Differential Expression of the Mouse Mitochondrial Genes and the Mitochondrial RNA-Processing Endoribonuclease RNA by Androgens

Gail A. Cornwall,

Marie-Claire

Orgebin-Crist,

and

Stephen

Center for Reproductive Biology Research (G.A.C., M.-C.O.-C.) Department of Cell Bioloav (G.A.C., M.-C.O.-C., S.R.H.) Vanderbilt University Sch.O), 50 rni sodium phosphate buffer, pH 6.6, 0.1% SDS, 0.1% sodium pyrophosphate, 5x Denhardt’s solution, 50 mg/ml salmon sperm DNA, and 5% dextran sulfate. The filters were then washed in 2x SSC, 0.1% SDS at 42 C, followed by washes in 0.1 x SSC, 0.1% SDS at 42 C and 65 C. Clones representing putative androgen-regulated cDNAs were then selected and subjected to two additional rounds of subtraction with a subtracted cDNA probe to remove any false-positive clones. Using the standard Stratagene protocol, the cloned inserts were in viva excised, and the resulting phagemid was plated out with E. co/i to prepare double-stranded DNA for subsequent sequencing and expression analysis. Northern

Blot Analysis

RNA was separated on a 1% agarose gel containing borate buffer, pH 8.2, and 0.66 M formaldehyde. The RNA samples were heated at 95 C for 2 min and then loaded onto the gel and electrophoresed. To verify equal loading of RNA in each lane of the gel, the gels were stained with ethidium bromide. The gels were washed extensively in water to remove formaldehyde before transferring to a nylon membrane (Nytran, Schleicher and Schuell, Keene, NH) overnight in the presence of 1 Ox SSC. The blots were then washed for 5 min in 5x SSC before UV cross-linking the RNA to the blot (Stratalinker, Stratagene). The blots were prehybridized for 2 h at 42 C in hybridization buffer containing 50% formamide, 5x SSC, 0.2 mg/ml salmoti sperm DNA, 0.4 mg/ml yeast RNA, 50 pg/ml

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BSA, 0.1% SDS, and 12.5 mM sodium phosphate buffer, pH 6.6, followed by hybridization overnight at 42 C in the presence of 3 x lo5 cpm probe/ml hybridization buffer. cDNA probes were prepared using a random primer labeling method (PrimeIt, Stratagene) modified from that described by Feinberg and Vogelstein (39). After hybridization, the blots were washed in 2x SSC at room temperature for 10 min followed by washing in 2x SSC, 1% SDS at 42 C for 30-60 min and then at 65 C before exposure to film. To again verify equal amounts and transfer of RNA in each lane of the blot, the cDNA probe was removed from the blot by two washes at 55 C in 0.1 x SSC, 1% SDS that had been brought to boiling before being added to the blots and then rehybridized under the same conditions described above with a cDNA probe to 18s rRNA. A synthetic oligonucleotide complementary to the RNAase MRP RNA was commercially prepared by Bio-Synthesis Inc. (Denton, TX). The 44-mer, 5’-GACGGATGACGCCCCGCTGCACGCCGCTCAGCTCGCCCCGGAGG-3’ was complementary to nucleotides 159-202 of the mouse RNAase MRP RNA (11). The oligomer was end-labeled following a protocol from Pharmacia (Piscataway, NJ) which uses [y-3ZP]ATP and T4 kinase. Hybridization of Northern blots was carried out at 42 C in the same hybridization buffer described above but containing 40% formamide. The blots were then washed in 1 X SSC at 50 C for 30 min.

DNA Slot Blot Analysis One microgram of DNA was added to 400 ~1 Tris/EDTA buffer containing 3 M NaOH. The DNA solution was then heated at 65 C for 1 h, after which the solution was neutralized by the addition of 2 M ammonium acetate. The DNA was then loaded onto nylon membrane (Nytran) using the Schleicher and Schuell slot blot apparatus. The DNA was then UV crosslinked to the membrane and prehybridized for 2 h in the hybridization buffer described above for Northern blot analysis. Hybridization with a random-primed cDNA probe to the mitochondrial genes D-loop-cytochrome b-NADH dehydrogenase 5 was then carried out as described for Northern blot analysis. To confirm equal loading of the DNA, the blot was reprobed with an epididymal-specific cDNA (cs 82) isolated during other screenings of the library. Sequence

Analysis

Double-stranded sequence analysis was performed using [35S] ATP and the Sequenase II sequencing kit (US. Biochemical Co., Cleveland, OH), which uses the Sanger (40) method of dideoxy chain termination.

Acknowledgments The authors wish technical assistance

to gratefully of Suzanne

acknowledge the excellent Justis and Elizabeth Wolf.

Received February 14, 1992. Revision received April 15, 1992. Accepted April 28, 1992. Address requests for reprints to: Dr. Stephen R. Hann, C2310 MCN, Department of Cell Biology, Vanderbilt University School of Medicine, Nashville, Tennessee 37232. This work was supported by NIH Grant HD-03820 (to M.CO.-C), the Life and Health Insurance Research Fund (to S.R.H.), a grant from the Andrew W. Mellon Foundation (to M.-CO.-C.), and National Research Service Award HD-07376 (to G.A.C.).

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Differential expression of the mouse mitochondrial genes and the mitochondrial RNA-processing endoribonuclease RNA by androgens.

Using subtractive hybridization to identify genes that are androgen regulated in the mouse epididymis, a number of cDNAs were identified that represen...
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