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DOI 10.1002/jnr.10173
Molecular Neurobiology Branch, National Institute on Drug Abuse, NIH, Baltimore, Maryland
Molecular Neuropsychiatry Section, National Institute on Drug Abuse, NIH, Baltimore, Maryland
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Department of Psychiatry, Mount Sinai School of Medicine, New York, New York
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the fact that real allele ratio in genomic DNA in all heterozygous
individuals is the same and equals 1.0 (one copy of allele C per one
copy of allele T). Since the sequences amplified from mRNA and
genomic DNA are identical, equal expression of alleles C and T
implies equal 216:327-bp bands ratios for mRNA and for genomic
DNA. Note, however, that relative intensity of 216-bp band in mRNA
is slightly lower than in genomic DNA, indicating lower expression of
the C allele. The T/T and C/C genotypes are shown on the figure
to facilitate allele identification in the C/T genotype.
5HT2AR (5-CCCTGGATCCCTATGGATCGACC-3).
Primers for -actin mRNA were: BA3 (5-GAAACTACCTTCAACTCC-3) and BA7 (5-CCTGTAACAATGCATCTC 3; radioactive assay) or: BA1 (5-ATGAAACTACC
TTCAACTCC-3) and BAR (5-ATCCTGTAACAATGCATCTC-3; nonradioactive assay). The RT-PCR products
were verified by sequencing. The PCR reaction (20 l) contained 0.08 g of cDNA and a mixture of primers for 5-HT2A
and -actin mRNAs. In the radioactive assay primers for PCR
were 5-end-labeled with [32]P. The conditions for PCR were:
eight cycles consisting of 94C for 30 seconds, 68C for
1 minute, and 72C for 50 seconds followed by 21 cycles
consisting of 94C for 30 seconds, 52C for 1 minute, and 72C
for 50 seconds. After separation by electrophoresis in 6% PAAG,
DNA fragments were quantified by incorporated radioactivity as
described previously (Hernandez and Sokolov, 2000) or by
SYBR Green staining (Fig. 3). Linearity and accuracy of RTPCR assay was established by withdrawal aliquots from PCR
reaction after consecutive cycles (Fig. 3). Measured ratio of
5-HT2AR to -actin mRNA was constant between 24 and 30
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heterozygous (C/T) individuals. Differences between schizophrenics and controls were examined using t-test (two-tailed).
Gender differences were examined using analysis of covariance
(ANCOVA) with genotype as the covariate. The effects of PMI,
brain pH, and age were examined using Pearsons ProductMoment correlation analysis. The effect of withdrawal from
neuroleptic was examined using Pearsons Product-Moment
correlation analysis. The logarithmic model (5-HRTAR mRNA
vs. log(10) of continuous neuroleptic free interval) was used based on
previous observations in BA9 (Hernandez and Sokolov, 2000).
Only cases with well-documented neuroleptic free intervals prior
to death (n 26) were used for correlation analysis. Statistical
analyses were performed using SPSS Base 10.0 (SPSS Inc., Chicago, IL) and GB-Stat (Dynamic Microsystems, Inc., Silver Spring,
MD) statistical programs. Data are reported as mean S.E.M.
RESULTS
Normal Individuals
Improved Method for Measurements of Relative Expression of Two Alleles (Allele Ratios) in
Heterozygous Individuals. In each heterozygous individual, two alleles are expressed in the same cells and
thus experience identical biochemical and physical conditions. Therefore, paired comparisons of the two alleles in
the same individuals allow us to avoid effects of variations
in demographics, tissue sampling, overall RNA degradation, etc. Accordingly, a highly specific and accurate
method was developed here to compare relative expression of the C and T alleles in heterozygous (T/C)
individuals by measuring allele ratios. The most commonly used approach for quantifying allele ratios is the use
of PCR amplification followed by restriction endonuclease digestion that distinguishes the polymorphic site (Ohlsson and Ritzen, 1995). This approach is not trivial, because small differences in PCR amplification rate and the
variable presence of heteroduplexes in the PCR products
can skew interpretation of the results. A method that uses
addition of a radiolabelled PCR primer at the final cycle
was developed to circumvent the problem of heteroduplex
formation (Uejima et al., 2000). This approach does not
circumvent problems that may arise from small differences
in PCR amplification. We developed here a simple nonradioactive method, which allows us to circumvent the
problems of both the heteroduplex formation and of unequal PCR. The method employs normalizing measurements of allele ratio in mRNA with measurements of
allele ratio in genomic DNA. (Fig. 1, see Materials and
Methods for details). Real allele ratio in genomic DNA is
constant and equals 1.0 in all heterozygous individuals
providing a means for correcting errors in measurements
of allele ratios arising from heteroduplex formation, unequal amplification, etc. Reconstitution experiments demonstrated the linearity and accuracy of the method even
for small variations in allele ratio (Fig. 2).
The Relative Expression of the C and T
Alleles in Heterozygous (T/C) Normal Individuals.
Examining mRNA from 15 normal heterozygotes produced allele C to allele T ratio of 0.79 0.01, which
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Fig. 7. Correlation between levels of 5-HT2AR mRNA in schizophrenics and neuroleptic free intervals prior to death (r 0.67, n
23, P 0.001).
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