Animal Bioscience

Asian Australasian Association of Animal Production Societies (아세아태평양축산학회)
권호 표지
DOI QR코드

DOI QR Code

Profiling of skeletal muscle tissue for long non-coding RNAs related to muscle metabolism in the QingYu pig at the growth inflection point

  • Luo, Jia (College of Animal Science and Technology, Sichuan Agricultural University) ;
  • Shen, Linyuan (College of Animal Science and Technology, Sichuan Agricultural University) ;
  • Gan, Mailin (College of Animal Science and Technology, Sichuan Agricultural University) ;
  • Jiang, Anan (College of Animal Science and Technology, Sichuan Agricultural University) ;
  • Chen, Lei (College of Animal Science and Technology, Sichuan Agricultural University) ;
  • Ma, Jideng (College of Animal Science and Technology, Sichuan Agricultural University) ;
  • Jin, Long (College of Animal Science and Technology, Sichuan Agricultural University) ;
  • Liu, Yihui (Sichuan Province General Station of Animal Husbandry) ;
  • Tang, Guoqing (College of Animal Science and Technology, Sichuan Agricultural University) ;
  • Jiang, Yanzhi (College of Life Science, Sichuan Agricultural University) ;
  • Li, Mingzhou (College of Animal Science and Technology, Sichuan Agricultural University) ;
  • Li, Xuewei (College of Animal Science and Technology, Sichuan Agricultural University) ;
  • Zhang, Shunhua (College of Animal Science and Technology, Sichuan Agricultural University) ;
  • Zhu, Li (College of Animal Science and Technology, Sichuan Agricultural University)
  • Received : 2020.06.22
  • Accepted : 2020.09.28
  • Published : 2021.08.01
Download PDF
⟨ Previous Next ⟩

Abstract

Objective: Investigation of muscle growth at different developmental stages is an appropriate strategy for studying the mechanisms underlying muscle development and differences in phenotypes. In particular, the muscle development mechanisms and the difference between the fastest and slowest growth rates. Methods: In this study, we used a growth curve model to fit the growth inflection point (IP) of QingYu pigs and compared differences in the long non-coding RNA (lncRNA) transcriptome of muscle both at the growth IP and plateau phase (PP). Results: The growth curve of the QingYu pig had a good fit (R2 = 0.974) relative to a typical S-curve and reached the IP at day 177.96. At the PP, marbling, intramuscular fat, and monounsaturated fatty acids had increased significantly and the percentage of lean muscle and polyunsaturated fatty acids had decreased. A total of 1,199 mRNAs and 62 lncRNAs were differentially expressed at the IP compared with the PP. Additional to gene ontology and Kyoto encyclopedia of genes and genomes pathway analyses, these differentially expressed protein coding genes were principally related to muscle growth and lipid metabolism. Conclusion: Our results suggest that the identified differentially expressed lncRNAs, could play roles in muscle growth, fat deposition and regulation of fatty acid composition at the IP and PP.

Keywords

Acknowledgement

This study was supported by the Sichuan Science and Technology Program (No. 2016NYZ0050; No. SCCXTD-009), the Fundamental Research Funds for the Central Universities (SWU119028), the National Natural Science Foundation of China (No. 31530073), the earmarked fund for China Agriculture Research System (No. CARS-36-05B).

References

  1. Rehfeldt C, Fiedler I, Dietl G, Ender K. Myogenesis and postnatal skeletal muscle cell growth as influenced by selection. Livest Prod Sci 2000;66:177-88. https://doi.org/10.1016/S0301-6226(00)00225-6
  2. Picard B, Lefaucheur L, Berri C, Duclos MJ. Muscle fibre ontogenesis in farm animal species. Reprod Nutr Dev 2002; 42:415-31. https://doi.org/10.1051/rnd:2002035
  3. Te Pas MFW, De Wit AAW, Priem J, et al. Transcriptome expression profiles in prenatal pigs in relation to myogenesis. J Muscle Res Cell Motil 2005;26:157-65. https://doi.org/10.1007/s10974-005-7004-6
  4. Shen L, Luo J, Du J, et al. Transcriptome analysis of Liangshan pig muscle development at the growth curve inflection point and asymptotic stages using digital gene expression profiling. PLoS One 2015;10:e0135978. https://doi.org/10.1371/journal.pone.0135978
  5. Butchart LC, Fox A, Shavlakadze T, Grounds MD. The long and short of non-coding RNAs during post-natal growth and differentiation of skeletal muscles: focus on lncRNA and miRNAs. Differentiation 2016;92:237-48. https://doi.org/10.1016/j.diff.2016.05.003
  6. Huang W, Zhang X, Li A, Xie L, Miao X. Differential regulation of mRNAs and lncRNAs related to lipid metabolism in two pig breeds. Oncotarget 2017;8:87539-53. https://doi.org/10.18632/oncotarget.20978
  7. Zou C, Li J, Luo W, et al. Transcriptome analysis reveals long intergenic non-coding RNAs involved in skeletal muscle growth and development in pig. Sci Rep 2017;7:8704. https://doi.org/10.1038/s41598-017-07998-9
  8. Zhao W, Mu Y, Ma L, et al. Systematic identification and characterization of long intergenic non-coding RNAs in fetal porcine skeletal muscle development. Sci Rep 2015;5:8957. https://doi.org/10.1038/srep08957
  9. Roberts A, Trapnell C, Donaghey J, Rinn JL, Pachter L. Improving RNA-Seq expression estimates by correcting for fragment bias. Genome Biol 2011;12:R22. https://doi.org/10.1186/gb-2011-12-3-r22
  10. Lee WJ, Kim M, Park HS, et al. AMPK activation increases fatty acid oxidation in skeletal muscle by activating PPARα and PGC-1. Biochem Biophys Res Commun 2006;340:291-5. https://doi.org/10.1016/j.bbrc.2005.12.011
  11. Kanehisa M, Sato Y, Kawashima M, Furumichi M, Tanabe M. KEGG as a reference resource for gene and protein annotation. Nucleic Acids Res 2016;44:D457-62. https://doi.org/10.1093/nar/gkv1070
  12. Virgili R, Degni M, Schivazappa C, et al. Effect of age at slaughter on carcass traits and meat quality of Italian heavy pigs. J Anim Sci 2003;81:2448-56. https://doi.org/10.2527/2003.81102448x
  13. Franco D, Carballo J, Bermnudez R, Lorenzo JM. Effect of genotype and slaughter age on carcass traits and meat quality of the Celta pig breed in extensive system. Ann Anim Sci 2016;16:259-73. https://doi.org/10.1515/aoas-2015-0056
  14. Lee SH, Cho YM, Lee SH, et al. Identification of marbling-related candidate genes in M. longissimus dorsi of high- and low marbled Hanwoo (Korean native cattle) steers. BMB Rep 2008;41:846-51. https://doi.org/10.5483/BMBRep.2008.41.12.846
  15. Ooi EMM, Watts GF, Ng TWK, Barrett PHR. Effect of dietary fatty acids on human lipoprotein metabolism: a comprehensive update. Nutrients 2015;7:4416-25. https://doi.org/10.3390/nu7064416
  16. Ran M, Chen B, Li Z, et al. Systematic identification of long noncoding RNAs in immature and mature porcine testes. Biol Reprod 2016;94:77. https://doi.org/10.1095/biolreprod.115.136911
  17. Luo J, Lei H, Shen L, et al. Estimation of growth curves and suitable slaughter weight of the Liangshan pig. Asian-Australas J Anim Sci 2015;28:1252-8. https://doi.org/10.5713/ajas.15.0010
  18. Strathe AB, Danfaer A, Sorensen H, Kebreab E. A multilevel nonlinear mixed-effects approach to model growth in pigs. J Anim Sci 2013;88:638-49. https://doi.org/10.2527/jas.2009-1822
  19. Dube B, Mulugeta SD, Dzama K. Genetic relationship between growth and carcass traits in Large White pigs. S Afr J Anim Sci 2013;43:482-92. https://doi.org/10.4314/sajas.v43i4.5
  20. Meijboom PW, Stroink JBA. 2-trans,4-cis,7-cis-Decatrienal, the fishy off-flavor occurring in strongly autoxidized oils containing linolenic acid or ω 3,6,9, etc., fatty acids. J Am Oil Chem Soc 1972;49:555-8. https://doi.org/10.1007/BF02609225
  21. Mersmann HJ, Ding ST. Fatty acids modulate porcine adipocyte differentiation and transcripts for transcription factors and adipocyte-characteristic proteins. J Nutr Biochem 2001;12: 101-8. https://doi.org/10.1016/S0955-2863(00)00136-4
  22. Olsen RE, Henderson RJ, McAndrew BJ. The conversion of linoleic acid and linolenic acid to longer chain polyunsaturated fatty acids by Tilapia (Oreochromis) nilotica in vivo. Fish Physiol Biochem 1990;8:261-70. https://doi.org/10.1007/BF00004465
  23. Singh M. Essential fatty acids, DHA and human brain. Indian J Pediatr 2005;72:239-42. https://doi.org/10.1007/BF02859265
  24. Schoonjans K, Staels B, Auwerx J. The peroxisome proliferator activated receptors (PPARs) and their effects on lipid metabolism and adipocyte differentiation. Biochim Biophys Acta Lipids Lipid Metab 1996;1302:93-109. https://doi.org/10.1016/0005-2760(96)00066-5
  25. Wang T, Jiang A, Guo Y, et al. Deep sequencing of the transcriptome reveals inflammatory features of porcine visceral adipose tissue. Int J Biol Sci 2013;9:550-6. https://doi.org/10.7150/ijbs.6257
  26. Ramayo-Caldas Y, Mach N, Esteve-Codina A, et al. Liver transcriptome profile in pigs with extreme phenotypes of intramuscular fatty acid composition. BMC Genomics 2012; 13:547. https://doi.org/10.1186/1471-2164-13-547
  27. Yu X, Zhang Y, Li T, et al. Long non-coding RNA Linc-RAM enhances myogenic differentiation by interacting with MyoD. Nat Commun 2017;8:14016. https://doi.org/10.1038/ncomms14016
  28. Zhou L, Sun K, Zhao Y, et al. Linc-YY1 promotes myogenic differentiation and muscle regeneration through an interaction with the transcription factor YY1. Nat Commun 2015;6: 10026. https://doi.org/10.1038/ncomms10026