. Poult Sci. 2013;92(4):923–9.
Ni J-Q. Research and demonstration to improve air quality for the US animal feeding operations in the 21st century–A critical review. Environ Pollut. 2015;200:105–19.
Park JH, Kim IH. Interactive effects of fenugreek (Trigonella foenum-graecum L.) seed extract supplementation and dietary metabolisable energy levels on the growth performance, total tract digestibility, blood profiles, and excreta gas emission in broiler chickens. Animal Product Sci. 2015. http://dx.doi.org/10.1071/AN14834.
Shu G, Liao WY, Feng JY, Yu KF, Zhai YF, Wang SB, Khondowe P, Wang XQ, Jiang QY. Active immunization of fatty acid translocase specifically decreased visceral fat deposition in male broilers. Poult Sci. 2011;90(11):2557–64.
Davis RV, Lamont SJ, Rothschild MF, Persia ME, Ashwell CM, Schmidt CJ. Transcriptome analysis of post-hatch breast muscle in legacy and modern broiler chickens reveals enrichment of several regulators of myogenic growth. PLoS One. 2015;10(3):e0122525.
Guo J, Shu G, Zhou L, Zhu X, Liao W, Wang S, Yang J, Zhou G, Xi Q, Gao P, et al. Selective transport of long-chain fatty acids by FAT/CD36 in skeletal muscle of broilers. Animal. 2013;7(03):422–9.
Tarhda Z, Semlali O, Kettani A, Moussa A, Abumrad NA, Ibrahimi A. Three Dimensional Structure Prediction of Fatty Acid Binding Site on Human Transmembrane Receptor CD36. Bioinformatics Biol Insights. 2013;7:369–73.
McFarlan JT, Yoshida Y, Jain SS, Han X-X, Snook LA, Lally J, Smith BK, Glatz JFC, Luiken JJFP, Sayer RA, et al. In Vivo, Fatty Acid Translocase (CD36) Critically Regulates Skeletal Muscle Fuel Selection, Exercise Performance, and Training-induced Adaptation of Fatty Acid Oxidation. J Biol Chem. 2012;287(28):23502–16.
Joseph R, Poschmann J, Sukarieh R, Too PG, Julien SG, Xu F, Teh AL, Holbrook JD, Ng KL, Chong YS, et al. ACSL1 Is Associated With Fetal Programming of Insulin Sensitivity and Cellular Lipid Content. Mol Endocrinol. 2015;29(6):909–20.
Cui H, Liu R, Zhao G, Zheng M, Chen J, Wen J. Identification of differentially expressed genes and pathways for intramuscular fat deposition in pectoralis major tissues of fast-and slow-growing chickens. BMC Genomics. 2012;13(1):1–12.
Wu Q, Ortegon AM, Tsang B, Doege H, Feingold KR, Stahl A. FATP1 Is an Insulin-Sensitive Fatty Acid Transporter Involved in Diet-Induced Obesity. Mol Cell Biol. 2006;26(9):3455–67.
Melo C, Gallardo D, Quintanilla R, Zidi A, Castelló A, Díaz I, Amills M, Pena RN. An association analysis between polymorphisms of the pig solute carrier family 27A (SLC27A), member 1 and 4 genes and serum and muscle lipid traits. Livest Sci. 2013;152(2–3):143–6.
Cui HX, Zheng MQ, Liu RR, Zhao GP, Chen JL, Wen J. Liver dominant expression of fatty acid synthase (FAS) gene in two chicken breeds during intramuscular-fat development. Mol Biol Rep. 2011;39(4):3479–84.
Zhao C, Tian F, Yu Y, Liu G, Zan L, Updike MS, Song J. miRNA-dysregulation associated with tenderness variation induced by acute stress in Angus cattle. J Animal Sci Biotechnol. 2012;3(1):1.
Sackett BAM, Fronting GW, Deshazer JA, Struwe FJ. Effect of Gaseous Preslaughter Environment on Chicken Broiler Meat Quality. Poult Sci. 1986;65(3):511–9.
Maltin C, Balcerzak D, Tilley R, Delday M. Determinants of meat quality: tenderness. Proc Nutr Soc. 2003;62(02):337–47.
Quarles CL, Kling HF. Evaluation of Ammonia and Infectious Bronchitis Vaccination Stress on Broiler Performance and Carcass Quality. Poult Sci. 1974;53(4):1592–6.
Pearce KL, Rosenvold K, Andersen HJ, Hopkins DL. Water distribution and mobility in meat during the conversion of muscle to meat and ageing and the impacts on fresh meat quality attributes — A review. Meat Sci. 2011;89(2):111–24.
Razinia Z, Baldassarre M, Cantelli G, Calderwood DA. ASB2α, an E3 Ubiquitin Ligase Specificity Subunit, Regulates Cell Spreading and Triggers Proteasomal Degradation of Filamins by Targeting the Filamin Calponin Homology 1 Domain. J Biol Chem. 2013;288(44):32093–105.
Davey JR, Watt KI, Parker BL, Chaudhuri R, Ryall JG, Cunningham L, Qian H, Sartorelli V, Sandri M, Chamberlain J, et al. Integrated expression analysis of muscle hypertrophy identifies ASB2 as a negative regulator of muscle mass. JCI Insight. 2016;1(5):e85477.
Bower NI, Johnston IA. Discovery and characterization of nutritionally regulated genes associated with muscle growth in Atlantic salmon. Physiol Genomics. 2010;42A(2):114–30.
Bosma M, Hesselink MKC, Sparks LM, Timmers S, Ferraz MJ, Mattijssen F, van Beurden D, Schaart G, de Baets MH, Verheyen FK, et al. Perilipin 2 Improves Insulin Sensitivity in Skeletal Muscle Despite Elevated Intramuscular Lipid Levels. Diabetes. 2012;61(11):2679–90.
Conte M, Vasuri F, Trisolino G, Bellavista E, Santoro A, Degiovanni A, Martucci E, D’Errico-Grigioni A, Caporossi D, Capri M, et al. Increased Plin2 expression in human skeletal muscle is associated with sarcopenia and muscle weakness. PLoS One. 2013;8(8):e73709.
Davoli R, Gandolfi G, Braglia S, Comella M, Zambonelli P, Buttazzoni L, Russo V. New SNP of the porcine Perilipin 2 (PLIN2) gene, association with carcass traits and expression analysis in skeletal muscle. Mol Biol Rep. 2010;38(3):1575–83.
Gandolfi G, Mazzoni M, Zambonelli P, Lalatta-Costerbosa G, Tronca A, Russo V, Davoli R. Perilipin 1 and perilipin 2 protein localization and gene expression study in skeletal muscles of European cross-breed pigs with different intramuscular fat contents. Meat Sci. 2011;88(4):631–7.
Xing K, Zhu F, Zhai L, Liu H, Wang Z, Hou Z, Wang C. The liver transcriptome of two full-sibling Songliao black pigs with extreme differences in backfat thickness. J Animal Sci Biotechnol. 2014;5(1):1–9.
Zhao GP, Cui HX, Liu RR, Zheng MQ, Chen JL, Wen J. Comparison of breast muscle meat quality in 2 broiler breeds. Poult Sci. 2011;90(10):2355–9.
Zhao GP, Chen JL, Zheng MQ, Wen J, Zhang Y. Correlated Responses to Selection for Increased Intramuscular Fat in a Chinese Quality Chicken Line. Poult Sci. 2007;86(11):2309–14.
Lu Q, Wen J, Zhang H. Effect of Chronic Heat Exposure on Fat Deposition and Meat Quality in Two Genetic Types of Chicken. Poult Sci. 2007;86(6):1059–64.
Zhao C, Tian F, Yu Y, Luo J, Hu Q, Bequette BJ, Vi RLB, Liu G, Zan L, Updike MS, et al. Muscle transcriptomic analyses in Angus cattle with divergent tenderness. Mol Biol Rep. 2012;39(4):4185–93.