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Expression Profiling and Validation of Potential Reference Genes During Paralichthys olivaceus Embryogenesis

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Abstract

Differential expression of genes is crucial to embryogenesis. The analysis of gene expression requires appropriate references that should be minimally regulated during the embryonic development. To select the most stable genes for gene normalization, the expression profiles of eight commonly used reference genes (ACTB, GAPDH, rpL17, α-Tub, EF1-α, UbcE, B2M, and 18S rRNA) were examined during Japanese flounder (Paralichthys olivaceus) embryonic development using quantitative real-time polymerase chain reaction. It was found that all seven mRNA genes appeared to be developmentally regulated and exhibited significant variation of expression. However, further analyses revealed the stage-specific expression stability. Hence when normalization using these mRNA genes, the differential and stage-related expression should be considered. 18S rRNA gene, on the other hand, showed the most stable expression and could be recommended as a suitable reference gene during all embryonic developmental stages in P. olivaceus. In summary, our results provided not only the appropriate reference gene for embryonic development research in P. olivaceus, but also possible guidance to reference gene selection for embryonic gene expression analyses in other fish species.

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References

  • Al-Bader MD, Al-Sarraf HA (2005) Housekeeping gene expression during fetal brain development in the rat-validation by semi-quantitative RT-PCR. Brain Res Dev Brain Res 156:38–45

    PubMed  Google Scholar 

  • Bettegowda A, Patel OV, Ireland JJ, Smith GW (2006) Quantitative analysis of messenger RNA abundance for ribosomal protein L-15, cyclophilin-A, phosphoglycerokinase, beta-glucuronidase, glyceraldehyde 3-phosphate dehydrogenase, beta-actin, and histone H2A during bovine oocyte maturation and early embryogenesis in vitro. Mol Reprod Dev 73:267–278

    Article  PubMed  CAS  Google Scholar 

  • Chen YD, Zhang YB, Zhu R, Zhang FT, Jiang J, Shi Y, Zhang QY, Chen SL, Gui JF (2005) Inductive expression and characterization analysis of Paralichthys olivaceus pigment epithelium-derived factor in a virally infected cell line. Biochem Biophys Res Commun 335:799–809

    Article  PubMed  CAS  Google Scholar 

  • de Kok JB, Roelofs RW, Giesendorf BA, Pennings JL, Waas ET, Feuth T, Swinkels DW, Span PN (2005) Normalization of gene expression measurements in tumor tissues: comparison of 13 endogenous control genes. Lab Invest 85:154–159

    PubMed  Google Scholar 

  • Dheda K, Huggett JF, Bustin SA, Johnson MA, Rook G, Zumla A (2004) Validation of housekeeping genes for normalizing RNA expression in real-time PCR. Biotechniques 37:112–119

    PubMed  CAS  Google Scholar 

  • Drasdo D, Forgacs G (2000) Modeling the interplay of generic and genetic mechanisms in cleavage, blastulation, and gastrulation. Dev Dyn 219:182–191

    Article  PubMed  CAS  Google Scholar 

  • Glare EM, Divjak M, Bailey MJ, Walters EH (2002) beta-Actin and GAPDH housekeeping gene expression in asthmatic airways is variable and not suitable for normalising mRNA levels. Thorax 57:765–770

    Article  PubMed  CAS  Google Scholar 

  • Goidin D, Mamessier A, Staquet MJ, Schmitt D, Berthier-Vergnes O (2001) Ribosomal 18S RNA prevails over glyceraldehyde-3-phosphate dehydrogenase and beta-actin genes as internal standard for quantitative comparison of mRNA levels in invasive and noninvasive human melanoma cell subpopulations. Anal Biochem 295:17–21

    Article  PubMed  CAS  Google Scholar 

  • Goossens K, Van Poucke M, Van Soom A, Vandesompele J, Van Zeveren A, Peelman LJ (2005) Selection of reference genes for quantitative real-time PCR in bovine preimplantation embryos. BMC Dev Biol 5:27

    Article  PubMed  Google Scholar 

  • Huggett J, Dheda K, Bustin S, Zumla A (2005) Real-time RT-PCR normalisation; strategies and considerations. Genes Immun 6:279–284

    Article  PubMed  CAS  Google Scholar 

  • Ingerslev HC, Pettersen EF, Jakobsen RA, Petersen CB, Wergeland HI (2006) Expression profiling and validation of reference gene candidates in immune relevant tissues and cells from Atlantic salmon (Salmo salar L). Mol Immunol 43:1194–1201

    Article  PubMed  CAS  Google Scholar 

  • Jeong YJ, Choi HW, Shin HS, Cui XS, Kim NH, Gerton GL, Jun JH (2005) Optimization of real time RT-PCR methods for the analysis of gene expression in mouse eggs and preimplantation embryos. Mol Reprod Dev 71:284–289

    Article  PubMed  CAS  Google Scholar 

  • Jorgensen SM, Kleveland EJ, Grimholt U, Gjoen T (2006) Validation of reference genes for real-time polymerase chain reaction studies in Atlantic salmon. Mar Biotechnol 8:398–408

    Article  PubMed  CAS  Google Scholar 

  • Kane DA, Kimmel CB (1993) The zebrafish midblastula transition. Development 119:447–456

    PubMed  CAS  Google Scholar 

  • Krieg PA, Varnum SM, Wormington WM, Melton DA (1989) The mRNA encoding elongation factor 1-alpha (EF-1 alpha) is a major transcript at the midblastula transition in Xenopus. Dev Biol 133:93–100

    Article  PubMed  CAS  Google Scholar 

  • Livak KJ, Schmittgen TD (2001) Analysis of relative gene expression data using real-time quantitative PCR and the 2−ΔΔCt method. Methods 25:402–408

    Article  PubMed  CAS  Google Scholar 

  • Olsvik PA, Lie KK, Jordal AE, Nilsen TO, Hordvik I (2005) Evaluation of potential reference genes in real-time RT-PCR studies of Atlantic salmon. BMC Mol Biol 6:21

    Article  PubMed  Google Scholar 

  • Pelegri F (2003) Maternal factors in zebrafish development. Dev Dyn 228:535–554

    Article  PubMed  CAS  Google Scholar 

  • Pierandrei-Amaldi P, Campioni N, Beccari E, Bozzoni I, Amaldi F (1982) Expression of ribosomal-protein genes in Xenopus laevis development. Cell 30:163–171

    Article  PubMed  CAS  Google Scholar 

  • Raaijmakers MH, van Emst L, de Witte T, Mensink E, Raymakers RA (2002) Quantitative assessment of gene expression in highly purified hematopoietic cells using real-time reverse transcriptase polymerase chain reaction. Exp Hematol 30:481–487

    Article  PubMed  CAS  Google Scholar 

  • Radonic A, Thulke S, Mackay IM, Landt O, Siegert W, Nitsche A (2004) Guideline to reference gene selection for quantitative real-time PCR. Biochem Biophys Res Commun 313:856–862

    Article  PubMed  CAS  Google Scholar 

  • Schmittgen TD, Zakrajsek BA (2000) Effect of experimental treatment on housekeeping gene expression: validation by real-time, quantitative RT-PCR. J Biochem Biophys Methods 46:69–81

    Article  PubMed  CAS  Google Scholar 

  • Sindelka R, Ferjentsik Z, Jonak J (2006) Developmental expression profiles of Xenopus laevis reference genes. Dev Dyn 235:754–758

    Article  PubMed  CAS  Google Scholar 

  • Solanas M, Moral R, Escrich E (2001) Unsuitability of using ribosomal RNA as loading control for Northern blot analyses related to the imbalance between messenger and ribosomal RNA content in rat mammary tumors. Anal Biochem 288:99–102

    Article  PubMed  CAS  Google Scholar 

  • Suzuki T, Higgins PJ, Crawford DR (2000) Control selection for RNA quantitation. Biotechniques 29:332–337

    PubMed  CAS  Google Scholar 

  • Takano T, Kondo H, Hirono I, Endo M, Saito-Taki T, Aoki T (2007) Molecular cloning and characterization of Toll-like receptor 9 in Japanese flounder, Paralichthys olivaceus. Mol Immunol 44:1845–1853

    Article  PubMed  CAS  Google Scholar 

  • Tang R, Dodd A, Lai D, McNabb WC, Love DR (2007) Validation of zebrafish (Danio rerio) reference genes for quantitative real-time RT-PCR normalization. Acta Biochim Biophys Sin (Shanghai) 39:384–390

    Article  CAS  Google Scholar 

  • Thellin O, Zorzi W, Lakaye B, De Borman B, Coumans B, Hennen G, Grisar T, Igout A, Heinen E (1999) Housekeeping genes as internal standards: use and limits. J Biotechnol 75:291–295

    Article  PubMed  CAS  Google Scholar 

  • Vandesompele J, De Preter K, Pattyn F, Poppe B, Van Roy N, De Paepe A, Speleman F (2002) Accurate normalization of real-time quantitative RT-PCR data by geometric averaging of multiple internal control genes. Genome Biol 3:RESEARCH0034

    Google Scholar 

  • Zhang Y, Tan X, Zhang PJ, Xu Y (2006) Characterization of muscle-regulatory gene, MyoD, from flounder (Paralichthys olivaceus) and analysis of its expression patterns during embryogenesis. Mar Biotechnol 8:139–148

    Article  PubMed  CAS  Google Scholar 

  • Zhang Z, Hu J (2007) Development and validation of endogenous reference genes for expression profiling of medaka (Oryzias latipes) exposed to endocrine disrupting chemicals by quantitative real-time RT-PCR. Toxicol Sci 95:356–368

    Article  PubMed  CAS  Google Scholar 

Download references

Acknowledgments

We thank Dr. Yuanmin Wu, from Funglyn BioTech Co., Ltd., for technical assistance. This work was supported by grants from the National High Technology Research and Development Program of China (No. 2006AA10A404) and the National Natural Science Foundation of China (No. 30671624).

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Correspondence to Quanqi Zhang.

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Zhong, Q., Zhang, Q., Wang, Z. et al. Expression Profiling and Validation of Potential Reference Genes During Paralichthys olivaceus Embryogenesis. Mar Biotechnol 10, 310–318 (2008). https://doi.org/10.1007/s10126-007-9064-7

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  • DOI: https://doi.org/10.1007/s10126-007-9064-7

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