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Gene expression profiling in porcine mammary gland during lactation and identification of breed-and developmental-stage-specific genes

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Abstract

A total of 28941 ESTs were sequenced from five 5′-directed non-normalized cDNA libraries, which were assembled into 2212 contigs and 5642 singlets using CAP3. These sequences were annotated and clustered into 6857 unique genes, 2072 of which having no functional annotations were considered as novel genes. These genes were further classified into Gene Ontology categories. By comparing the expression profiles, we identified some breed-and developmental-stage-specific gene groups. These genes may be relative to reproductive performance or play important roles in milk synthesis, secretion and mammary involution. The unknown EST sequences and expression profiles at different developmental stages and breeds are very important resources for further research.

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References

  1. Rosen, J. M., Wyszomierski, S. L., Hadsell, D., Regulation of milk protein gene expression, Annu. Rev. Nutr., 1999, 19: 407–436.

    Article  PubMed  CAS  Google Scholar 

  2. Jaggi, R., Marti, A., Guo, K. et al., Regulation of a physiological apoptosis: Mouse mammary involution, J. Dairy Sci., 1996, 79: 1074–1084.

    PubMed  CAS  Google Scholar 

  3. Croft, L., Schandorff, S., Clark, F. et al., ISIS, the intron information system, reveals the high frequency of alternative splicing in the human genome, Nat. Genet., 2000, 24: 340–341.

    PubMed  CAS  Google Scholar 

  4. Modrek, B., Resch, A., Grasso, C. et al., Genome-wide detection of alternative splicing in expressed sequences of human genes, Nucleic Acids Res., 2001, 29: 2850–2859.

    Article  PubMed  CAS  Google Scholar 

  5. Adams, M. D., Kerlavage, A. R., Fleischmann, R. D. et al., Initial assessment of human gene diversity and expression patterns based upon 83 million nucleotides of cDNA sequence, Nature, 1995, 377: 3–174.

    PubMed  CAS  Google Scholar 

  6. Papadopoulos, N., Nicolaides, N. C., Wei, Y. F. et al., Mutation of a mutL homolog in hereditary colon cancer, Science, 1994, 263: 1625–1629.

    PubMed  CAS  Google Scholar 

  7. Jiang, F. B., Chen, C., Deng, Y. J. et al., Analysis of porcine MHC expression profile., Chinese Science Bulletin, 2005, 50(9): 880–890

    Article  Google Scholar 

  8. Zhong, B. X., Yu, Y. P., Xu, Y. S. et al., Analysis of ESTs and gene expression patterns of the posterior silkgland in the fifth instar larvae of silkworm, Bom-byx mori L., Science in China Ser. C, 2005, 48(1): 25–33.

    CAS  Google Scholar 

  9. Ryo, A., Kondoh, N., Wakatsuki, T. et al., A method for analyzing the qualitative and quantitative aspects of gene expression: a transcriptional profile revealed for HeLa cells, Nucleic Acids Res., 1998, 26: 2586–2592.

    Article  PubMed  CAS  Google Scholar 

  10. Wang, L. L., Ma, L., Leng, W. C. et al., Analysis of part of the Trichophyton rubrum ESTs, Science in China, Ser. C, 2004, 47(5): 389–395.

    Google Scholar 

  11. Mao, M., Fu, G., Wu, J. S. et al., Identification of genes expressed in human CD34(+) hematopoietic stem/progenitor cells by expressed sequence tags and efficient full-length cDNA cloning, Proc. Natl. Acad. Sci. USA, 1998, 95: 8175–8180.

    PubMed  CAS  Google Scholar 

  12. Yu, Y., Zhang, C., Zhou, G. et al., Gene expression profiling in human fetal liver and identification of tissue-and developmental-stage-specific genes through compiled expression profiles and efficient cloning of full-length cDNAs, Genome Res., 2001, 11: 1392–1403.

    Article  PubMed  CAS  Google Scholar 

  13. http://ncbi.nlm.nih.gov/UniGene.

  14. Wheeler, M. B., Production of transgenic livestock: promise fulfilled, J. Anim. Sci., 2003, 81(Suppl.3): 32–37.

    PubMed  CAS  Google Scholar 

  15. Zou, S. X., Mclaren, D. G., Hurley, W. L., Pig colostrum and milk composition: Comparisons between Chinese meishan and US breeds, Livestock Production Sci., 1992, 30: 115–127.

    Google Scholar 

  16. Qin, Y. D., Xu, Y. X., Zou, S. X. et al., The polymorphism of high molecular weight protein in sow milk and its relatiomship with reproductive performance, Acta Veterinaria et Zootechnica Sinica (in Chinese), 2002, 33(5): 429–432.

    Google Scholar 

  17. Ewing, B., Hillier, L., Wendl, M. C. et al., Base-calling of automated sequencer traces using phred. II. Error Probabilities, Genome Res., 1998, 8: 175–185.

    PubMed  CAS  Google Scholar 

  18. http://www.genome.washington.edu/UWGC.

  19. Altschul, S., Madden, T., Schaffer, A. et al., Gapped BLAST and PSI-BLAST: A new generation of protein database search programs, Nucleic Acids Res., 1997, 25: 3389–3402.

    Article  PubMed  CAS  Google Scholar 

  20. Pertea, G., Huang, X., Liang, F. et al., TIGR Gene Indices clustering tools (TGICL): A software system for fast clustering of large EST datasets, Bioinformatics, 2003, 19: 651–652.

    Article  PubMed  CAS  Google Scholar 

  21. Consortium TGO., Creating the gene ontology resource: Design and implementation, Genome Res., 2001, 11: 1425–1433.

    Article  Google Scholar 

  22. Romualdi, C., Bortoluzzi, S., Danieli, G. A., Detecting differentially expressed genes in multiple tag sampling experiments: Comparative evaluation of statistical tests, Hum. Mol. Genet., 2001, 10: 2133–2141.

    Article  PubMed  CAS  Google Scholar 

  23. Romualdi, C., Bortoluzzi, S., D'Alessi, F. et al., IDEG6: A web tool for detection of differentially expressed genes in multiple tag sampling experiments, Physiol. Genomics, 2003, 12: 159–162.

    PubMed  CAS  Google Scholar 

  24. Boguski, M. S., Lowe, T. M., Tolstoshev, C. M., dbEST — Database for “expressed sequence tags”, Nat. Genet., 1993, 4: 332–333.

    Article  PubMed  CAS  Google Scholar 

  25. Hillier, L. D., Lennon, G.., Becker, M. et al., Generation and analysis of 280000 human expressed sequence tags, Genome Res., 1996, 6: 807–828.

    PubMed  CAS  Google Scholar 

  26. Robinson, G. W., McKnight, R. A., Smith, G. H. et al., Mammary epithelial cells undergo secretory differentiation in cycling virgins but require pregnancy for the establishment of terminal differentiation, Development, 1995, 121: 2079–2090.

    PubMed  CAS  Google Scholar 

  27. Li, M., Liu, X., Robinson, G.. et al., Mammary-derived signals activate programmed cell death during the first stage of mammary gland involution, Proc. Natl. Acad. Sci. USA, 1997, 94: 3425–3430.

    PubMed  CAS  Google Scholar 

  28. Clarkson, R. W., Wayland, M. T., Lee, J. et al., Gene expression profiling of mammary gland development reveals putative roles for death receptors and immune mediators in post-lactational regression, Breast Cancer Res., 2004, 6: R92–R109.

    Article  PubMed  CAS  Google Scholar 

  29. Stein, T., Morris, J. S., Davies, C. R. et al., Involution of the mouse mammary gland is associated with an immune cascade and an acute-phase response, involving LBP, CD14 and STAT3, Breast Cancer Res., 2004, 6: R75–R91.

    Article  PubMed  CAS  Google Scholar 

  30. Chinese Livestock Records Compiling Committee, ed., Chinese Pig Breeds Record (in Chinese), Shanghai: Publish House of Science and Technology of Shanghai, 1986.

    Google Scholar 

  31. Service, R. F., DNA chips survey an entire genome, Science, 1998, 281: 1122.

    PubMed  CAS  Google Scholar 

  32. Powell, J., SAGE. The serial analysis of gene expression, Methods Mol. Biol., 2000, 99: 297–319.

    PubMed  CAS  Google Scholar 

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Correspondence to Yu Jun or Hu Songnian.

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Su, Z., Dong, X., Zhang, B. et al. Gene expression profiling in porcine mammary gland during lactation and identification of breed-and developmental-stage-specific genes. SCI CHINA SER C 49, 26–36 (2006). https://doi.org/10.1007/s11427-005-0181-0

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  • DOI: https://doi.org/10.1007/s11427-005-0181-0

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