How are genes measured? Examples from studies on iron metabolism in pregnancy

Proceedings of the Nutrition Society

Volumn 63, Issue 3, 2004, Pages 481-490

  Andersen, Henriette S ^a   McArdle, Harry J ^a  

^a ROWETT RESEARCH INSTITUTE   (United Kingdom)

Author keywords

Multi Cu ferroxidase; Real time RT PCR; Short interfering RNA

Indexed keywords

ANEMIA; CONFERENCE PAPER; FETUS; GENE EXPRESSION; GENETIC ANALYSIS; GENETIC TRANSCRIPTION; HUMAN; HUMAN GENOME; HUMAN TISSUE; IRON METABOLISM; IRON TRANSPORT; MOTHER FETUS RELATIONSHIP; NORTHERN BLOTTING; NUTRIENT; PLACENTA; PREGNANCY; PREGNANCY COMPLICATION; PROTEIN EXPRESSION; REAL TIME POLYMERASE CHAIN REACTION; REVERSE TRANSCRIPTION POLYMERASE CHAIN REACTION; RNA INTERFERENCE; SYSTEMATIC REVIEW; WESTERN BLOTTING;

ANEMIA, IRON-DEFICIENCY; BLOTTING, NORTHERN; BLOTTING, WESTERN; COPPER; EMBRYONIC AND FETAL DEVELOPMENT; FEMALE; HUMANS; IRON; MATERNAL-FETAL EXCHANGE; OXIDOREDUCTASES; PLACENTA; PREGNANCY; PREGNANCY OUTCOME; REVERSE TRANSCRIPTASE POLYMERASE CHAIN REACTION; VARIATION (GENETICS);

EID: 4344632627     PISSN: 00296651     EISSN: None     Source Type: Journal    
DOI: 10.1079/PNS2004368     Document Type: Conference Paper

References (58)

1. Benson DA, Boguski MS, Lipman DJ, Ostell J, Ouellette BF, Rapp BA & Wheeler DL (1999) GenBank. Nucleic Acids Research 27, 38-43.
2. Bradford MM (1976) A rapid and sensitive method for the quantification of microgram quantities of protein utilizing the principle of protein-dye binding. Analytical Biochemistry 72, 248-254.
3. Brummelkamp TR, Bernards R & Agami R (2002) A system for stable expression of short interfering RNAs in mammalian cells. Science 296, 550-553.
4. Bustin SA (2000) Absolute quantification of mRNA using real-time reverse transcription polymerase chain reaction assays. Journal of Molecular Endocrinology 25, 169-193.
5. Caplen NJ, Parrish S, Imani F, Fire A & Morgan RA (2001) Specific inhibition of gene expression by small double-stranded RNAs in invertebrate and vertebrate systems. Proceedings of the National Academy of Sciences USA 98, 9742-9747.
6. Carlberg C (1999) Lipid soluble vitamins in gene regulation. Biofactors 10, 91-97.
7. Clarke SD & Abraham S (1992) Gene expression: nutrient control of pre- and posttranscriptional events. FASEB Journal 6, 3146-3152.
8. Clarke SD, Gasperikova D, Nelson C, Lapillonne A & Heird WC (2002) Fatty acid regulation of gene expression: a genomic explanation for the benefits of the mediterranean diet. Annals of New York Academy of Sciences 967, 283-298.
9. Claverie JM (1999) Computational methods for the identification of differential and coordinated gene expression. Human Molecular Genetics 8, 1821-1832.
10. Conklin BS, Zhong DS, Zhao W, Lin PH & Chen C (2002) Shear stress regulates occludin and VEGF expression in porcine arterial endothelial cells. Journal of Surgical Research 102, 13-21.
11. Danzeisen R, Fosset C, Page K, David S & McArdle HJ (2002) Placental ceruloplasmin homologue is regulated by iron and copper and is implicated in iron metabolism. American Journal of Physiology 282, C472-C478.
12. Danzeisen R, Ponnambalam SV & McArdle HJ (2000) The effect of ceruloplasmin on iron release from placental (BeWo) cells: evidence for an endogenous Cu oxidase. Placenta 21, 805-812.
13. Donovan A, Brownlie A, Zhou Y, Shepard J, Pratt SJ, Moynihan J, Paw BH, Drejer A, Barut B, Zapata A, Law TC, Brugnara C, Lux SE, Pinkus GS, Pinkus JL, Kingsley PD, Palis J, Fleming MD, Andrews NC & Zon LI (2000) Positional cloning of zebrafish ferroportinl identifies a conserved vertebrate iron exporter. Nature 403, 776-781.
14. Donze O & Picard D (2002) RNA interference in mammalian cells using siRNAs synthesized with T7 RNA polymerase. Nucleic Acids Research 30, 2-4.
15. Dykxhoorn DM, Novina CD & Sharp PA (2003) Killing the messenger: short RNAs that silence gene expression. Nature Reviews Molecular Cell Biology 4, 457-467.
16. Elbashir SM, Harborth J, Lendeckel W, Yalcin A, Weber K & Tuschl T (2001) Duplexes of 21-nucleotide RNAs mediate RNA interference in cultured mammalian cells. Nature 411, 494-498.
17. Elbashir SM, Harboth J, Weber K & Tuschl T (2002) Analysis of gene function in somatic mammalian cells using small interfering RNAs. Methods 26, 199-213.
18. Emmert-Buck MR, Bonner RF, Smith PD, Chuaqui RF, Zhuang Z, Goldstein SR, Weiss RA & Liotta LA (1996) Laser capture microdissection. Science 274, 998-1001.
19. Fire A, Xu S, Montgomery MK, Kostas SA, Driver SE & Mello CC (1998) Potent and specific genetic interference by double-stranded RNA in Caenorhabditis elegans. Nature 391, 806-811.
20. Fryer AA, Jones P, Strange R, Hume R & Bell JE (1993) Plasma protein levels in normal human fetuses: 13 to 41 weeks' gestation. British Journal of Obstetrics and Gynecology 100, 850-855.
21. Gambling L, Danzeisen R, Gair S, Lea RG, Charania Z, Solanky N, Joory KD, Srai SK & McArdle HJ (2001) Effect of iron deficiency on placental transfer of iron and expression of iron transport proteins in vivo and in vitro. Biochemical Journal 356, 883-889.
22. Gersten DM (1996) Gel Electrophoresis. Chichester, West Sussex: John Wiley & Sons Ltd.
23. Ginzinger DG (2002) Gene quantification using real-time quantitative PCR: an emerging technology hits the mainstream. Experimental Hematology 30, 503-512.
24. Hammond SM, Caudy AA & Hannon GJ (2001) Post-transcriptional gene silencing by double-stranded RNA. Nature Reviews Genetics 2, 110-119.
25. Hannon GJ (2002) RNA interference. Nature 418, 244-251.
26. Harborth J, Elbashir SM, Bechert K, Tuschl T & Weber K (2001) Identification of essential genes in cultured mammalian cells using small interfering RNAs. Journal of Cell Science 114, 4557-4565.
27. Harris ZL, Durley AP, Man TK & Gitlin JD (1999) Targeted gene disruption reveals an essential role for ceruloplasmin in cellular iron efflux. Proceedings of the National Academy of Sciences USA 96, 10812-10817.
28. Higuchi R, Fockler C, Dollinger G & Watson R (1993) Kinetic PCR analysis: real-time monitoring of DNA amplification reactions. Biotechnology 11, 1026-1030.
29. Hu A, Colella M, Tam JS, Rappaport R & Cheng SM (2003) Simultaneous detection, subgrouping, and quantitation of respiratory syncytial virus A and B by real-time PCR. Journal of Clinical Microbiology 41, 149-154.
30. Jennings EG & Young RA (1999) Genome expression on the World Wide Web. Trends in Genetics 15, 202-204.
31. Jones LJ, Haugland RP & Singer VL (2003) Development and characterization of the NanoOrange protein quantitation assay: a fluorescence-based assay of proteins in solution. Biotechniques 34, 850-854, 856, 858.
32. Kisielow M, Kleiner S, Nagasawa M, Faisal A & Nagamine Y (2002) Isoform-specific knockdown and expression of adaptor protein ShcA using small interfering RNA. Biochemical Journal 363, 1-5.
33. Lekanne Deprez RH, Fijnvandraat AC, Ruijter JM & Moorman AF (2002) Sensitivity and accuracy of quantitative real-time polymerase chain reaction using SYBR green 1 depends on cDNA synthesis conditions. Analytical Biochemistry 307, 63-69.
34. McArdle HJ, Danzeisen R, Fosset C & Gambling L (2003) The role of the placenta in iron transfer from mother to fetus and the relationship between iron status and fetal outcome. Biometals 16, 161-167.
35. McArdle HJ, Douglas AJ, Bowen BJ & Morgan EH (1985) The mechanism of iron uptake by the rat placenta. Journal of Cell Physiology 124, 446-450.
36. McArdle HJ, Douglas AJ & Morgan EH (1984) Transferrin binding by microvillar vesicles isolated from rat placenta. Placenta 5, 131-138.
37. McArdle HJ & Morgan EH (1982) Transferrin and iron movements in the rat conceptus during gestation. Journal of Reproduction and Fertility 66, 529-536.
38. McArdle HJ & Morgan EH (1984) The effect of monoclonal antibodies to the human transferrin receptor on transferrin and iron uptake by rat and rabbit reticulocytes. Journal of Biological Chemistry 259, 1398-1400.
39. McArdle HJ & Tysoe J (1988) Effect of nicotine on transferrin binding and iron uptake by cultured rat placenta. Journal of Cell Physiology 134, 509-513.
40. Mullis KB (1990) Target amplification for DNA analysis by the polymerase chain reaction. Annales de Biologie Clinique 48, 579-582.
41. Nadeau JH & Dunn PJ (1998) Genomic strategies for defining and dissecting development and physiological pathways. Current Opinion in Genetic Development 8, 311-315.
42. Quail EA & Yeoh GC (1995) The effect of iron status on glyceraldehyde 3-phosphate dehydrogenase expression in rat liver. FEBS Letters 13, 126-128.
43. Roeser HP, Lee GR, Nacht S & Cartwright GE (1970) The role of ceruloplasmin in iron metabolism. Journal of Clinical Investigation 49, 2408-2417.
44. Rottman JB (2002) The ribonuclease protection assay: a powerful tool for the veterinary pathologist. Veterinary Pathology 39, 2-9.
45. Saiki RK, Bugawan TL, Horn GT, Mullis KB & Erlich HA (1986) Analysis of enzymatically amplified beta-globin and HLA-DQ alpha DNA with allele-specific oligonucleotide probes. Nature 324, 163-166.
46. Saiki RK, Gelfand DH, Stoffel S, Scharf SJ, Higuchi R, Horn GT, Mullis KB & Erlich HA (1988) Primer-directed enzymatic amplification of DNA with a thermostable DNA polymerase. Science 239, 487-491.
47. Schmittgen TD & Zakrajsek BA (2000) Effect of experimental treatment on housekeeping gene expression: validation by real-time, quantitative RT-PCR. Journal of Biochemical and Biophysical Methods 46, 69-81.
48. Selvey S, Thompson EW, Matthaei K, Lea RA, Irving MG & Griffiths LR (2001) Beta-actin - an unsuitable internal control for RT-PCR. Molecular Cell Probes 15, 307-311.
49. Sorensen DR, Leirdal M & Sioud M (2003) Gene silencing by systemic delivery of synthetic siRNAs in adult mice. Journal of Molecular Biology 327, 761-766.
50. Templeton DM & Liu Y (2003) Genetic regulation of cell function in response to iron overload or chelation. Biochimica et Biophysica Acta 1619, 113-124.
51. Thomas PS (1980) Hybridisation of denatured RNA and small DNA fragments transferred to nitrocellulose. Proceedings of the National Academy of Sciences USA 77, 5201-5205.
52. Towbin H, Staehelin T & Gordon J (1979) Electrophoretic transfer of proteins from polyacrylamide gels to nitrocellulose sheets: procedure and some applications. Proceedings of the National Academy of Sciences USA 76, 4350-4354.
53. Tricarico C, Pinzani P, Bianchi S, Paglierani M, Distante V, Pazzagli M, Bustin SA & Orlando C (2002) Quantitative real-time reverse transcription polymerase chain reaction: normalization to rRNA or single housekeeping genes is inappropriate for human tissue biopsies. Analytical Biochemistry 309, 293-300.
54. Turchin A & Kohane IS (2002) Gene homology resources on the World Wide Web. Physiological Genomics 11, 165-177.
55. Vaucheret H, Beclin C & Fagard M (2001) Post-transcriptional gene silencing in plants. Journal of Cell Science 114, 3083-3091.
56. Vulpe CD, Kuo YM, Murphy TL, Cowley L, Askwith C, Libina N, Gitschier J & Anderson GJ (1999) Hephaestin, a ceruloplasmin homologue implicated in intestinal iron transport, is defective in the sla mouse. Nature Genetics 21, 195-199.
57. Walmsley ME & Patient RK (1994) Quantitative and qualitative analysis of exogenous gene expression by the S1 nuclease protection assay. Molecular Biotechnology 3, 265-275.
58. Wittwer CT, Herrmann MG, Gundry CN & Elenitoba-Johnson KSJ (2001) Real-time multiplex PCR assays. Methods 25, 430-442.