摘要 The biological chemistry would be responsible for the meat quality. This study tried to investigate the transcript expression profile and explain the characteristics of differentially expressed genes between the Wujin and Landrace pigs. The results showed that 526 differentially expressed genes were found by comparing the transcript expression profile of muscle tissue between Wujin and Landrace pigs. Among them, 335 genes showed up-regulations and 191 genes showed down-regulations in Wujin pigs compared with the Landrace pigs. Gene ontology (GO) analysis indicated that the differentially expressed genes were clustered into three groups involving in protein synthesis, energy metabolism and immune response. Kyoto encyclopedia of genes and genomes (KEGG) pathway analysis found that these differentially expressed genes participated in protein synthesis metabolism, energy metabolism and immune response pathway. The Database for Annotation, Visualization and Integrated Discovery (DAVID) analysis of protein function and protein domains function also confirmed that differentially expressed genes belonged to protein synthesis, energy metabolism and immune response. Genes related protein synthesis metabolism pathway in Landrace was higher than in Wujin pigs. However, differentially expressed genes related energy metabolism and immune response was up-regulated in Wujin pigs compared with Landrace pigs. Quantitative real-time RT-PCR on selected genes was used to confirm the results from the microarray. These suggested that the genes related to protein synthesis, energy metabolism and immune response would contribute to the growth performance, meat quality as well as anti-disease capacity.
Abstract The biological chemistry would be responsible for the meat quality. This study tried to investigate the transcript expression profile and explain the characteristics of differentially expressed genes between the Wujin and Landrace pigs. The results showed that 526 differentially expressed genes were found by comparing the transcript expression profile of muscle tissue between Wujin and Landrace pigs. Among them, 335 genes showed up-regulations and 191 genes showed down-regulations in Wujin pigs compared with the Landrace pigs. Gene ontology (GO) analysis indicated that the differentially expressed genes were clustered into three groups involving in protein synthesis, energy metabolism and immune response. Kyoto encyclopedia of genes and genomes (KEGG) pathway analysis found that these differentially expressed genes participated in protein synthesis metabolism, energy metabolism and immune response pathway. The Database for Annotation, Visualization and Integrated Discovery (DAVID) analysis of protein function and protein domains function also confirmed that differentially expressed genes belonged to protein synthesis, energy metabolism and immune response. Genes related protein synthesis metabolism pathway in Landrace was higher than in Wujin pigs. However, differentially expressed genes related energy metabolism and immune response was up-regulated in Wujin pigs compared with Landrace pigs. Quantitative real-time RT-PCR on selected genes was used to confirm the results from the microarray. These suggested that the genes related to protein synthesis, energy metabolism and immune response would contribute to the growth performance, meat quality as well as anti-disease capacity.
This work was sponsored by the Yunnan Natural Science Foundation, China (2009CD056), the National Natural Science foundation of China (30660132, 31060331 and 31260592), the Special Program for Key Basic Research of the Ministry of Science and Technology, China (2007CB116201) and the National Key Program of Transgenic Project of China (2009ZX08009-140B).
XU Hong, HUANG Ying, LI Wei-zhen, YANG Ming-hua, GE Chang-rong, ZHANG Xi, LI Liu-an , GAO Shi-zheng , ZHAO Su-mei.
2014.
Muscle Biological Characteristics of Differentially Expressed Genes in Wujin and Landrace Pigs. Journal of Integrative Agriculture, 13(10): 2236-2242.
Bai Q, McGillivray C, da Costa N, Dornan S, Evans G,Stear M J, Chang K C. 2003. Development of a procineskeletal muscle cDNA microarray: Analysis of differentialtranscript expression in phenotypically distinct muscles.BMC Genomics, 4, 8-20
Conley K E, Amara C E, Jubrias S A, Marcinek D J. 2007.Mitochondrial function, fibre types and ageing: newinsights from human muscle in vivo. ExperimentalPhysiology, 92, 333-339
Dennis G, Sherman B T, Hosack D A, Yang J, Gao W, Lane HC, Lempicki R A. 2003. DAVID: Database for annotation,visualization, and integrated discovery. Genome Biology,4, R60.
Fiedler I, Dietl G, Rehfeldt C, Wegner J, Ender K. 2004.Muscle fiber traits as additional selection criteria for musclegrowth and meat quality in pigs - Results of a simulatedselection. Journal of Animal Breed and Genetics, 121,331-334
Ge C R, Zhao S M, Zhang X, Lai H, Li C Q, Gao S Z. 2008.Effects of dietary protein levels on meat quality in Wujinpigs. Chinese Journal of Animal and Veterinary Science,39, 1692-1700. (in Chinese)
Honikel K O. 1998. Reference methods for the assessmentof physical characteristics of meat. Meat Science, 49,447-457
Huang W, Sherman B T, Lempicki R A. 2009. Systematicand integrative analysis of large gene lists using DAVIDbioinformatics resources. Nature Protocols, 4, 44-57
Johns G F, Rothchild M F, Ruvinsky A.1998. Genetic aspectsof domestication, common breeds and their origin. In:Rothschild M F, Ruvinsky A, eds. The Genetics of the Pig.CAB International, Wallingford, ox108ED, UK. pp. 17-48
Klont R E, Brocks L, Eikelenboom G. 1998. Muscle fibre typeand meat quality. Meat Science, 49, 219-229
Lefaucheur L, Milan D, Ecolan P, le Callennec C. 2004.Myosin heavy chain composition of different skeletalmuscles in Large White and Meishan pigs. Journal ofAnimal Science, 82, 1931-1941
Li M, Huang S J. 2009. Innate immunity, coagulation andplacenta-related adverse pregnancy outcomes. ThrombusResearch, 124, 656-662
Liu C S, Hsu C W. 2005. Differentially transcribed genes inskeletal muscle of Duroc and Taoyuan pigs. Journal ofAnimal Science, 83, 2075-2086
Lobjois V, Liaubet L, SanCristobal M, Glénisson J, Fève K,Rallières J, le Roy P, Milan D, Cherel P, Hatey F. 2008.A muscle transcriptome analysis identifies positionalcandidate genes for a complex trait in pig. Animal Genetics,39, 147-162
te Pas M F W, Hulsegge I, Pool I M H, Coster A, HeuvenH H, Janss L L G. 2007. Biochemical pathways analysisof microarray results: Regulation of myogenesis. BMCDevelopmental Biology, 7, 66-76
te Pas M F W, Keuning E, Hulsegge B, Hoving-Bolink AH, Evans G, Mulder H A. 2010. Longissimus muscletranscriptome profiles related to carcass and meat qualitytraits in fresh meat Pietrain carcasses. Journal of AnimalScience, 88, 4044-4055
Ponsuksili S, Murani E, Phatsara C, Jonas E, Walz C, SchwerinM, Schellander K, Wimmers K. 2008. Expression profilingof muscle reveals transcripts differentially expressed inmuscle that affect water-holding capacity of pork. Journalof Agricultural Food Chemistry, 56, 10311-10317
Zhang X, Ge C R, Zhao S M, Lai H, Li C Q, Gao S Z. 2008.Effects of dietary composition and digestive energy levelson meat quality in Wujin pigs. Chinese Journal of AnimalNutrition, 20, 58-65(in Chinese)
Zhao S H, Nettleton D, Liu W, Fitzsimmons C, Ernst C W,Raney N E, Tuggie C K. 2003. Complementary DNAmacroarray analyses of differential gene expression inporcine fetal and postnatal muscle. Journal of AnimalScience, 81, 2179-2188
Zhao S M, Ren L J, Chen L, Zhang X, Cheng M L, Li W Z,Zhang Y Y, Gao S Z. 2009. Differential expression oflipid metabolism related genes in porcine muscle tissueleading to different intramuscular fat deposition. Lipids,44, 1029-1037
Zhao S, Hulsegge B, Harders F L, Bossers R, Keuning E,Hoekman A J W, Hoving-Bolink R, te Pas M F W. 2012.Functional analysis of inter-individual transcriptomedifferential expression in pig longissimus muscle. Journalof Animal Breeding and Genetic, 130, 72-78
