Genome Transcript Profiling Of Phenotypically Distinct Porcine Skeletal Muscles

In this study, we choose Rongchang Pigs of Chinese domestic breed with better meat quality,stronger fat deposition and Landrace of introduced breed with worse meat quality,less fat deposition as the animal model, used Genome transcript microarray of Agilent company studies to example the expression changes of genome transcript profiling in longissimus dorsi muscle and psoas major muscle at 210 d feed with the same condition and discuss the expression changes associated with different fibertypes and breeds characters during post growth development.①The result about difference expression of MyHC gene family and the association with meat qulity showed that:the MyHCⅡb mRNA level in Landrace were higher than Rongchang pigs at very significant level(P<0.01),when mixed gender effect. Meanwhile the expression of MyHCⅡb mRNA was negative with pH2 at very significant level(P<0.01), and positive with drip loss at very significant level(P<0.01),presented the worse meat quality characters.②Difference expression, clustering and principal component analysis showed that: between the same breed, same gender and the differet tissues, between the same breed, same tissue and the different gengers, between the same genger, same tissue and different breeds, we found 1,180,833 and 1,798 respectively, suggested that the difference between the breeds> tissues> genders.While the 8 diffetent tissues were classified 11 clusters,while different tissues were classifed 4 clusters.The futher principal component analysis found that the first principal component was the chief expression profile, the genes of 8 diffetent tissues existed the similar expression profiles.③The results of GO analysis selected by T test showed that:between the same breed, same gender and the differet tissues, between the same breed, same tissue and the different gengers, between the same genger, same tissue and different breeds and mixed gender, considering the tissues effects and breeds effects, we found 34,12,15,15 and 7 GO respectively, primary focusing on glucolysis, Skeletal muscular system morphology, ATP metablism process, electron transport chain and so on; the lots of GO existed in the tissues > breeds> genders, suggested that different biology process between longissimus dorsi muscle and psoas major muscle which presented the two extremity metablism types.④The results of GSEA analysis selected by T test showed that:between the same breed, same gender and the differet tissues, between the same breed, same tissue and the different gengers, between the same genger, same tissue and different breeds and mixed gender, considering the tissues effects and breeds effects, we found 18,13,2,13 and 1 Pathway significantly, The Pathway primary focusing on oxidation phosphorylation, immunology and signal transduction, the lots of GO existed in the tissues> genders> breeds, we also saw that these two muscular tissues play an important role in participation the Pathway related to immunology, when they played a part in energy metabolism.⑤The different genes selected by GSEA analysis showed that:analyzing the high frequency genes emerged in different Pathway by leading edge analysis showed thay: between the same breed, same gender and the differet tissues, between the same breed, same tissue and the different gengers and between the same genger, same tissue and different breeds we found 5 (PIK3R5, PLA2G1B, SLA-DQA1, CD86 and CAMK2D),2 (PLA2G1B and ABAT) and 1 (CTH) difference expression genes respectively, suggested these genes may play an impotrant role in Pathway.⑥The results of chromosome co-localization analysis showed that:intersection set existed among the same breed, same gender and the differet tissues,we found the expression genes (thousandfold and more) were mostly focused on the chrosome of 6,7, 9,13,14; intersection set existed among the same breed, same tissue and the differet genders, we found the expression genes (thousandfold and more) were mostly focused on the chrosome of 1,2,9,14,15; intersection set existed among the same gender, same tissue and the differet breeds,we found the expression genes (thousandfold and more) were mostly focused on the chrosome of 5,13,14.⑦Reliability evaluation from microarray data showed thaty:the C.V range from 3.4%-10.01% within-arrays, lower the standard of within C.V 15%, meanwhile qRT-PCR was used to verify the microarray data, the results showed that the coefficient correlation between these two technology was:0.718±0.140, These resultes demonstrate that the microarray technique used in this study is accurate and reproducible.