bluuebunny/crossref_metadata_2025 huggingface dataset:
Role of "active" potassium transport in the regulation of cytoplasmic pH by nonanimal cells.
Authors: Blatt M R , Slayman C L
Published: May 2006

High-affinity potassium uptake in Neurospora occurs by symport with protons [Km (apparent) = 15 microM at pH 5.8], for which a large inward gradient (approximately 400 mV) is generated by the H+-extruding ATPase of the plasma membrane. Operating in parallel, the two transport systems yield a net 1:1 exchange of K+ for cytoplasmic H+. Since this exchange could play a role in cytoplasmic pH (pHi) regulation, the coordinated functioning of the K+-H+ symport and H+ pump has been examined during acid stress. Cytoplasmic acid loads were imposed by injection and by exposure to extracellular permeant weak acid. Multibarrelled microelectrodes were used to monitor membrane potential (Vm), pHi, and the current-voltage (I-V) characteristics of the cells. The behaviors of the H+ pump and K+-H+ symport were resolved, respectively, by fitting whole membrane I-V curves to an explicit kinetic model of the Neurospora membrane and by subtracting I-V curves obtained in the absence from those obtained in the presence of 5-200 microM K+ outside. Proton pumping accelerates nearly in proportion with the cytoplasmic H+ concentration, but pHi recovery from imposed acid loads is dependent on micromolar K+ outside. Potassium import via the symport leads to a measurable alkalinization of the cytoplasm in accordance with stoichiometric (1:1) K+/H+ exchange. Potassium transport is accelerated at low pHi, but in a manner consistent with its inherent voltage sensitivity and changes in Vm resulting from an increased rate of H+ extrusion by the pump. The primary response to acid stress thus rests with the H+ pump, but K+ transport introduces an essential kinetic "valve" that can regulate net H+ export.
Rapid auxin-induced stimulation of cell wall synthesis in pea internodes
Authors: Kutschera Ulrich , Briggs Winslow R.
Published: May 2006

The effect of auxin (indole-3-acetic acid; IAA) on growth and incorporation of
myo
-[2-
3
H(N)]inositol ([
3
H]Ins) into noncellulosic polysaccharides in the cell walls of third internode sections from red light-grown pea seedlings (
Pisum sativum
L. cv. Alaska) was investigated. Intact sections were incubated on [
3
H]Ins for 4 hr to permit uptake of the tracer and then IAA was added. Growth started after a lag phase of 15 min under these conditions. The sections were removed from the tracer and separated into epidermis and cortical cylinder (cortex plus vascular tissue). In the epidermis, IAA-induced stimulation of [
3
H]Ins incorporation started after a lag of 15 min. The amount of incorporation was 15% higher after 30 min and 24% higher after 2 hr than in the control. In the cortical cylinder, IAA-induced stimulation of [
3
H]Ins incorporation started only ≈1 hr after adding IAA. The ionophore monensin (20 μM) inhibited the IAA-induced growth by 95%. Under these conditions, the IAA-induced stimulation of [
3
H]Ins incorporation and the IAA-induced increase in
in vivo
extensibility of the sections was almost completely inhibited, although oxygen uptake was unaffected. We suggest that wall synthesis (as represented by [
3
H]Ins incorporation) and wall loosening (increase in
in vivo
extensibility) are related processes. The results support the hypothesis that IAA induces growth by rapid stimulation of cell wall synthesis in the growth-limiting epidermal cell layer.
Magnetic resonance microscopy of changes in water content in stems of transpiring plants.
Authors: Johnson G A , Brown J , Kramer P J
Published: May 2006

Differences in water content and degree of binding in the various stem tissues of Pelargonium hortorum were observed by magnetic resonance imaging. 1H images were obtained with a resolution of 100 microns in the transverse plane and a slice thickness of 1250 microns. It was possible to distinguish the principal tissues of the stem by differences in their proton density or apparent water content and spin lattice relaxation time (T1) or degree of water binding. Measurements were made while the plant was slowly and actively transpiring. In the slowly transpiring plant, T1 of various tissues ranged from an average of 659 to 865 ms with a proton density variation of from 72 to 100%. In the actively transpiring plant, T1 ranged from an average of 511 to 736 ms, and the proton density was reduced, ranging between 62 and 88% of the peak value found in the slowly transpiring plant. The fibrous sheath surrounding the vascular tissue and the epidermal region was found to have the highest spin density and T1. Both tissues are comprised of relatively small thick-walled cells. Cortical and pith parenchyma are composed of larger, thinner-walled cells with numerous intercellular spaces and lower spin density and T1. The differences are attributed to the higher water content by volume in the tissue composed of smaller, more compactly arranged cells. The resolution obtained in this work enables clear definition of tissues in the living plant and quantitative information concerning differences in the distribution and extent of binding of water.
MYC oncogene involved in a t(8;22) chromosome translocation is not altered in its putative regulatory regions.
Authors: Showe L C , Moore R C , Erikson J , Croce C M
Published: May 2006

We have cloned the translocation-associated MYC gene from the Burkitt lymphoma cell line (BL2) with a t(8;22) chromosomal translocation and have determined the nucleotide sequence of the first exon and of the 3' and 5' flanking regions, where sequences with putative regulatory functions have been identified. The nucleotide sequence of the 5' flanking region, which contains regions of DNase hypersensitivity and binding sites for putative regulatory proteins, is the same as that of the normal MYC. Accordingly, mutations in these regulatory regions are not required for the transcriptional deregulation of MYC in the BL2 cell line. The nucleotide sequence of the first exon is similar to that of the normal MYC [Gazin, C., Dupont de Direchin, S., Hampe, A., Masson, J. M., Martin, P., Stehelin, D. & Galibert, F. (1984) EMBO J. 3, 383-387] and has the coding capacity for a 188-residue polypeptide. However, six nucleotide changes that occur in the middle of this reading frame could result in amino acid substitutions. We also have cloned and sequenced the t(8;22) chromosomal breakpoint that is located 10 kilobases 3' of the MYC exon 3 and near the C lambda 3 gene on chromosome 22. Sequences with homology to immunoglobulin joining signals occur close to the breakpoint both on chromosome 8 and 22, providing further evidence that the immunoglobulin joining enzymes may be involved in the recombinations associated with a variety of chromosomal translocations in B and T cells.
Loss of an apurinic/apyrimidinic site endonuclease increases the mutagenicity of N-methyl-N'-nitro-N-nitrosoguanidine to Escherichia coli.
Authors: Foster P L , Davis E F
Published: May 2006

xthA- Escherichia coli, which are missing a major cellular apurinic/apyrimidinic (AP) endonuclease, are 5- to 10-fold more sensitive than xthA+ bacteria to mutagenesis by N-methyl-N'-nitro-N-nitrosoguanidine (MNNG) under conditions that induce the "adaptive response." The xthA(-)-dependent mutations are also dependent on SOS mutagenic processing and consist of both transversion and transition base substitutions. When MNNG-adapted xthA- bacteria are challenged with a high dose of MNNG, more xthA(-)-dependent SOS-dependent mutations are induced, and transversions are enhanced relative to transitions. The mutations induced by challenge are eliminated in xthA- alkA- bacteria, which are also deficient for 3-methyladenine glycosylase II activity. These data are consistent with the hypothesis that AP sites, at least some of which are produced by glycosylase activity, are mutagenic intermediates following cellular DNA alkylation.
Merozoite surface coat precursor protein completely protects Aotus monkeys against Plasmodium falciparum malaria.
Authors: Siddiqui W A , Tam L Q , Kramer K J , Hui G S , Case S E , Yamaga K M , Chang S P , Chan E B , Kan S C
Published: May 2006

Groups of Aotus (owl) monkeys were immunized with either the Plasmodium falciparum merozoite surface-coat precursor protein and its processing fragments or a complex of high molecular mass rhoptry proteins and challenged with a lethal infection of the homologous P. falciparum Uganda Palo Alto (FUP) strain. No patent parasitemia could be detected on thick blood films of monkeys immunized with the merozoite surface antigens; however, only one of three monkeys immunized with the rhoptry proteins was partially protected, while two required drug therapy. The experiment clearly demonstrates that the merozoite surface-coat precursor protein can completely protect Aotus monkeys against a lethal infection of the human malaria parasite.
Genomic and cDNA actin sequences from a virulent strain of Entamoeba histolytica.
Authors: Edman U , Meza I , Agabian N
Published: May 2006

Invasiveness of Entamoeba histolytica strains that cause acute amoebiasis is characterized by aggressive behavior associated with cell motility and actin function. Analysis of actin genes from E. histolytica was initiated by devising methods for the isolation of biologically active nucleic acids, which allowed the preparation of cDNA and genomic DNA libraries. E. histolytica actin-encoding cDNAs and genomic clones have been isolated from libraries prepared from the virulent HM1:IMSS strain using a heterologous actin probe. Nucleotide sequence analysis of three independent cDNA clones and one genomic clone reveals a highly unusual codon bias and the absence of intervening sequences in E. histolytica actin. The coding sequence of the genomic clone is identical to that of two of the three cDNA clones. These represent at least two distinct mRNAs differing only by five silent changes in the protein coding sequence. Multiple genomic copies of the actin gene can be detected by Southern hybridization. E. histolytica actin exhibits a higher degree of homology to cytoplasmic than to muscle actin. Although the protein has been shown not to bind DNase I, the inferred amino acid sequence indicates conservation of all residues implied to participate in this binding.
Protein antigen-monoclonal antibody contact sites investigated by limited proteolysis of monoclonal antibody-bound antigen: protein "footprinting".
Authors: Sheshberadaran H , Payne L G
Published: May 2006

This study describes the use of limited proteolysis of monoclonal antibody (mAb)-bound antigens in the analysis of the two measles virus surface glycoproteins. This approach is dubbed protein "footprinting" in analogy with DNA "footprinting." Protein footprinting was superior to competitive-binding assays and as good as in vitro mAb-selected variant analysis in differentiating among mAbs with various specificities to a given protein. Proteolytic digestion of the antigen prior to mAb binding drastically reduced mAb binding resulting in poor differentiation among mAbs. In contrast, protein footprinting showed that some mAbs retained the ability to immunoprecipitate such fragments. Thus footprinting could be used for localization of mAb epitopes on a protein and proved also to be an effective means of distinguishing among mAb-selected variants differing in single epitopes. Conformational changes caused by heat-denaturation or the binding of anti-antibody to an antigen-antibody complex could also be detected by footprinting.
Chromatin structure of altered yeast centromeres.
Authors: Saunders M , Fitzgerald-Hayes M , Bloom K
Published: May 2006

We have investigated the chromatin structure of wild-type and mutationally altered centromere sequences in the yeast Saccharomyces cerevisiae by using an indirect end-labeling mapping strategy. Wild-type centromere DNA from chromosome III (CEN3) exhibits a nuclease-resistant chromatin structure 220-250 base pairs long, centered around the conserved centromere DNA element (CDE) III. A point mutation in CDE III that changes a central cytidine to a thymidine and completely disrupts centromere function has lost the chromatin conformation typically associated with the wild-type centromere. A second conserved DNA element, CDE I, is spatially separated from CDE III by 78-86 A + T-rich base pairs, which is termed CDE II. The sequence and spatial requirements for CDE II are less stringent; alterations in CDE II length and sequence can be tolerated to a limited extent. Nuclease-resistant cores are altered in dimension in two CDE II CEN3 mutations. Two CDE I deletion mutations that retain partial centromere function also show nuclease-resistant regions of reduced size and intensity. The results from a number of such altered centromeres indicate a correlation between the presence of a protected core and centromere function.
Saturation germ line mutagenesis of the murine t region including a lethal allele at the quaking locus.
Authors: Shedlovsky A , King T R , Dove W F
Published: May 2006

The proximal region of mouse chromosome 17 contains many genes affecting embryonic development, germ cell differentiation, and the immune system. Although the study of natural variation, including t haplotypes, has yielded some information about the function of these genes, spontaneous variants often exhibit manifold genetic effects and are generally not carried on inbred backgrounds. To clearly connect phenotypes with the actions of individual genes, mutants in which genes are altered singly are needed. Therefore, we used a highly efficient point mutagen, N-ethyl-N-nitrosourea, in combination with classical breeding schemes to induce and identify recessive lethal mutations in the t region. Of 350 mutagenized gametes examined, at least 10 independent recessive embryonic lethal mutations have been identified; an additional two are perinatal lethals. A spontaneous brachyury mutation, TWis, arose on a genetic background that permits high-resolution mapping of the induced recessive mutations against cloned DNA sequences from the t region. One lethal mutation is an allele at the quaking locus. The multiple alleles of quaking and the feasibility of high-resolution mapping permit investigation of the pleiotropic action of this locus in mammalian development.
Tissue specificity, localization in brain, and cell-free translation of mRNA encoding the A3 isoform of Na+,K+-ATPase.
Authors: Schneider J W , Mercer R W , Gilmore-Hebert M , Utset M F , Lai C , Greene A , Benz E J
Published: May 2006

The isolation of multiple Na+,K+-ATPase cDNAs from rat brain has led to the discovery of a family of alpha-isoform genes. Using A1 (alpha), A2 (alpha+), and A3 (alpha III) Na+,K+-ATPase gene probes, we have analyzed the distribution of Na+,K+-ATPase mRNAs in adult and fetal rat tissues by RNA blot and hybridization histochemistry. A1 Na+,K+-ATPase mRNA was found ubiquitously among various tissues, with highest levels in transport epithelial and neural tissues. A2 mRNA was found in adult neural and muscle tissues, and A3 mRNA was found only in neural tissues and fetal heart muscle. Both A1 and A2 mRNAs were less abundant in fetal brain than in adult brain; in contrast, A3 mRNA was abundant at both stages. In situ mapping of brain areas that contain A3 mRNA suggests that this Na+,K+-ATPase isoenzyme is expressed predominantly by neural cells. Analysis of Na+,K+-ATPase proteins generated by cell-free translation of synthetic mRNAs suggests that the A3 protein has properties similar to A2 (alpha+).
Synthetic human seminal alpha-inhibin-92 selectively suppresses follicle-stimulating hormone release in vivo.
Authors: Yu W H , McCann S M , Li C H
Published: May 2006

A 92-amino acid polypeptide, alpha-inhibin-92 (alpha-IB-92), has been isolated and characterized from human seminal plasma and found to be active in suppressing follicle-stimulating hormone (FSH) release in vitro. In the present in vivo study, intravenous injection of synthetic alpha-IB-92 (4 and 20 micrograms) significantly suppressed FSH release (P less than 0.001), whereas this peptide had no effect on luteinizing hormone (LH) release in 1-day orchidectomized male rats. In contrast, third ventricular injection of alpha-IB-92 (0.02, 0.4, 4, or 20 micrograms) had no effect on FSH and LH release in 1- or 2-day orchidectomized rats. These results indicate that alpha-IB-92 exerts a FSH suppressing activity by direct action on the pituitary gland.
Identification of homologous pairing and strand-exchange activity from a human tumor cell line based on Z-DNA affinity chromatography.
Authors: Fishel R A , Detmer K , Rich A
Published: May 2006

An enzymatic activity that catalyzes ATP-dependent homologous pairing and strand exchange of duplex linear DNA and single-stranded circular DNA has been purified several thousand-fold from a human leukemic T-lymphoblast cell line. The activity was identified after chromatography of nuclear proteins on a Z-DNA column matrix. The reaction was shown to transfer the complementary single strand from a donor duplex linear substrate to a viral circular single-stranded acceptor beginning at the 5' end and proceeding in the 3' direction (5'----3'). Products of the strand-transfer reaction were characterized by electron microscopy. A 74-kDa protein was identified as the major ATP-binding peptide in active strand transferase fractions. The protein preparation described in this report binds more strongly to Z-DNA than to B-DNA.
cGMP-dependent channel protein from photoreceptor membranes: single-channel activity of the purified and reconstituted protein.
Authors: Hanke W , Cook N J , Kaupp U B
Published: May 2006

The cGMP-dependent channel protein has been purified from bovine rod photoreceptor membranes and incorporated into planar lipid membranes. At low divalent cation concentrations, cGMP stimulated single-channel current fluctuations. The probability Po of the channel being open strongly depended on the cGMP concentration (EC50 = 31 microM; Hill coefficient, n = 2.3); whereas the single-channel conductance (lambda = 26 pS) was independent of the agonist concentration. The agonist-stimulated increase in the probability of an open channel was largely due to shorter closed times and, to a lesser extent, due to the channel staying open for a longer time. The current-voltage relationship of the single open channel deviated from ohmic behavior, and the open probability decreased at more negative membrane potentials. The rectification of the macroscopic cGMP-induced current in artificial bilayers that contained many channel copies can be accounted for by the voltage dependence of channel gating together with the nonlinearity of the current-voltage curve of an open channel. Current fluctuations exhibited a variety of sublevels, indicating that the channel may exist in more than one conductive state.
Interleukin 3 stimulates proliferation via protein kinase C activation without increasing inositol lipid turnover.
Authors: Whetton A D , Monk P N , Consalvey S D , Huang S J , Dexter T M , Downes C P
Published: May 2006

Interleukin 3 (IL-3) is required for the survival and proliferation of the FDCP-Mix 1 multipotent stem cell line. IL-3 or phorbol esters can rapidly translocate protein kinase C from a cytosolic to a membrane-bound form in these cells. Phorbol esters were able to partially replace the requirement of FDCP-Mix 1 cells for IL-3. Down-modulation of protein kinase C levels by chronic treatment with phorbol ester markedly reduced the ability of the cells to proliferate in response to either IL-3 or phorbol esters. These data indicate that IL-3 can activate protein kinase C, leading to the survival and proliferation of stem cells. Protein kinase C is activated conventionally by complexing with diacylglycerol which accumulates in the cell membrane after agonist-stimulated hydrolysis of phosphatidylinositol 4,5-bisphosphate [PtdIns(4,5)P2]. However, there was no detectable breakdown of PtdIns(4,5)P2 when IL-3 was added to FDCP-Mix 1 cells, nor was there detectable accumulation of inositol phosphates in response to IL-3. In contrast, rapid hydrolysis of PtdIns(4,5)P2 and accumulation of inositol 1,4,5-trisphosphate was elicited by readdition of horse serum to serum-starved cells, thus indicating that these cells possess the necessary machinery to undergo agonist-mediated inositol phospholipid breakdown. We conclude that the mechanism whereby IL-3 can activate protein kinase C leading to proliferation is not associated with inositol phospholipid hydrolysis.
Structural analysis of a series of antiviral agents complexed with human rhinovirus 14.
Authors: Badger J , Minor I , Kremer M J , Oliveira M A , Smith T J , Griffith J P , Guerin D M , Krishnaswamy S , Luo M , Rossmann M G
Published: May 2006

The binding to human rhinovirus 14 of a series of eight antiviral agents that inhibit picornaviral uncoating after entry into host cells has been characterized crystallographically. All of these bind into the same hydrophobic pocket within the viral protein VP1 beta-barrel structure, although the orientation and position of each compound within the pocket was found to differ. The compounds cause the protein shell to be less flexible, thereby inhibiting disassembly. Although the antiviral potency of these compounds varies by 120-fold, they all induce the same conformational changes on the virion. The interactions of these compounds with the viral capsid are consistent with their observed antiviral activities against human rhinovirus 14 drug-resistant mutants and other rhinovirus serotypes. Crystallographic studies of one of these mutants confirm the partial sequencing data and support the finding that this is a single mutation that occurs within the binding pocket.
pp60c-src expression in the developing rat brain.
Authors: Cartwright C A , Simantov R , Cowan W M , Hunter T , Eckhart W
Published: May 2006

We have studied pp60c-src expression in the striatum, hippocampus, and cerebellum of the developing rat brain. In the striatum, pp60c-src protein kinase activity peaks during embryonic development and then declines in the adult. The peak activity occurs in the striatum on embryonic day 20 (E20) when it is 18- to 20-fold higher than the activity in fibroblasts and 4- to 5-fold higher than the activity in the striatum at E15 or in the adult striatum. In the hippocampal region, pp60c-src activity reaches a maximum shortly after birth but remains high throughout life. On postnatal day 2 (P2) the activity in the hippocampus is 9- to 13-fold higher than the activity in fibroblasts and twice as high as the activity in the hippocampus at E18. In the cerebellum, the kinase activity remains constant from E20 onward and is 6- to 10-fold higher than that observed in fibroblasts. The increase in pp60c-src kinase activity observed during the development of the striatum and hippocampus is due to an increase in the amount of pp60c-src protein and to an increase in the specific activity of the kinase. The increase in specific activity in these regions coincides with the peak periods of neurogenesis and neuronal growth. In the striatum, we have found that the increase in pp60c-src activity also parallels the increase observed in culture as embryonic striatal neurons differentiate. Taken together, our results are consonant with the idea that pp60c-src is the product of a developmentally regulated gene that is important for the differentiation and/or the continuing function of neurons.
Partial phylogeny of the unicellular eukaryotes based on rapid sequencing of a portion of 28S ribosomal RNA.
Authors: Baroin A , Perasso R , Qu L H , Brugerolle G , Bachellerie J P , Adoutte A
Published: May 2006

Using a rapid rRNA sequencing technique, we have determined the sequence of the 400 nucleotides located at the 5' end of the large subunit rRNA molecule from eight species of unicellular eukaryotes (protists). This region contains a pair of conservative domains well-suited for long-range phylogenetic evaluations among eukaryotes, due both to their substantia, length and to their intrinsic rate of sequence variation during evolution. It also comprises a central more rapidly evolving portion, which allows for a fine tuning of distance evaluation between closely related species. Molecular distances were computed between the aligned nucleotides of all presently available protist sequences and were used to derive a tentative dendrogram. Within the limitations inherent to this approach, a number of interesting observations emerge: The various protist groups appear to have separated very early from each other. The most deeply divergent protists belong to a number of orders of flagellates (mastigotes), suggesting a very ancient origin for organelles containing a 9 + 2 microtubular arrangement. Ciliates emerged late among eukaryotes, suggesting that their peculiar genetic code was derived secondarily. Moreover, a dinoflagellate clusters with ciliates, thus making it likely that the unusual features of nuclear organization and mitosis of this group are not primitive but derived characters. Finally, within groups, taxonomic and evolutionary inferences appear to be feasible using this portion of the rRNA.
Isolation and characterization of cDNA clones encoding human liver glutamate dehydrogenase: evidence for a small gene family.
Authors: Mavrothalassitis G , Tzimagiorgis G , Mitsialis A , Zannis V , Plaitakis A , Papamatheakis J , Moschonas N
Published: May 2006

We have isolated a series of human liver cDNA clones encoding glutamate dehydrogenase. The cDNA-derived protein sequence specifies a single 558-amino acid long polypeptide including a cleavable signal sequence of 53 amino acids. Blotting analysis of RNA from human, monkey, and rabbit showed that glutamate dehydrogenase mRNA is present in various amounts in all tissues tested. Glutamate dehydrogenase mRNAs are of four sizes and are found in different ratios in different tissues; the predominant ones are approximately 3.5 and approximately 2.9 kilobases. Blot hybridization of human genomic DNA to nonoverlapping cDNA fragments revealed multiple bands, many of which hybridize with two or more probes in a manner inconsistent with the existence of a single GLUD gene. Moreover, two separate 36-base synthetic oligonucleotides corresponding to the coding region hybridize to multiple genomic fragments, confirming the existence of more than one GLUD-related gene in human.
Glycolipid reanchoring of T-lymphocyte surface antigen CD8 using the 3' end sequence of decay-accelerating factor's mRNA.
Authors: Tykocinski M L , Shu H K , Ayers D J , Walter E I , Getty R R , Groger R K , Hauer C A , Medof M E
Published: May 2006

Decay-accelerating factor (DAF) is one of a family of cell-associated proteins that undergo posttranslational modifications in which glycolipid anchoring structures are substituted for membrane-spanning sequences. The signals that direct the covalent substitution reaction in these proteins are unknown. Human DAF was expressed in Chinese hamster ovary (CHO) cells and murine BW lymphocytes. In both cases, the xenogeneic DAF in transfectants incorporated a glycolipid anchor. A chimeric CD8-DAF cDNA, encompassing the extra-cellular region of the T-lymphocyte surface antigen CD8 and the 3' end of DAF mRNA (encoding the C-terminal region of mature DAF as well as the hydrophobic extension peptide), was expressed in human leukemia lines after transfection with an Epstein-Barr virus-based episomal vector. The chimeric protein in transfectants demonstrated glycolipid anchoring, whereas unaltered CD8 in control experiments did not. The signals directing glycolipid anchoring in eukaryotic cells are thus evolutionarily conserved and contained in the 3' end of the DAF sequence.
Bird song syntax: learned intraspecific variation is meaningful.
Authors: Balaban E
Published: May 2006

Song syntax, defined as orderly temporal arrangements of acoustic units within a bird song, is a conspicuous feature of the songs of many species of passerine birds. While syntactical features play a role in interspecific song recognition by males of many bird species, syntax variation within species and female responsiveness to song syntax have received little attention. This report demonstrates that differences in naturally occurring learned song syntax within a species whose syntax varies geographically are behaviorally salient to both male and female birds. The salience of culturally transmitted intraspecific differences in song syntax has implications for the process of conspecific song perception and may be involved in the regulation of genetic exchange between large populations of swamp sparrows (Melospiza georgiana).
Characterization of cDNA encoding human placental anticoagulant protein (PP4): homology with the lipocortin family.
Authors: Grundmann U , Abel K J , Bohn H , Löbermann H , Lottspeich F , Küpper H
Published: May 2006

A cDNA library prepared from human placenta was screened for sequences encoding the placental protein 4 (PP4). PP4 is an anticoagulant protein that acts as an indirect inhibitor of the thromboplastin-specific complex, which is involved in the blood coagulation cascade. Partial amino acid sequence information from PP4-derived cyanogen bromide fragments was used to design three oligonucleotide probes for screening the library. From 10(6)independent recombinants, 18 clones were identified that hybridized to all three probes. These 18 recombinants contained cDNA inserts encoding a protein of 320 amino acid residues. In addition to the PP4 cDNA we identified 9 other recombinants encoding a protein with considerable similarity (74%) TO PP4, which was termed PP4-X. PP4 and PP4-X belong to the lipocortin family, as judged by their homology to lipocortin I and calpactin I.
Selective expression of an erythroid-specific isoform of protein 4.1.
Authors: Tang T K , Leto T L , Correas I , Alonso M A , Marchesi V T , Benz E J
Published: May 2006

We have conducted comparative analysis of nucleotide sequences encoding erythroid and lymphoid protein 4.1 isoforms. The lymphoid protein 4.1 isoforms exhibit several nucleotide sequence motifs that appear to be either inserted into or deleted from the mRNA sequence by alternative splicing of a common mRNA precursor. One of these motifs, located within the spectrin-actin binding domain, is found only in erythroid cells and is specifically produced during erythroid cell maturation. The selective expression of the alternatively spliced mRNA during erythroid maturation implies the existence of a lineage-specific splicing mechanism whose activity is triggered by terminal maturation.
General method for quantifying base adducts in specific mammalian genes.
Authors: Thomas D C , Morton A G , Bohr V A , Sancar A
Published: May 2006

A general method has been developed to measure the formation and removal of DNA adducts in defined sequences of mammalian genomes. Adducted genomic DNA is digested with an appropriate restriction enzyme, treated with Escherichia coli UvrABC excision nuclease (ABC excinuclease), subjected to alkaline gel electrophoresis, and probed for specific sequences by Southern hybridization. The ABC excinuclease incises DNA containing bulky adducts and thus reduces the intensity of the full-length fragments in Southern hybridization in proportion to the number of adducts present in the probed sequence. This method is similar to that developed by Bohr et al. [Bohr, V. A., Smith, C. A., Okumoto, D. S. & Hanawalt, P. C. (1985) Cell 40, 359-369] for quantifying pyrimidine dimers by using T4 endonuclease V. Because of the wide substrate range of ABC exinuclease, however, our method can be used to quantify a large variety of DNA adducts in specific genomic sequences.
Isolation of genes involved in nodulation competitiveness from
Rhizobium leguminosarum
bv.
trifolii
T24
Authors: Triplett Eric W.
Published: May 2006

Rhizobium leguminosarum
bv.
trifolii
T24 produces a potent anti-rhizobial compound, trifolitoxin, and exclusively nodulates clover roots when in mixed inoculum with trifolitoxin-sensitive strains of
R. leguminosarum
bv.
trifolii
[Schwinghamer, E. A. & Belkengren R. P. (1968)
Arch. Mikrobiol.
64, 130-145]. In the present study, the isolation of trifolitoxin production and resistance genes is described. A cosmid genomic library of T24 was prepared in pLAFR3. No trifolitoxin expression was observed in the resulting
Escherichia coli
cosmid clones. One cosmid clone was identified that restored trifolitoxin production and nodulation competitiveness in three nonproducing mutants of T24. The recombinant plasmid from this cosmid clone, pTFX1, also conferred trifolitoxin production and resistance when transferred to symbiotically effective strains of
R. leguminosarum
bvs.
trifolii, phaseoli
, and
viceae
. Cosmid pTFX1 also conferred expression of trifolitoxin production when present in strains of
Rhizobium meliloti
and
Agrobacterium tumefaciens
. No trifolitoxin expression was observed in strains of
Bradyrhizobium japonicum
or
Rhizobium
sp. (cowpea) with pTFX1. Southern blot analysis with a biotinylated pTFX1 probe did not suggest that these genes were plasmid-borne. Transfer of pTFX1 to T24 or its derivatives resulted in 6- to 10-fold higher level of trifolitoxin production than wild-type T24.
Reversion of a gypsy-induced mutation at the yellow (y) locus of Drosophila melanogaster is associated with the insertion of a newly defined transposable element.
Authors: Geyer P K , Green M M , Corces V G
Published: May 2006

To understand the molecular basis of the phenotype of gypsy-induced mutations, we have analyzed the structure of phenotypic revertants of the y2 allele, which is caused by the insertion of the gypsy element into the 5' region of the yellow (y) locus. Seven spontaneous revertants examined fall into two different classes. Three of these revertants arose by homologous recombination between the two gypsy long terminal repeats (LTRs), leaving behind a solo LTR. Four additional revertants contain an intact 3' LTR and half of the 5' LTR, but the central portion of gypsy has been replaced by a different 6.5-kilobase transposable element that contains a poly(A) tail. These results suggest that the mutagenic effect of the gypsy element is not due to its insertion into sequences necessary for transcription or to the distancing between the yellow promoter and remote regulatory sequences but is a consequence of idiosyncratic properties of the element itself.
Prostaglandin D2, a cerebral sleep-inducing substance in monkeys.
Authors: Onoe H , Ueno R , Fujita I , Nishino H , Oomura Y , Hayaishi O
Published: May 2006

The sleep-inducing effect of prostaglandin D2 (PGD2) was studied in five conscious male rhesus monkeys (Macaca mulatta) maintained in a 12-hr light/dark cycle. PGD2 was infused into the lateral or the third ventricle of the cerebrum slowly and continuously for 6 hr in the light period. Infusion of PGD2 into the lateral ventricle at 15-2250 pmol/min induced natural sleep as identified by electroencephalogram, electromyogram, electrooculogram, body temperature, heart rate, and animal behavior. Although sensitivity to PGD2 was slightly different among individual animals, the amount of total sleep time increased maximally up to 3- to 4-fold over the control level. PGD2 infused into the third ventricle induced effects similar to those observed for the lateral ventricular route, but infusion into the third ventricle was about 1000 times more effective than infusion into the lateral ventricle. In three monkeys, PGD2 increased the amount of sleep in a dose-dependent manner. Bell-shaped dose-response curves were observed for the other two monkeys. Infusion of prostaglandin E2 or F2 alpha into the lateral ventricle caused sedation but slightly reduced the amount of slow-wave sleep and produced increases in heart rate and body temperature. These findings suggest that endogenous PGD2 may be involved in the regulation of sleep by acting on the brain structures surrounding the third ventricle in the rhesus monkey.
Neurotransmitter release is blocked intracellularly by botulinum neurotoxin, and this requires uptake of both toxin polypeptides by a process mediated by the larger chain.
Authors: Poulain B , Tauc L , Maisey E A , Wadsworth J D , Mohan P M , Dolly J O
Published: May 2006

Botulinum neurotoxins (types A and B), which are microbial proteins consisting of two disulfide-linked chains, inhibit specifically and with high potency the release of acetylcholine from peripheral nerve terminals. As a prerequisite for a long-term development of effective treatments for botulism, the internalization and inhibitory action of the toxin and its constituent chains were examined by electrophysiological methods at identified synapses in Aplysia preparations that allow both intracellular and bath application of the neurotoxins. Intracellular recordings from cholinergic cells of the buccal ganglion demonstrated that extra- or intracellular application of low doses of botulinum neurotoxin results in a specific blockade of evoked transmitter release, without changing the quantal size; an intraneuronal site of action has thus been established. In contrast, release from noncholinergic neurons of cerebral ganglion was prevented by the neurotoxin only after injection into the cell. Purified preparations of the individual renatured chains, shown to be nontoxic in a mouse bioassay, failed to affect acetylcholine release when applied extra- or intracellularly. However, inhibition of release was observed after intracellular administration of both chains or when the light chain was injected and the heavy chain was bath-applied. These findings show that both chains are required on the cytosolic side of the neuronal plasma membrane for expression of toxicity and that the cholinergic specificity of the neurotoxin is attributable to its heavy chain, which mediates targeting and subsequent neuronal uptake.
Crystal and molecular structure of didemnin B, an antiviral and cytotoxic depsipeptide.
Authors: Hossain M B , van der Helm D , Antel J , Sheldrick G M , Sanduja S K , Weinheimer A J
Published: May 2006

Didemnin B, a highly active depsipeptide isolated from a Caribbean tunicate, crystallizes from chloroform/benzene in the orthorhombic space group C2221, with cell parameters a = 14.990 +/- 0.003 A, b = 22.574 +/- 0.004 A, c = 41.112 +/- 0.009 A, V = 13911.7 A3 at 138 K and a calculated density of 1.143 g/cm3 based on C57H89N7O15, 1.5C6H6.H2O and eight formula units per cell. The overall agreement factor R = 0.052 for 7699 reflections, 20 theta max = 150 degrees, Cu K-alpha radiation. The structure determination revealed that didemnin B contains an isostatine residue instead of a statine residue. The conformation of the 23-membered depsipeptide ring is stabilized by one transannular hydrogen bond. The ring does not show the antiparallel beta-pleated-sheet structure but, instead, has a fold in the shape of a bent figure-eight. The linear peptide moiety, containing N-methylleucine and lactylproline, forms a beta (II)-bend and is folded back toward the cyclic backbone, giving the overall molecule a globular character. Comparison with the structure of cyclosporin A shows distinct stereochemical differences between the two molecules. It is suggested that didemnin B and cyclosporin A are unlikely to have a common receptor binding site.
The major adduct of the antitumor drug cis-diamminedichloroplatinum(II) with DNA bends the duplex by approximately equal to 40 degrees toward the major groove.
Authors: Rice J A , Crothers D M , Pinto A L , Lippard S J
Published: May 2006

We used gel electrophoresis methods to show that reaction of DNA with cis-diamminedichloroplatinum(II) results in a substantial (approximately equal to 40 degrees) bend in the double helix at the intrastrand crosslink between the N7 atoms of adjacent guanosine nucleosides, which bond to the platinum(II) complex with loss of two chloride ions. Multimers of a 22-base-pair (bp) oligonucleotide platinated at a single site show strong anomalies in their electrophoretic mobilities as a consequence of coherent addition of in-phase platinum-induced bends. Increase of the sequence repeat of the platinated site to 27 bp yields multimers of nearly normal mobility because the bends are out of phase. The direction of Pt-induced bends relative to adenosine-tract bends was determined from the electrophoretic mobility of multimers in which repeated platination sites are interdigitated at various phasings relative to repeated adenosine tracts. Optimum bending occurs when 1.5 helical turns separate the cis-[Pt(NH3)2[d(pGpG)]](N7,N7) adducts from the center of the adenosine tracts. This phasing produces coherent addition of adenosine tract bends toward the minor groove at their centers and Pt-induced bends toward the major groove, where the platinum is located.
Putative metabolites derived from dietary combinations of calcium glucarate and N-(4-hydroxyphenyl)retinamide act synergistically to inhibit the induction of rat mammary tumors by 7,12-dimethylbenz[a]anthracene.
Authors: Abou-Issa H M , Duruibe V A , Minton J P , Larroya S , Dwivedi C , Webb T E
Published: May 2006

Calcium glucarate and N-(4-hydroxyphenyl)retinamide were evaluated individually and in combination in the diet as preventative chemical agents, by using the induction of rat mammary tumors by 7,12-dimethylbenz[a]anthracene as the test system. When tested separately over 18 weeks, optimal doses of calcium glucarate (128 mmol/kg of diet) or N-(4-hydroxyphenyl)retinamide (1.5 mmol/kg of diet) administered daily inhibited tumor incidence by 50% or 57% and tumor multiplicity by 50% or 65%, respectively. Suboptimal doses of calcium glucarate (32 mmol/kg) and of N-(4-hydroxyphenyl)retinamide (0.75 mmol/kg) inhibited tumor incidence by 15% and 5% but had no inhibitory effect on tumor multiplicity. In contrast, the combination of calcium glucarate (32 mmol/kg) and N-(4-hydroxyphenyl)retinamide (0.75 mmol/kg) inhibited tumor incidence and tumor multiplicity by 50%. Similar synergism was observed with the combination of calcium glucarate (64 mmol/kg) and N-(4-hydroxyphenyl)retinamide (0.75 mmol/kg), the inhibition being 55-60%. HPLC analysis of the bile of female rats injected intraperitoneally with a single dose of the retinamide [60 mg/kg (body weight)] showed that the excretion of the retinamide and its glucuronide were markedly suppressed by pretreatment with an oral dose of calcium glucarate [4.5 mmol/kg (body weight)].
mRNAs encoding ribulose-1,5-bisphosphate carboxylase remain bound to polysomes but are not translated in amaranth seedlings transferred to darkness
Authors: Berry James O. , Carr John P. , Klessig Daniel F.
Published: May 2006

When light-grown seedlings of amaranth are transferred to total darkness, synthesis of the large subunit (LS) and small subunit (SS) of ribulose-1,5-bisphosphate carboxylase [Rbu
P
2
Case; 3-phospho-D-glycerate carboxylase (dimerizing), EC 4.1.1.39] is rapidly depressed. This reduction in Rbu
P
2
Case synthesis occurs in the absence of any corresponding changes in levels of functional mRNA for either subunit. Four hours after light-to-dark transition little, if any, changes in the distribution of LS and SS mRNAs on polysomes could be detected. The association of these mRNAs with polysomes was authenticated by treatment with RNase A or puromycin. Furthermore, polysomes were able to synthesize LS and SS precursor in cell-free translation systems supplemented with inhibitors of initiation. Therefore, during a light-to-dark transition LS and SS mRNAs remained bound to polysomes but were not translated
in vivo
, suggesting that control is exercised, in part, at the translational elongation step.
Characterization of a zinc blotting technique: evidence that a retroviral gag protein binds zinc.
Authors: Schiff L A , Nibert M L , Fields B N
Published: May 2006

We have characterized a simple method that uses 65ZnCl2 to detect zinc-binding proteins that have been immobilized on nitrocellulose. Conditions have been identified that permit the detection of as little as 1 microgram of some zinc-binding proteins. The specificity of the binding is indicated by the ability of other divalent metal ions to compete with 65Zn(II) in this assay. We have used this technique to provide evidence that the nucleic acid-binding gag protein of retroviruses also binds zinc. This technique can be applied to biological mixtures of proteins and may be used in proteolytic mapping studies to identify protein fragments that have zinc-binding activity.
Three-dimensional structure of carbamoyl phosphate and succinate bound to aspartate carbamoyltransferase.
Authors: Gouaux J E , Lipscomb W N
Published: May 2006

The three-dimensional structure of the ternary complex of carbamoyl phosphate, succinate, and aspartate carbamoyltransferase (EC 2.1.3.2) has been determined to 2.6-A resolution. The binding of the phosphate of carbamoyl phosphate is similar to the binding of the phosphonate of N-(phosphonoacetyl)-L-aspartate (PALA); interacting with the carboxylates of succinate are some of the same residues that interact with the carboxylates of PALA. The amino group of carbamoyl phosphate donates hydrogen bonds to the main-chain carbonyls of residues Pro-266 and Leu-267 and the side-chain carbonyl of Gln-137. In comparing the structure of the active sites in the PALA-enzyme complex to the active sites in the carbamoyl phosphate-succinate-enzyme complex, we find that they are similar.
Escherichia coli host factor for site-specific DNA inversion: cloning and characterization of the fis gene.
Authors: Koch C , Vandekerckhove J , Kahmann R
Published: May 2006

The Escherichia coli (Es. coli) protein Fis (factor for inversion stimulation) stimulates site-specific DNA inversion of the G segment in phage Mu by binding to a recombinational enhancer. By using synthetic oligonucleotides deduced from the amino-terminal amino acid sequence, we have cloned the gene (termed fis) encoding this specific DNA-binding protein. The DNA sequence shows that the Fis protein is basic and contains 98 amino acids. A helix-turn-helix sequence motif characteristic of many DNA-binding proteins is located at the carboxyl-terminal end of the protein. By marker exchange, we have constructed an insertion mutation of fis. Fis is nonessential for Es. coli growth; however, inversion of the G segment of a Mu prophage was not detected in the fis mutant. The fis gene is located between 71 and 72 min on the Es. coli genetic map.
Human liver phosphatase 2A: cDNA and amino acid sequence of two catalytic subunit isotypes.
Authors: Arino J , Woon C W , Brautigan D L , Miller T B , Johnson G L
Published: May 2006

Two cDNA clones were isolated from a human liver library that encode two phosphatase 2A catalytic subunits. The two cDNAs differed in eight amino acids (97% identity) with three nonconservative substitutions. All of the amino acid substitutions were clustered in the amino-terminal domain of the protein. Amino acid sequence of one human liver clone (HL-14) was identical to the rabbit skeletal muscle phosphatase 2A cDNA (with 97% nucleotide identity). The second human liver clone (HL-1) is encoded by a separate gene, and RNA gel blot analysis indicates that both mRNAs are expressed similarly in several human clonal cell lines. Sequence comparison with phosphatase 1 and 2A indicates highly divergent amino acid sequences at the amino and carboxyl termini of the proteins and identifies six highly conserved regions between the two proteins that are predicted to be important for phosphatase enzymatic activity.