Characterization and cloning of rat dorsal prostate mRNAs. Androgen regulation of two closely related abundant mRNAs

Electrophoresis of rat dorsal prostate mRNAs on agarose gels containing methyl mercury hydroxide indicates the presence of several highly abundant mRNAs. In vitro translation of the total mRNAs in a cell-free system, followed by polyacrylamide gel electrophoresis, yields protein products including two intense bands corresponding to 23,000 and 21,000 Da. Following castration of rats, these in vitro translation products of dorsal prostate mRNAs are absent. However, the dorsal prostate levels of these two proteins are returned to normal in castrated rats which have received testosterone. In order to investigate these abundant mRNAs of the dorsal prostate, we have constructed double-stranded cDNA clones using poly(A+) RNA extracted from that rat tissue. Clones containing sequences complementary to abundant mRNAs were selected kinetically by colony hybridization with 32P-labeled dorsal prostate cDNA. Further characterization of individual clones was accomplished by restriction mapping and Northern blot analysis. One clone, pM-40, was found to be near full length and was used for further studies. Interestingly, in hybrid-arrested cell-free translation, clone pM-40 completely arrests the translation of both the 23,000- and 21,000-Da protein products indicating close sequence homology between these two proteins. Furthermore, dot hybridization experiments demonstrate that, in the dorsal prostate, the pM-40-specific mRNAs decrease following castration and are restored by testosterone administration. However, the low levels of the same mRNAs in the ventral prostate are not altered by androgen manipulation. Thus, two closely related, androgen-dependent tissues maintain differential regulation of the pM-40 gene(s). This system provides an opportunity to study in two tissues the differential regulation of a gene that may be duplicated or that may code for two separate proteins.     

Recovery of biologically functional messenger RNA from agarose gels by passive elution

A general method for isolating biologically active messenger RNA (mRNA) from agarose gels is reported. Purified cellular RNA is resolved by preparative agarose gel electrophoresis and recovered in high yields (80%) by passive diffusion. Polyadenylated mRNA isolated from the eluted RNA is functionally intact based on the ability of the RNA to serve as a template in cell-free translation systems and complementary DNA synthesis reactions. The entire procedure is simple and rapid. A substantial purification of the mRNAs coding for skeletal muscle myosin heavy chain, light chain subunits and carbonic anhydrase III has been achieved employing this method.     

猪胰脏细胞cDNA文库的构建

 本文以新鲜猪胰脏为材料,采用异硫氰酸胍法和寡聚(dT)-纤维素亲和层析法,提取了Poly(A)~+RNA,经麦胚无细胞体系鉴定其体外翻译活性,~3H-Leu参入量为空白对照的5倍。参照Gubler和Hoffman等人的方法,以此poly(A~+)RNA为模板,合成总cDNA,并采用多聚物加尾法,与pUC19质粒重组,转化入感受态E.coliJM107,进行分子克隆,其转化率为3.6×10~4克隆子/μgcDNA。并对重组质粒DNA进行了酶切鉴定。     

小鼠大脑抑制性神经元特异性多聚核糖体结合型mRNA的提取

目的:建立能够高效、快速地从小鼠大脑提取抑制性神经元特异性多聚核糖体结合的mRNA的方法,为进行小鼠大脑抑制性神经元特异性翻译表达谱分析提供材料。方法:依据Cre-loxp系统,将RiboHA标签小鼠与抑制性神经元特异性VGAT-Cre/PV-Cre小鼠杂交,启动抑制性神经元中核糖体上HA标签的表达。后代小鼠进行基因型鉴定,获得同时表达Cre和HA的小鼠。利用免疫荧光染色检测HA的表达。通过免疫共沉淀从目标细胞群体中获得HA标记的多聚核糖体。提取多聚核糖体结合的mRNA。荧光定量PCR法检测所得mRNA的细胞类型特异性。利用琼脂糖凝胶电泳及bioanalyzer 2100检测所得mRNA及cDNA的质量。结果:HA标记的多聚核糖体在目标细胞群体中能够被高效启动表达。抑制性神经元特异性多聚核糖体结合的mRNA能够被特异性地富集提取。所获细胞类型特异性的多聚核糖体结合的mRNA及cDNA的质量足以用来进行高通量测序及翻译表达谱的分析。结论:利用Cre-loxp遗传系统标记,结合蛋白免疫共沉淀实验,建立了从小鼠大脑抑制性神经元中高效特异地获得多聚核糖体结合的mRNA的方法,为进一步进行小鼠大脑抑制性神经元特异性翻译表达谱的分析奠定了基础。     

Activity-dependent polyadenylation in neurons

Activity-dependent changes in protein synthesis modify synaptic efficacy. One mechanism that regulates mRNA translation in the synapto-dendritic compartment is cytoplasmic polyadenylation, a process controlled by CPEB, the cytoplasmic polyadenylation element (CPE)-specific RNA binding protein. In neurons, very few mRNAs are known CPEB substrates, and none appear to be responsible for the effects on plasticity that are found in the CPEB knockout mouse. These results suggest that the translation of other mRNAs is regulated by CPEB. To identify them, we have developed a functional assay based on the polyadenylation of brain-derived mRNAs injected into Xenopus oocytes, a surrogate system that carries out this 3' end processing event in an efficient manner. The polyadenylated RNAs were isolated by binding to and thermal elution from poly(U) agarose and identified by microarray analysis. Selected sequences that were positive for polyadenylation were cloned and retested for polyadenylation by injection into oocytes. These sequences were then examined for activity-dependent polyadenylation in cultured hippocampal neurons. Finally, the levels of two proteins encoded by polyadenylated mRNAs were examined in glutamate-stimulated synaptoneurosomes. These studies show that many mRNAs undergo activity-dependent polyadenylation in neurons and that this process coincides with increased translation in the synapto-dendritic compartment.     

Improved non-radioactive Northern blot protocol for detecting low abundance mRNAs from mammalian tissues

A rapid and sensitive non-radioactive Northern blot protocol is described which has been optimised in several critical steps. This is based on a formaldehyde-denaturing agarose gel electrophoresis, an alkaline transfer, hybridisation with digoxigenin-DNA probes and detection with a chemiluminescent substrate. This method allows even low abundance mRNAs to be detected in total RNA samples from mammalian tissues.     

Multiple alpha and beta tubulin genes represent unlinked and dispersed gene families

Cloned cDNA sequences specific for alpha or beta tubulin mRNAs have been used to show that the multigene families which encode either alpha or beta tubulin are unlinked and dispersed throughout the chicken genome. Fractions of chicken chromosomes partially purified by centrifugation on a sucrose gradient were digested with restriction endonucleases and electrophoresed on agarose gels. The DNA was transferred to nitrocellulose filters and hybridized to labeled probes constructed from cloned cDNA sequences specific for alpha or beta tubulin. We find alpha tubulin sequences on four different chicken chromosomes and beta tubulin sequences on at least two different chromosomes. Moreover, using chicken chromosomes further purified with a fluorescent cell sorter, we have been able unambiguously to localize alpha tubulin genes to chromosome 1 and chromosome 8 and two of the beta genes to chromosome 2.     

Uteroglobin mRNA from the lung of the hare (Lepus capensis): cell-free translation and properties

Poly(A)-containing RNA was obtained from the lung of hares (Lepus capensis) and uteroglobin mRNA was characterized by cell-free translation and molecular hybridization to a rabbit uteroglobin cDNA probe. In the cell-free system, hare uteroglobin mRNA was preferentially translated as compared to the whole lung mRNA and it directed the synthesis of a precursor, preuteroglobin, containing about twenty additional amino acids. Hare uteroglobin mRNA was about 40 nucleotides larger than the homologous rabbit one, as analyzed by electrophoresis on agarose gel. Thermal stability of the hybrids formed between rabbit or hare uteroglobin mRNAs and the rabbit cDNA probe indicated differences in the nucleotide sequence of both mRNAs. The levels of uteroglobin mRNA and uteroglobin synthesis in lung are about two-fold higher in hare than in rabbit lung.     

Intestinal pre-prosomatostatin. Identification of mRNA coding for a precursor by cell-free translations and hybridization with a cloned islet cDNA

Somatostatin, a tetradecapeptide hormone, is produced in numerous organs including the hypothalamus, pancreatic islets, and the gastrointestinal tract. Recently we identified two separate biosynthetic precursors of somatostatin (Mr = 16,000 and 14,000) among the cell-free translation products encoded by mRNAs prepared from the islets of the anglerfish. The nucleotide sequence of a cloned cDNA encoding the larger of the two pre-prosomatostatins revealed the sequence of the tetradecapeptide somatostatin at the COOH terminus of a polypeptide of 119 amino acids. We now have prepared poly(A)RNA from the intestine of the anglerfish and by immunoprecipitation analyses find a single somatostatin-related translation product that co-migrates during electrophoresis on sodium dodecyl sulfate-polyacrylamide gels with the larger islet pre-prosomatostatin (Mr = 16,000). Analyses of the sizes of the intestinal and islet mRNAs by agarose gel electrophoresis and hybridization with 32P-labeled cDNA containing the coding sequence for the large islet pre-prosomatostatin showed that the complementary RNA in the intestine (600 bases) is 30 nucleotides smaller than that in the islet (620-630 bases). These observations indicate that a gene encoding somatostatin is expressed in the intestine and suggest that the intestinal mRNA is distinct from the two mRNAs encoding the islet somatostatins.     

The sieving of spheres during agarose gel electrophoresis: quantitation and modeling

By use of agarose gel electrophoresis, the sieving of spherical particles in agarose gels has been quantitated and modeled for spheres with a radius (R) between 13.3 and 149 nm. For quantitation, the electrophoretic mobility has been determined as a function of agarose percentage (A). Because a previously used model of sieving [D. Rodbard and A. Chrambach (1970) Proc. Natl. Acad. Sci. USA 65, 970-977] was found incompatible with some of these data, alternative models have been tested. By use of an underivatized agarose, two models, both based on the assumption of a single effective pore radius (PE) for each A, were found to yield PE values that were independent of R and that were in agreement with values of PE obtained independently (PE = 118 nm X A-0.74): sieving by altered hydrodynamics in a cylindrical tube of radius, PE, and sieving by steric exclusion from a circular hole of radius, PE. The same analysis applied to a 6.5% hydroxyethylated commercial agarose yielded a steeper PE vs A plot and also agreement of the above two models with the data. The PE vs A plot was significantly altered by both further hydroxyethylation and factors that cause variation in the electro-osmosis found in commercial agarose.     

Most mRNAs in the nematode Ascaris lumbricoides are trans-spliced: a role for spliced leader addition in translational efficiency.

Some pre-mRNAs in nematodes are processed by trans-splicing. In this reaction, a 22-nt 5' terminal exon (the spliced leader, SL) and its associated 2,2,7-trimethylguanosine cap are acquired from a specialized Sm snRNP, the SL RNP. Although it has been evident for many years that not all nematode mRNAs contain the SL sequence, the prevalence of trans-spliced mRNAs has, with the exception of Caenorhabditis elegans, not been determined. To address this question in an organism amenable to biochemical analysis, we have prepared a message-dependent protein synthesis system from developing embryos of the parasitic nematode, Ascaris lumbricoides. Using this system, we have used both hybrid-arrest and hybrid-selection approaches to show that the vast majority (80-90%) of A. lumbricoides mRNAs contain the SL sequence and therefore are processed by trans-splicing. Furthermore, to examine the effect of SL addition on translation, we have measured levels of protein synthesis in extracts programmed with a variety of synthetic mRNAs. We find that the SL sequence itself and its associated hypermethylated cap functionally collaborate to enhance translational efficiency, presumably at the level of initiation of protein synthesis. These results indicate that trans-splicing plays a larger role in nematode gene expression than previously suspected.     

In Vitro Translation of Autographa californica Nuclear Polyhedrosis Virus Early and Late mRNAs

A preliminary translational map of the Autographa californica genome was constructed. Eighteen viral DNA restriction fragments were either purified from agarose gels or obtained from pBR322 recombinant DNA plasmids to locate specific gene products. The DNAs were immobilized on nitrocellulose filters and used to select viral mRNAs isolated from RNA obtained from the cytoplasm of infected Spodoptera frugiperda cells at 21 h postinfection. The fragment-specific mRNAs were translated in vitro in the presence of l-[(3)H]leucine by using a rabbit reticulocyte lysate system and analyzed on sodium dodecyl sulfate-polyacrylamide gels. The approximate locations of 19 A. californica nuclear polyhedrosis virus (AcMNPV) gene products were mapped. The genes for mRNAs present late in viral infection were mapped to DNA fragments that represent nearly the entire genome. The molecular weights of many of these proteins were similar to those present in purified AcMNPV extracellular virus and to proteins being made in infected cells at 18 to 21 h postinfection. Cytoplasmic RNA was isolated at 4 h postinfection from infected cells, a time early in the viral infection cycle, and hybridized to AcMNPV DNA immobilized on nitrocellulose filters. AcMNPV-specific early RNA was translated in vitro into at least six polypeptides, the most abundant having a molecular weight of 39,000. Viral polypeptides were detected in cells pulse-labeled with l-[(3)H]leucine at 3 to 6 h postinfection, with molecular weights similar to those of polypeptides made in vitro from early AcMNPV mRNA.     

A Nuclear Magnetic Resonance Study of Hydrated Systems Using the Frequency Dependence of the Relaxation Processes

A practical method is described for determining some characteristics of the spectrum of proton mobilities in a hydrated system from the frequency dependence of the nuclear magnetic resonance (NMR) relaxation processes. The technique is applied to water in association with agarose and gelatin. The results for agarose are consistent with the hypothesis that a fraction of the protons is distributed over states of reduced mobility and exchanges rapidly with the remaining fraction which is attributed to water in the normal state. No variation in the characteristics of the modified fraction could be detected for water concentrations in the range 1.2-50 g H₂O/g agarose. Within the modified fraction, higher mobilities are more common than low mobilities; at 1.2 g H₂O/g agarose, not more than 10% of the proton population has mobilities more than 100 times smaller than normal. The modified proton fraction is tentatively identified with agarose hydroxyl protons and possibly water molecules bound to the polymer. Proton states with mobilities intermediate between water and ice have also been detected in hydrated gelatin. As in agarose, higher mobilities are the most common. In contrast to agarose, the characteristics of the modified proton states are markedly dependent on water concentration. They are tentatively attributed to gelatin protons coupled for spinlattice relaxation with those of the bulk phase by exchange and spin diffusion.     

The use of single-stranded phage DNAs in hybrid arrest and release translation

A procedure for hybrid release translation which utilizes plasmid inserts that have been subcloned into the single-stranded DNA phage fd103 is described. Hybridization of the appropriate phage derivative to mRNA in solution is rapid and efficient. Hybrids formed are separated from unhybridized RNA by gel filtration, and denatured by treatment with methylmercuric hydroxide prior to translation in a cell-free system. Comparison of polypeptides synthesized by the denatured sample relative to an undenatured sample reveals polypeptides whose mRNAs were hybridized to the insert in the phage DNA. The procedure is reliable and permits efficient recovery of mRNAs. Such single-stranded phage derivatives are also useful for mRNA titrations and hybrid arrest translation.