Mammalian Soluble adenylyl cyclase (sAC, Adcy10, or Sacy) represents a source of the second messenger cAMP distinct from the widely studied, G protein-regulated transmembrane adenylyl cyclases. Genetic deletion of the second through fourth coding exons in Sacytm1Lex/Sacytm1Lex knockout mice results in a male sterile phenotype. The absence of any major somatic phenotype is inconsistent with the variety of somatic functions identified for sAC using pharmacological inhibitors and RNA interference.
We now use immunological and molecular biological methods to demonstrate that somatic tissues express a previously unknown isoform of sAC, which utilizes a unique start site, and which ‘escapes’ the design of the Sacytm1Lex knockout allele.
Citation: Farrell J, Ramos L, Tresguerres M, Kamenetsky M, Levin LR, Buck J (2008) Somatic ‘Soluble’ Adenylyl Cyclase Isoforms Are Unaffected in Sacytm1Lex/Sacytm1Lex ‘Knockout’ Mice. PLoS ONE 3(9): e3251. https://doi.org/10.1371/journal.pone.0003251
Editor: Simon Williams, Texas Tech University Health Sciences Center, United States of America
Received: February 11, 2008; Accepted: September 2, 2008; Published: September 22, 2008
Copyright: © 2008 Farrell et al. This is an open-access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited.
Funding: This work was supported by grants from the National Institutes of Health [NS55255 (LRL) and GM62328 (JB)], American Diabetes Association, and the Hirschl Weil-Caulier Trust (LRL). The funders had no role in study design, data collection and analysis, decision to publish, or preparation of the manuscript.
Competing interests: The authors have declared that no competing interests exist.
In mammals, the widely studied second messenger cAMP can be generated by two types of enzymes: G protein-regulated transmembrane adenylyl cyclases (tmACs) and bicarbonate-regulated soluble adenylyl cyclase (sAC). Nine distinct genes encode a family of tmAC isoforms which display differential tissue distribution and responsiveness to calcium. Each tmAC isoform is modulated by heterotrimeric G proteins in response to hormones and neurotransmitters (reviewed in ). In contrast, a single sAC gene  generates multiple isoforms by alternative splicing ,  whose activities are directly stimulated by bicarbonate and calcium ions –. A second sAC-related locus present in human, dog and other mammalian genomes, but not detected in mouse or rat genomes, appears to be a pseudogene .
The sAC protein was initially purified from rat testis cytosol, and two independent cDNAs, which were subsequently shown to represent alternatively spliced isoforms , were cloned from a rat testis cDNA library . These two transcripts were termed full-length (sACfl), encoding a 187 kD protein, and truncated (sACt), encoding a 53 kD protein (Fig. 1A). The protein originally purified corresponds to sACt. This isoform is highly active but of relatively low abundance. We required approximately 1000 rat testis to recover sufficient material to obtain sequence information , , and detecting sACt in testis cytosol from wild type mice by Western blotting required an initial enrichment step; i.e., immunoprecipitation with a different sAC-specific monoclonal antibody . The majority of immune reagents generated, protein biochemistry and kinetics, and the design of a knockout mouse have been based on the knowledge of the sACt and sACfl isoforms.
Boxes denote exons. C1 and C2 refer to the two catalytic domains. Red exons contain stop codons. (A) sACfl is encoded by all known coding exons (32), and sACt is generated by skipping exon 12. Yellow exons (2-4) are removed in the Sacytm1Lex allele. Arrows indicate approximate locations of epitopes for the indicated monoclonal antibodies (R40, R21, and R37). (B) Somatic sAC transcripts derive from a unique start site upstream of exon 5 and continue through at least exon 16 to an unknown stop.
Historically, ‘soluble’ adenylyl cyclase activity had only been detected in testis cytosol , . Initial Northern blot data confirmed that sAC message is abundant in testis , and that it is specifically enriched within the developing male germ cells . But more sensitive methods of mRNA detection, including RT-PCR  and multiple tissue expression arrays , revealed sAC mRNA to be universally expressed. For example, the NCBI Gene Expression Omnibus database chronicles sAC expression in a number of somatic tissues, including brain. Finally, the GNF gene expression Atlas and in situ analysis performed by the Allen Brain Institute identified sAC message throughout the nervous system including dorsal root ganglia, spinal cord, cerebellum, hypothalamus, and thalamus .
To examine sAC protein expression, we and others, have raised various polyclonal antisera and numerous monoclonal antibodies against sAC , , , , . These immune reagents predict sAC to also be expressed in a large number of cell lines ,  and a variety of somatic tissues , , – However, the sAC protein identified in cells and tissues tends to be associated with intracellular organelles , ,  or vesicles , implying that somatic sAC is not a soluble protein but could require detergent extraction.
Somatic functions for sAC are predicted by both genetic and pharmacologic experiments. The human sAC locus was implicated in familial absorptive hypercalciuria (AH) , a syndrome of calcium homeostasis defects in intestine, kidney and bone. Pharmacological methods taking advantage of sAC-selective versus tmAC-selective inhibitors have identified a role for sAC as a cellular sensor of pHi in epididymis  and kidney , a CO2/HCO3 sensor in airway cilia , a mediator of oxidative burst in response to tumor necrosis factor in human neutrophils , and a modulator of the Cystic Fibrosis Transmembrane Conductance Regulator (CFTR) in corneal endothelium  and in human airway epithelium . In certain isolated primary cells and cell lines, we have been able to use sAC-specific RNAi mediated knockdown to confirm results obtained with sAC- and tmAC-selective pharmacological inhibitors. Using these more stringent criteria, we have elucidated additional roles for sAC in neuronal responses to the guidance cue Netrin-1  and in cellular responses to the neurotrophin, Nerve Growth Factor (NGF) , .
These numerous putative somatic functions for sAC are inconsistent with the initial descriptions of a very specific germ cell phenotype in the existing sAC knockout (Sacytm1Lex/Sacytm1Lex) mouse , 29, 30. These mice were generated by homologous recombination with an exon trapping, IRES-lacZ expression cassette replacing the 2nd through 4th coding sequence exons present in both sACt and sACfl isoforms . In mice with the Sacytm1Lex locus, lacZ expression was only detected in testis, suggesting that at least the promoter and exon 1 are specific to male germ cells. More importantly, homozygous male knockout mice are sterile; their sperm are immotile, do not undergo capacitation, and are unable to fertilize an egg in vitro , . A more extensive phenotypic analysis revealed that female Sacytm1Lex/Sacytm1Lex mice display increased circulating cholesterol and triglyceride levels and both male and female homozygous knockout animals have slightly elevated heart rates [as deposited in the Mouse Genome Database ]. And even though knockout phenotypes are often muted or absent due to compensation, such subtle somatic phenotypes are unexpected considering the variety of physiological functions demonstrated or predicted for sAC. For example, even though we demonstrated that sAC is essential for Netrin-1 induced axonal outgrowth in commissural axons , Sacytm1Lex/Sacytm1Lex mice do not exhibit the pronounced structural brain defects ,  seen in Netrin-1 knockout animals .
Moe and co-workers cloned human sAC cDNAs from somatic cells whose open reading frames do not contain exons deleted in Sacytm1Lex/Sacytm1Lex mice . If such cDNAs represent the predominant species of sAC in mammalian somatic tissues, it would explain how the Sacytm1Lex knockout could exhibit exclusively a germ cell phenotype. Here we use immunological and molecular methods to confirm the existence of previously unknown somatic isoforms of sAC. These somatic sAC isoforms derive from a unique mRNA start site which “escapes” the design of the Sacytm1Lex mouse.
sAC-specific antibodies identify isoforms unaffected in Sacytm1Lex ‘knockout’
We used two sAC-specific monoclonal antibodies recognizing distinct, non-overlapping epitopes to examine the molecular nature of sAC proteins expressed in brain. R21 is a monoclonal antibody recognizing an epitope in coding sequence exon 5 (within amino acids 206–216) of sACfl while R37 is a monoclonal antibody recognizing an epitope in exon 11 (within amino acids 436–466) (Fig. 1). Due to compelling evidence for a function of sAC in neuronal signaling ,  and because we previously demonstrated we could recover sAC activity (i.e., it was inhibited by the sAC-specific inhibitor, KH7, and it was insensitive to the tmAC activator, forskolin) by R37 immunoaffinity purification from detergent extracts of rat brain , we first focused on the sAC proteins present in mouse brain. Western blots using R21 revealed a number of immunoreactive bands. Surprisingly, none of these putative sAC bands were altered in the Sacytm1Lex/Sacytm1Lex mice (Fig. 2A, first two lanes).
Immunoprecipitations (IP) using mAb R37 or IgG control antibody from detergent solubilized whole cell extracts (lysates) of brains (A,B) or kidney (C) from wild type or Sacytm1Lex/Sacytm1Lex mice were subjected to Western analysis using (A,C) biotinylated R21 mAb (R21B) or (B) biotinylated R37 mAb (R37B). White circles denote nonspecific bands detected with streptavidin (no primary antibody) alone. The smear at ∼50 kDa in the R37 IP from brain resolves to at least two bands when less of the IP is loaded for Western blotting (inset).
We also examined the sAC activity immunoprecipitated by R37 from wild type and Sacytm1Lex/Sacytm1Lex brains (Fig 3). We previously showed the adenylyl cyclase activity immunoaffinity purified from wild type mouse brains was insensitive to forskolin and inhibited by sAC-specific inhibitor . Preliminary analysis suggests that there is considerably less sAC adenylyl cyclase activity immunoprecipitated from a single wild type brain (77 pmol cAMP/ml) than from wild type testis (at least 254 pmol cAMP/ml) (Fig. 3A). This is not surprising considering sAC mRNA expression in testis is greater than in any somatic tissue, including brain , and because testis expresses the highly active, sACt isoform , . Equivalent amounts of adenylyl cyclase activity were immunoprecipitated from wild type or Sacytm1Lex/Sacytm1Lex brains (Fig. 3B), and the activity from Sacytm1Lex/Sacytm1Lex brains was confirmed to be sAC by its insensitivity to forskolin (no statistically significant difference in the presence or absence of 10 μM forskolin) and its sensitivity to the sAC-selective inhibitor, 4-hydroxyestradiol. The sAC-selective catechol estrogen, 4-hydroxyestradiol , , , was used to inhibit the immunoprecipitated activity from Sacytm1Lex/Sacytm1Lex brains because it is unaffected by the detergents used during immunoprecipitation. The immunoprecipitated activity from Sacytm1Lex/Sacytm1Lex brains was inhibited by approximately 50% in the presence of catechol estrogen (Table 1). These data suggested that the sAC protein(s) in brain was unaffected by the deletion of exons 2-4, and would therefore represent novel, previously uncharacterized isoforms.
(A) Adenylyl cyclase activity (in pmol cAMP formed per ml) in mouse IgG or R37 IP from detergent extracts from a single mouse brain or mouse testis from wild type mice. Activity from testis may be under-represented; we did not confirm antibody was in excess. MM is adenylyl cyclase reaction conditions alone (no IP added). Control IgG activity is derived from pooled brain and testis detergent extracts. Values represent averages of duplicate determinations. (B) Adenylyl cyclase activity in R37 IPs from wild type (WT) or Sacytm1Lex/Sacytm1Lex (KO) mice. MM is adenylyl cyclase reaction conditions alone (no IP added). Extracts were precleared through mouse IgG prior to immunoprecipitation. Values represent quadruplicate determinations from two wild type and two knockout brains with error bars indicating S.E.M.
To determine whether the immunoreactive bands were recognized by both antibodies, which would provide a compelling argument that they are bona fide sAC isoforms, we immunoprecipitated using R37 followed by Western blotting with R21 (biotinylated R21 was used for Western blotting to prevent detection of the immunoprecipitating R37 IgG). Western blotting the R37 immunoprecipitates reveals that at least two of the immunoreactive bands, at approximately 50 kDa, are recognized by both sAC-specific monoclonal antibodies (Fig. 2A,B). These two proteins are also diminished in the brain extracts following specific (R37) immunoprecipitation, but remain in brain extracts following immunoprecipitation with control (isotype-matched IgG) antibody. Thus, we have identified two proteins of approximately 50 kDa proteins, which are recognized by distinct sAC-specific monoclonal antibodies and are correlated with sAC-like adenylyl cyclase activity. Yet, both isoforms are unaffected in brains from Sacytm1Lex/Sacytm1Lex mice.
If these brain sAC isoforms were unaffected by removal of exons 2-4, they should not be recognized by antisera directed against this region. One of our monoclonal antibodies, R40, recognizes an epitope which spans exons 2 and 3 (Fig. 1A). Using R40, we were able to immunoprecipitate a 50 kDa protein from wild type mouse testis cytosol, which was absent in testis cytosol from Sacytm1Lex/Sacytm1Lex mice (Fig. 4, top). This 50 kDa isoform is presumably sACt. Not only was this isoform not detectable in brain, but this exon 2-3 directed monoclonal antibody did not immunoprecipitate any detectable sAC isoforms from wild type or Sacytm1Lex/Sacytm1Lex brains (Fig. 4, bottom). The testis cytosolic isoform, sACt, and one of the newly identified detergent extractable, brain isoforms run together at ∼50 kDa and are not easily distinguished on SDS/PAGE (compare Fig. 2 and 4). We believe this coincidence has contributed to previous confusion about the molecular identity of sAC isoforms identified by Western blotting.
Immunoprecipitations (IP) using mAb R40 or isotype-matched IgG control antibody from detergent solubilized whole cell extracts (lysates) of testis (top) or brain (bottom) from wild type or Sacytm1Lex/Sacytm1Lex mice were subjected to Western analysis using biotinylated R21 mAb. The sharp band at ∼50 kDa in the R40 IP from wild type testis is distinct from the faint, background bands found in Sacytm1Lex/Sacytm1Lex mice and in the control IgG IP.
We next asked whether the detergent extractable, 50 kDa isoforms present in brain could be found in other somatic tissues. In kidney, sAC has been proposed to form a complex with the vacuolar proton ATPase to regulate renal distal proton secretion . Western blots (using R21) of R37 immunoprecipitates from detergent extracts of wild type and Sacytm1Lex/Sacytm1Lex kidneys revealed a ∼50 kDa sAC isoform, which once again, was unaffected by removal of exons 2-4 (Fig. 2C). These data suggest that at least one of the two ∼50 kDa brain isoforms represents a widely distributed, somatic isoform of sAC.
sAC transcripts in brain use an alternate start site
We used the knowledge that brain sAC isoforms must contain the epitopes recognized by R21 (amino acids 206–216) and R37 (amino acids 436–466) to explore the nature of brain sAC cDNAs. Using primers specifically recognizing these sequences and 35 cycles of amplification, we detected a fragment in brain mRNA from wild-type mice; with forty rounds of amplification, we amplified fragments from both wild type and Sacytm1Lex/Sacytm1Lex brains (Fig. 5). In each case, nucleotide sequencing confirmed the amplified fragment contained a single product corresponding to the complete sequence (i.e., contained all known exons) between exons 5 and 11. The need for greater than 30 rounds of amplification to detect sAC message in somatic tissues is consistent with the recently published identification of sAC mRNAs in specific neuronal cell types . PCR amplification of the LacZ/Neo cassette confirmed the identity of Sacytm1Lex/Sacytm1Lex tissues, but it is unclear why knockout brains and testis appear to express equivalent LacZ/Neo message.
(A) PCR across exons 15-16. (B) PCR across exons 5-11. (C) PCR for β-actin loading control. (D) PCR for LacZ/Neo. (−) is a no template control. The number in the lower right corner of each panel is the number of cycles used in each experiment.
Consistent with the facts that R40 did not detect any sAC isoforms in brain and the isoforms we do detect in brain are unaffected by removal of exons 2-4, we were unable to amplify a product using exon 1, 2, 3, or 4 sense primers to exon 5 antisense primers from either wild type or knockout brain mRNA (Fig. 6 and data not shown). As control, the exon 1 sense and exon 5 antisense primers amplified the expected size product using testis mRNA from wild type and Sacytm1Lex/+ heterozygous mice (Fig. 6). These primers also amplified a smaller product (of 200 base pairs) from Sacytm1Lex/+ heterozygous and Sacytm1Lex/Sacytm1Lex homozygous knockout mice which nucleotide sequencing confirmed to be an in-frame, exon1:exon5 spliced product arising exclusively from the Sacytm1Lex allele. It is possible this uniquely spliced product in testis from knockout mice is responsible for the residual adenylyl cyclase activity identified in sperm from Sacytm1Lex/Sacytm1Lex mice . It is also possible this aberrant, testis-specific product diminishes splicing into the LacZ/Neo cassette, explaining why the level of LacZ/Neo message in testis is not much higher than the levels found in brain (Fig. 5).
(A) and (C) PCR across exons 1-5. (A) Testis first strand from WT (+/+), Sacytm1Lex/+ heterozygote (+/−), and Sacytm1Lex/Sacytm1Lex homozygous knockout (−/−) mice. (C) First strand cDNA from brain (B), heart (H), kidney (K), or liver (Li) from Sacytm1Lex/Sacytm1Lex homozygous knockout (−/−) mice; (−) indicates no template control. (B) and (D) β-actin controls. The number in the lower right corner of each panel is the number of cycles used in each experiment.
To test whether brain sAC mRNAs use an alternate start site, we performed 5′ Rapid Amplification of cDNA Ends (RACE) starting in exon 5. We obtained two 5′ RACE products, which extended beyond the intron/exon boundary of exon 5 into the sequence previously thought to be intron. The two fragments were contiguous; the larger fragment simply extended further (344 nucleotides) into the intron upstream of coding exon 5 (Fig. 7; GenBank Accession #EU478437). Neither fragment extended into sequences removed in the Sacytm1Lex locus, and these upstream sequences did not correspond to any of the alternatively spliced transcripts identified in human tissues . Thus, sAC mRNAs in mouse brain appear to utilize a unique start site, which would not be deleted in Sacytm1Lex/Sacytm1Lex mice (Fig. 1B).
Sequence in bold is the newly defined 5′UTR which corresponds to the region previously assigned to be the intron between Exons 4 and 5.
We had first concluded that sAC is widely distributed in mammals based upon an RT-PCR experiment using primers in exons 15 and 16 . Reed et al. reached a similar conclusion using an overlapping region as probe in a multiple tissue array blot ; therefore, exon 16 is likely included in somatic isoforms of sAC. Using a sense primer corresponding to the newly identified 5′ end and an antisense primer in exon 16, we amplified a single product, from both wild type and Sacytm1Lex/Sacytm1Lex mouse brain mRNA, which extended from the newly described start site through exons 5 to 16 (Fig. 1B). This cDNA was amplified in both wild type and Sacytm1Lex/Sacytm1Lex brains. While we still do not know the true 3′ end of brain sAC cDNAs, we expect them to be significantly shorter than sACfl because the encoded protein isoforms are only ∼50 kDa. Consistent with this, we were unable to amplify a product from the new start site to exon 32 (data not shown). This new mRNA start site, outside the region deleted in the Sacytm1Lex locus, predicts a previously unappreciated promoter used for expression of sAC in mouse brain. Because sAC proteins in mouse brain derive from this alternate promoter, downstream from the deleted exons and inserted IRES-lacZ cassette, one would not expect to find LacZ expression in brain nor a neuronal defect in Sacytm1Lex/Sacytm1Lex mice.
These findings reveal the sAC locus to be more complex than previously appreciated. The biochemically characterized sACt and sACfl isoforms may ultimately prove to be predominantly, if not exclusively, expressed in male germ cells, explaining the relatively specific male sterile phenotype of Sacytm1Lex/Sacytm1Lex mice , . In contrast, the presumptive promoter identified here, which directs expression of brain mRNAs initiating upstream of coding exon five, is likely to direct expression of sAC in many somatic tissues. Thus, the relatively subtle somatic phenotypes reported for Sacytm1Lex/Sacytm1Lex mice  may be due to altered expression of a somatic sAC isoform instead of loss of sACt or sACfl. Consistent with this hypothesis, we routinely required increased rounds of PCR amplification to detect sAC messages from Sacytm1Lex/Sacytm1Lex tissues (Fig. 5).
Somatic isoforms encoded by transcripts from this promoter will possess only the second (C2) of the two identified catalytic domains . Heterologous expression of C2-only containing isoforms has thus far failed to result in adenylyl cyclase activity , so how these isoforms produce cAMP remains an open question. By possessing only the C2 catalytic domain, somatic sAC isoforms will differ from the previously characterized, C1-C2 containing isoforms which may be exclusively expressed in male germ cells. Thus, it would be possible to design safe and effective contraceptive strategies by identifying inhibitors selective for C1-C2 containing sAC isoforms.
The evolutionary conservation of bicarbonate-mediated cAMP generation across many kingdoms , –, including from the earliest known forms of life, Cyanobacteria , , suggests that this signal transduction pathway should be fundamentally important in biology. For example, multiple physiological processes, in addition to sperm function, are modulated by CO2 and/or HCO3− (i.e., diuresis, breathing, blood flow, cerebrospinal fluid and aqueous humor formation) . In most cases, the effects of CO2/HCO3− have been ascribed to as yet undefined chemoreceptors –, but potential links to cAMP signaling, such as in carotid body , suggest additional, somatic roles for a bicarbonate regulated adenylyl cyclase, such as sAC. With our identification of novel isoforms of sAC in somatic tissues, such additional roles remain possible.
Materials and Methods
2–4 month old wild type or Sacytm1Lex/Sacytm1Lex mice  were euthanized with CO2, and brains, kidneys, or testis were immediately dissected, flash frozen in liquid N2 and stored at −80°C until processing. All animal work was performed with approval from the Institutional Animal Care and Use Committee of Weill Cornell Medical College (IACUC Protocol #0604-487A).
Immunoprecipitation from detergent extracts
Brains or kidneys were thawed and homogenized in detergent lysis buffer in the presence of protease inhibitors (50 mM Tris, 150 mM NaCl, 0.4 mM EDTA, 0.1 mM DTT, 1 M PMSF, 10 μg/ml aprotinin, 10 μg/ml leupeptin, 1% NP40) (1∶10 w/v). All steps were performed on ice (or at 4°C) unless specified. Homogenates were centrifuged at 45,000xg for 50 minutes. The protein concentration of the supernatant fraction was determined (BioRad) and an aliquot saved at 4°C for Western analysis (‘pre-IP lysate’). Equivalent protein amounts from different supernatants were precleared by incubation with protein G beads (Amersham Pharmacia) (100 μl beads/100 mg total protein) overnight at 4°C. Samples were centrifuged at full speed in an Eppendorf centrifuge for 10′, and the supernatant was collected into fresh tubes. Clarified lysates were incubated with specific anti-sAC antibodies (R37 or R40) or control, mouse IgG at a concentration of 20 μg antibody/mg protein for 4 h at 4°C. Immune complexes were collected on Protein G beads (50 μl/100 mg total protein) and incubated for 1 h. Beads were collected by centrifugation, and an aliquot of the supernatant was collected for Western analysis (post-IP supernatant). Beads were washed three or four times in detergent-free lysis buffer.
For Western analysis, beads were incubated in SDS/PAGE sample buffer (BioRad) containing 5% β-mercaptoethanol for 5′ at room temperature, briefly spun, and an aliquot used for SDS/PAGE. Proteins were transferred to PVDF membranes, which were blocked in 5% milk (BioRad) for 1 hour at room temperature, rinsed once with TBST and incubated with biotinylated mAbs, R21 or R37 (1∶500 in TBST) overnight at 4°C. Control blots to examine streptavidin binding proteins were incubated in TBST alone. Membranes were rinsed in TBST (4×15′) and incubated with a HRP-conjugated streptavidin (1∶5000 in TBST) for 1 hour at room temperature. Bands were visualized using enhanced chemiluminescence (Pierce Co.)
For activity assays, beads were incubated in 100 μl reaction buffer containing 200 mM Tris pH 7.5, 100 U/ml phosphocreatine kinase, 20 mM creatine kinase, 2.5 mM ATP, and 10 mM MgCl2 for 30 minutes at 30°C. Where indicated, reactions contained 10 μM forskolin or 100 μM 4-hydroyestradiol (Steraloids, Inc.) or equivalent volumes of vehicle. Reactions were terminated by adding reaction supernatant into 100 μl 0.2 M HCl, samples were neutralized according to manufacturers protocol and cAMP quantitated using Correlate-EIA Direct Assay (Assay Designs, Inc).
Antibody epitope mapping
sACt sequence was first divided into 11 fragments, and primers were designed to amplify all 11 fragments, with forward primer 5′CACC overhang for cloning into pENTR/D-TOPO entry vector (Gateway System, Invitrogen) followed by ATG, where necessary. The entry clone was subsequently recombined with pDEST15 vector to create 11 sAC sequence fragments with N terminal GST tag. The N terminal tag was necessary to monitor protein expression and to increase fragment size to facilitate analysis by SDS-PAGE. Clones were shuttled into BL21-AI cells, and expression induced by addition of final concentration of 0.2% L-arabinose (Sigma) for 3–4 hours. Pelleted bacteria was resuspended in Laemmli sample buffer, run on SDS-PAGE and immunoblotted with each monoclonal antibody of interest. To narrow down the antibody epitope, forward and reverse complimentary primers encoding 14–17 amino acid stretches were designed to cover each of the recognized fragments. Each large fragment was covered by 5 overlapping smaller fragments. Forward primers contained CACC overhangs and N terminal ATG for cloning into pENTR/D-TOPO vector. Complimentary oligomers were annealed by incubation in cooling water in the presence of buffer containing 50 mM NaCl, 10 mM Tris-HCl pH 8, 10 mM MgCl2, 1 mM DTT, cloned into the entry vector, and recombined to generate GST-fusion proteins. Proteins were expressed and epitopes were defined by Western blotting using each monoclonal antibody.
RNA production, and RT-PCR amplification of sAC products
Tissues harvested from wild type or Sacytm1Lex/Sacytm1Lex mice were immediately placed in Trizol and either stored at −80°C or processed for total RNA according to manufacturer's protocol. Total RNA was quantified spectrophotometrically, and at least 2 mg of total RNA was used to generate polyA+ RNA using the Micro Poly(A) Purist Kit according to manufacturer's protocol (Ambion). Purified polyA+ RNA was resuspended in DEPC-treated water and treated with amplification grade DNase I according to the manufacturer's protocol (Invitrogen). DNase-free polyA+ RNA was stored at a final concentration of approximately 100 ng/mL at −80°C until use.
Approximately 500 ng of polyA+ RNA was used to generate first strand cDNA using Invitrogen's Platinum Taq PCR kit according to manufacturer's instructions. Briefly, RNA was incubated with 50 mM oligo(dT)20, (or 10 mM gene specific primer), 10mM dNTP and DEPC-treated water in a volume of 10 μl for 5 minutes at 65°C. An equal volume of cDNA Synthesis Buffer was added, yielding final concentrations of 1× Reverse Transcriptase Buffer (Invitrogen), 10 mM DTT, 125 mM MgCl2, 40U RNaseOUT, 200U SuperScript III Reverse Trancriptase, and the reaction was incubated for 60 minutes at 50°C. The reaction was terminated by incubation at 85°C for 5 minutes, and placed on ice. 1μl of RNase H (2 U/ml) was added, and incubated at 37°C for 20 minutes. This first strand was stored as single use aliquots at −80°C until use.
Routinely, PCR reactions used a standard three step protocol using Platinum Taq (Invitrogen, Inc.) with an initial denaturation step at 93°C for 3 minutes, followed by 35 or 40 cycles of 93°C for 20 seconds, 60°C for 20 seconds, and 68°C for 1 minute, followed by a final step at 68°C for 10 minutes. In wild type somatic tissues, 35 cycles was sufficient to detect sAC amplified products, but Sacytm1Lex/Sacytm1Lex somatic tissues routinely required 40 rounds of amplification to detect fragments.
- Primers used to amplify from exons 1 to 5:
- Forward: LRL1127: 5′-ATGAGTGCGCGAAGGCAGGAAT-3′
- Reverse: LRL1511: 5′-CTGCTCTCTGATCTGGAATCCTC-3′
- Primers used in to amplify from new mRNA start site to exon 16:
- Forward: Up5: 5′-ACCCAGAATGTGTTGTGCAAAC-3′
- Reverse: LRL1519: 5′-CTTGTCCCGGATTTCCTGAGGCTG-3′
- Primers used in to amplify from exons 15 to 16:
- Forward: LRL1518: 5′-CAGAAGCAACTGGAAGCCCTG-3′
- Reverse: LRL1519: 5′-CTTGTCCCGGATTTCCTGAGGCTG-3′
- Primers used to amplify the βGal/Neo cassette:
- Forward: LRL 1276: 5′-GGAACTAACAGAGATCTATCTGC-3′
- Reverse: LRL 1277: 5′-GGATGGACCATCTAGAGACTGCCA-3′
- Primers used to amplify β-actin:
- Forward: BF: 5′-GGAGAAGATCTGGCACCACAC-3′
- Reverse: BR: 5′-GGTGACCCGTCTCCGGAGTCC-3′
- 5′ Rapid Amplification of cDNA Ends (5′RACE)
- 5′RACE was performed on 500 ng of polyA+ RNA from brains of sACytm1Lex/sACytm1Lex mice using 5′RACE Kit (Invitrogen) according to the manufacturer's protocol.
- 5′RACE Primers used from Exon 5:
- Ex5GSP1: 5′-CTGCTCTCTGATCTGGAATCCTC-3′
- Ex5GSP2: CAATTTCAATCATGCTCCGATCACAG
- Ex5GSP3: CAGCAGTTTGGTGACAAAATAACGTCG
We thank the members of the Levin-Buck laboratory and Dr. Samie Jaffrey for critical reading of the manuscript.
Conceived and designed the experiments: LSR LRL JB. Performed the experiments: JF LSR MT MK. Analyzed the data: JF LSR MT LRL JB. Contributed reagents/materials/analysis tools: MK. Wrote the paper: JF LRL JB.
- 1. Linder JU (2006) Class III adenylyl cyclases: molecular mechanisms of catalysis and regulation. Cell Mol Life Sci 63: 1736–1751.
- 2. Buck J, Sinclair ML, Schapal L, Cann MJ, Levin LR (1999) Cytosolic adenylyl cyclase defines a unique signaling molecule in mammals. Proc Natl Acad Sci U S A 96: 79–84.
- 3. Geng W, Wang Z, Zhang J, Reed BY, Pak CY, et al. (2005) Cloning and characterization of the human soluble adenylyl cyclase. Am J Physiol Cell Physiol 288: C1305–1316.
- 4. Jaiswal BS, Conti M (2001) Identification and functional analysis of splice variants of the germ cell soluble adenylyl cyclase. J Biol Chem 276: 31698–31708.
- 5. Chaloupka JA, Bullock SA, Iourgenko V, Levin LR, Buck J (2006) Autoinhibitory regulation of soluble adenylyl cyclase. Mol Reprod Dev 73: 361–368.
- 6. Chen Y, Cann MJ, Litvin TN, Iourgenko V, Sinclair ML, et al. (2000) Soluble adenylyl cyclase as an evolutionarily conserved bicarbonate sensor. Science 289: 625–628.
- 7. Jaiswal BS, Conti M (2003) Calcium regulation of the soluble adenylyl cyclase expressed in mammalian spermatozoa. Proc Natl Acad Sci U S A 100: 10676–10681.
- 8. Litvin TN, Kamenetsky M, Zarifyan A, Buck J, Levin LR (2003) Kinetic properties of “soluble” adenylyl cyclase. Synergism between calcium and bicarbonate. J Biol Chem 278: 15922–15926.
- 9. Farrell J (2007) The molecular identity of soluble adenylyl cyclase [PhD Thesis]. New York: Weill Cornell Medical College.
- 10. Buck J, Sinclair ML, Levin LR (2002) Purification of soluble adenylyl cyclase. Methods Enzymol 345: 95–105.
- 11. Hess KC, Jones BH, Marquez B, Chen Y, Ord TS, et al. (2005) The “soluble” adenylyl cyclase in sperm mediates multiple signaling events required for fertilization. Dev Cell 9: 249–259.
- 12. Braun T, Dods RF (1975) Development of a Mn-2+-sensitive, “soluble” adenylate cyclase in rat testis. Proc Natl Acad Sci U S A 72: 1097–1101.
- 13. Neer EJ (1978) Physical and functional properties of adenylate cyclase from mature rat testis. J Biol Chem 253: 5808–5812.
- 14. Sinclair ML, Wang XY, Mattia M, Conti M, Buck J, et al. (2000) Specific expression of soluble adenylyl cyclase in male germ cells. Mol Reprod Dev 56: 6–11.
- 15. Reed BY, Gitomer WL, Heller HJ, Hsu MC, Lemke M, et al. (2002) Identification and characterization of a gene with base substitutions associated with the absorptive hypercalciuria phenotype and low spinal bone density. J Clin Endocrinol Metab 87: 1476–1485.
- 16. Lein ES, Hawrylycz MJ, Ao N, Ayres M, Bensinger A, et al. (2007) Genome-wide atlas of gene expression in the adult mouse brain. Nature 445: 168–176.
- 17. Wang Y, Lam CS, Wu F, Wang W, Duan Y, et al. (2005) Regulation of CFTR channels by HCO(3)–sensitive soluble adenylyl cyclase in human airway epithelial cells. Am J Physiol Cell Physiol 289: C1145–1151.
- 18. Zippin JH, Chen Y, Nahirney P, Kamenetsky M, Wuttke MS, et al. (2003) Compartmentalization of bicarbonate-sensitive adenylyl cyclase in distinct signaling microdomains. Faseb J 17: 82–84.
- 19. Pastor-Soler N, Beaulieu V, Litvin TN, Da Silva N, Chen Y, et al. (2003) Bicarbonate-regulated adenylyl cyclase (sAC) is a sensor that regulates pH-dependent V-ATPase recycling. J Biol Chem 278: 49523–49529.
- 20. Paunescu TG, Da Silva N, Russo LM, McKee M, Lu HAJ, et al. (2007) Association of soluble adenylyl cyclase (sAC) with the V-ATPase in renal epithelial cells. Am J Physiol:Renal Physiol In Press..
- 21. Schmid A, Sutto Z, Nlend MC, Horvath G, Schmid N, et al. (2007) Soluble adenylyl cyclase is localized to cilia and contributes to ciliary beat frequency regulation via production of cAMP. J Gen Physiol 130: 99–109.
- 22. Sun XC, Zhai CB, Cui M, Chen Y, Levin LR, et al. (2003) HCO(3)(−)-dependent soluble adenylyl cyclase activates cystic fibrosis transmembrane conductance regulator in corneal endothelium. Am J Physiol Cell Physiol 284: C1114–1122.
- 23. Wu KY, Zippin JH, Huron DR, Kamenetsky M, Hengst U, et al. (2006) Soluble adenylyl cyclase is required for netrin-1 signaling in nerve growth cones. Nat Neurosci 9: 1257–1264.
- 24. Zippin JH, Farrell J, Huron D, Kamenetsky M, Hess KC, et al. (2004) Bicarbonate-responsive “soluble” adenylyl cyclase defines a nuclear cAMP microdomain. J Cell Biol 164: 527–534.
- 25. Xie F, Conti M (2004) Expression of the soluble adenylyl cyclase during rat spermatogenesis: evidence for cytoplasmic sites of cAMP production in germ cells. Dev Biol 265: 196–206.
- 26. Han H, Stessin A, Roberts J, Hess K, Gautam N, et al. (2005) Calcium-sensing soluble adenylyl cyclase mediates TNF signal transduction in human neutrophils. J Exp Med..
- 27. Stessin AM, Zippin JH, Kamenetsky M, Hess KC, Buck J, et al. (2006) Soluble adenylyl cyclase mediates nerve growth factor-induced activation of Rap1. J Biol Chem 281: 17253–17258.
- 28. Young JJ, Mehdi A, Stohl LL, Levin LR, Buck J, et al. (2008) “Soluble” adenylyl cyclase-generated cyclic adenosine monophosphate promotes fast migration in PC12 cells. J Neurosci Res 86: 118–124.
- 29. Esposito G, Jaiswal BS, Xie F, Krajnc-Franken MA, Robben TJ, et al. (2004) Mice deficient for soluble adenylyl cyclase are infertile because of a severe sperm-motility defect. Proc Natl Acad Sci U S A 101: 2993–2998.
- 30. Moore SW, Lai Wing Sun K, Xie F, Barker PA, Conti M, et al. (2008) Soluble adenylyl cyclase is not required for axon guidance to netrin-1. J Neurosci 28: 3920–3924.
- 31. Eppig JT, Bult CJ, Kadin JA, Richardson JE, Blake JA, et al. (2005) The Mouse Genome Database (MGD): from genes to mice–a community resource for mouse biology. Nucleic Acids Res 33: D471–475.
- 32. Serafini T, Colamarino SA, Leonardo ED, Wang H, Beddington R, et al. (1996) Netrin-1 is required for commissural axon guidance in the developing vertebrate nervous system. Cell 87: 1001–1014.
- 33. Braun T (1990) Inhibition of the soluble form of testis adenylate cyclase by catechol estrogens and other catechols. Proc Soc Exp Biol Med 194: 58–63.
- 34. Steegborn C, Litvin TN, Hess KC, Capper AB, Taussig R, et al. (2005) A novel mechanism for adenylyl cyclase inhibition from the crystal structure of its complex with catechol estrogen. J Biol Chem..
- 35. Xie F, Garcia MA, Carlson AE, Schuh SM, Babcock DF, et al. (2006) Soluble adenylyl cyclase (sAC) is indispensable for sperm function and fertilization. Dev Biol 296: 353–362.
- 36. Cann MJ, Hammer A, Zhou J, Kanacher T (2003) A defined subset of adenylyl cyclases is regulated by bicarbonate ion. J Biol Chem 278: 35033–35038.
- 37. Klengel T, Liang WJ, Chaloupka J, Ruoff C, Schroppel K, et al. (2005) Fungal Adenylyl Cyclase Integrates CO(2) Sensing with cAMP Signaling and Virulence. Curr Biol 15: 2021–2026.
- 38. Kobayashi M, Buck J, Levin LR (2004) Conservation of functional domain structure in bicarbonate-regulated “soluble” adenylyl cyclases in bacteria and eukaryotes. Dev Genes Evol 214: 503–509.
- 39. Mogensen EG, Janbon G, Chaloupka J, Steegborn C, Fu MS, et al. (2006) Cryptococcus neoformans senses CO2 through the carbonic anhydrase Can2 and the adenylyl cyclase Cac1. Eukaryot Cell 5: 103–111.
- 40. Johnson LR (1998) Essential Medical Physiology. Philadelphia: Lippincott-Raven.
- 41. Putnam RW, Filosa JA, Ritucci NA (2004) Cellular mechanisms involved in CO(2) and acid signaling in chemosensitive neurons. Am J Physiol Cell Physiol 287: C1493–1526.
- 42. Pitts RF (1974) Physiology of the Kidney and Body Fluids. Chicago: Year Book Medical Publishers, Inc.
- 43. Summers BA, Overholt JL, Prabhakar NR (2002) CO(2) and pH independently modulate L-type Ca(2+) current in rabbit carotid body glomus cells. J Neurophysiol 88: 604–612.