Determination of an Effective Housekeeping Gene for the Quantification of mRNA for Forensic Applications *

Abstract:  The potential application of mRNA for the identification of biological fluids using molecular techniques has been a recent development in forensic serology. Constitutively expressed housekeeping genes can assess the amount of mRNA recovered from a sample, establish its suitability for downstream applications, and provide a reference point to corroborate the identity of the fluid. qPCR was utilized to compare the expression levels of housekeeping genes from forensic‐like body fluid stains to establish the most appropriate assessment of human mRNA quantity prior to profiling. Although variability was observed between fluids and individuals, results indicated that beta‐2 microglobulin exhibited the highest expression for all body fluids examined and across donors. A one‐way analysis of variance was performed for housekeeping gene variability between donors (at the α, 0.05, significance level), and the results indicated significant differences for semen, vaginal secretions, and menstrual blood.

[1]  Jure Acimovic,et al.  Determination of reference genes for circadian studies in different tissues and mouse strains , 2010, BMC Molecular Biology.

[2]  M. Gerstein,et al.  Comprehensive analysis of the pseudogenes of glycolytic enzymes in vertebrates: the anomalously high number of GAPDH pseudogenes highlights a recent burst of retrotrans-positional activity , 2009, BMC Genomics.

[3]  W Bär,et al.  mRNA profiling for body fluid identification by reverse transcription endpoint PCR and realtime PCR. , 2009, Forensic science international. Genetics.

[4]  I. Maia,et al.  Identification of suitable internal control genes for expression studies in Coffea arabica under different experimental conditions , 2009, BMC Molecular Biology.

[5]  R. Rabin,et al.  Systematic method for determining an ideal housekeeping gene for real-time PCR analysis. , 2008, Journal of biomolecular techniques : JBT.

[6]  T. Nikawa,et al.  Effects of dimethyl sulfoxide and dexamethasone on mRNA expression of housekeeping genes in cultures of C2C12 myotubes. , 2008, Biochemical and biophysical research communications.

[7]  M. Bauer,et al.  Identification of menstrual blood by real time RT-PCR: technical improvements and the practical value of negative test results. , 2008, Forensic science international.

[8]  S. Lutz-Bonengel,et al.  Real-time PCR detection of five different "endogenous control gene" transcripts in forensic autopsy material. , 2007, Forensic science international. Genetics.

[9]  N. Bache,et al.  Proteomic analysis of day–night variations in protein levels in the rat pineal gland , 2007, Proteomics.

[10]  G Jan,et al.  GAPDH, a novel regulator of the pro-apoptotic mitochondrial membrane permeabilization , 2007, Oncogene.

[11]  M. Bauer,et al.  RNA in forensic science. , 2007, Forensic science international. Genetics.

[12]  R. S. Simpson,et al.  Comparison of reference genes for quantitative real-time polymerase chain reaction analysis of gene expression in sugarcane , 2007, Plant Molecular Biology Reporter.

[13]  S. Thein,et al.  Selection of housekeeping genes for gene expression studies in human reticulocytes using real-time PCR , 2006, BMC Molecular Biology.

[14]  E. Gharehbaghi-Schnell,et al.  Messenger RNA profiling: a novel method for body fluid identification by real-time PCR. , 2006, Forensic science international.

[15]  Ping Wang,et al.  The cyclophilins , 2005, Genome Biology.

[16]  R. Barber,et al.  GAPDH as a housekeeping gene: analysis of GAPDH mRNA expression in a panel of 72 human tissues. , 2005, Physiological genomics.

[17]  M. Sirover New nuclear functions of the glycolytic protein, glyceraldehyde‐3‐phosphate dehydrogenase, in mammalian cells , 2005, Journal of cellular biochemistry.

[18]  F. Bonhomme,et al.  Concerted evolution in the GAPDH family of retrotransposed pseudogenes , 1993, Mammalian Genome.

[19]  Mark Gerstein,et al.  Millions of years of evolution preserved: a comprehensive catalog of the processed pseudogenes in the human genome. , 2003, Genome research.

[20]  J. Ballantyne,et al.  Messenger RNA profiling: a prototype method to supplant conventional methods for body fluid identification. , 2003, Forensic science international.

[21]  E. Walters,et al.  β-Actin and GAPDH housekeeping gene expression in asthmatic airways is variable and not suitable for normalising mRNA levels , 2002, Thorax.

[22]  A. Monks,et al.  Increased expression of beta 2-microglobulin in multidrug-resistant tumour cells , 2002, British Journal of Cancer.

[23]  K. Kreuzer,et al.  Quantitative analysis of beta-actin, beta-2-microglobulin and porphobilinogen deaminase mRNA and their comparison as control transcripts for RT-PCR. , 2002, Molecular and cellular probes.

[24]  S. Lightfoot,et al.  Quantitation comparison of total RNA using the Agilent , 2002 .

[25]  F. Speleman,et al.  Accurate normalization of real-time quantitative RT-PCR data by geometric averaging of multiple internal control genes , 2002, Genome Biology.

[26]  S. Bustin Absolute quantification of mRNA using real-time reverse transcription polymerase chain reaction assays. , 2000, Journal of molecular endocrinology.

[27]  P. J. Higgins,et al.  Control selection for RNA quantitation. , 2000, BioTechniques.

[28]  Z Chen,et al.  A reliability test of standard-based quantitative PCR: exogenous vs endogenous standards. , 2000, Molecular and cellular probes.

[29]  M. Bauer,et al.  Detection of epithelial cells in dried blood stains by reverse transcriptase-polymerase chain reaction. , 1999, Journal of forensic sciences.

[30]  P. Heinrich,et al.  Regulation of beta2-microglobulin expression in different human cell lines by proinflammatory cytokines. , 1999, Nephrology, dialysis, transplantation : official publication of the European Dialysis and Transplant Association - European Renal Association.

[31]  P. Desjardins,et al.  Increased expression of glyceraldehyde-3-phosphate dehydrogenase in cultured astrocytes following exposure to manganese , 1999, Neurochemistry International.

[32]  M. Fabiano,et al.  Nucleic Acid (DNA, RNA) Quantification and RNA/DNA Ratio Determination in Marine Sediments: Comparison of Spectrophotometric, Fluorometric, and HighPerformance Liquid Chromatography Methods and Estimation of Detrital DNA , 1998, Applied and Environmental Microbiology.

[33]  J. Dunlap,et al.  Glyceraldehyde-3-phosphate Dehydrogenase Is Regulated on a Daily Basis by the Circadian Clock* , 1998, The Journal of Biological Chemistry.

[34]  J. Krueger,et al.  Diurnal variations of interleukin-1β mRNA and β-actin mRNA in rat brain , 1997, Journal of Neuroimmunology.

[35]  L. Kerkhof Quantification of total RNA by ethidium bromide fluorescence may not accurately reflect the RNA mass. , 1997, Journal of biochemical and biophysical methods.

[36]  M. Prentki,et al.  Induction by Glucose of Genes Coding for Glycolytic Enzymes in a Pancreatic β-Cell Line (INS-1)* , 1997, The Journal of Biological Chemistry.

[37]  J. Krueger,et al.  Diurnal variations of interleukin-1 beta mRNA and beta-actin mRNA in rat brain. , 1997, Journal of neuroimmunology.

[38]  T. Ishikawa,et al.  Fluorometric determination of total mRNA with oligo(dT) immobilized on microtiter plates. , 1996, Clinical chemistry.

[39]  I. Wool,et al.  Structure and evolution of mammalian ribosomal proteins. , 1995, Biochemistry and cell biology = Biochimie et biologie cellulaire.

[40]  T. Nyholm,et al.  Reduced beta 2-microglobulin mRNA levels in transgenic mice expressing a designed hammerhead ribozyme. , 1994, Nucleic acids research.

[41]  D. Drummond,et al.  Molecular genetics of actin function. , 1993, The Biochemical journal.

[42]  D. Poujol,et al.  Glyceraldehyde-3-phosphate dehydrogenase (GAPDH, E.C. 1.2.1.12.) gene expression in two malignant human mammary epithelial cell lines: BT-20 and MCF-7. Regulation of gene expression by 1,25-dihydroxyvitamin D3 (1,25-(OH)2D3). , 1992, Cancer letters.

[43]  L. Ercolani,et al.  Multiple insulin-responsive elements regulate transcription of the GAPDH gene. , 1992, Advances in enzyme regulation.

[44]  F. Momburg,et al.  Selective loss of beta 2-microglobulin mRNA in human colon carcinoma , 1989, The Journal of experimental medicine.

[45]  S. Araki,et al.  Circadian rhythms in the urinary excretion of heavy metals and organic substances in metal workers in relation to renal excretory mechanism: profile analysis , 1988, International archives of occupational and environmental health.

[46]  I. Ginjaar,et al.  The human beta 2-microglobulin gene. Primary structure and definition of the transcriptional unit. , 1987, Journal of immunology.

[47]  A. Yoshida,et al.  Structure and function of normal and variant human phosphoglycerate kinase. , 1980, Hemoglobin.

[48]  A. Fenselau Structure-function studies on glyceraldehyde-3-phosphate dehydrogenase. 3. Dependency of proteolysis on NAD+ concentration. , 1970, Biochemical and biophysical research communications.

[49]  A. Fenselau,et al.  Structure-function studies on glyceraldehyde-3-phosphate dehydrogenase. II. The effects of S-carboxymethylation on enzymatic activity. , 1970, Biochimica et biophysica acta.