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At least 1,423 records · Page 79Linked to original sources
PubMed1995

Genomic structure and expression of the pyruvate, orthophosphate dikinase gene of the dicotyledonous C4 plant Flaveria trinervia (Asteraceae).

Pyruvate orthophosphate dikinase (PPDK) is a key enzyme of C4 photosynthesis providing the acceptor molecule for the primary CO2 fixation in the mesophyll cells. Here we present the isolation and characterisation of the corresponding gene (termed pdk) from the C4 plant Flaveria trinervia (Asteraceae). Southern analysis indicates that in contrast to maize pdk sequences in F. trinervia are present as single copy. Sequence analysis of the entire gene reveals that its coding sequence is identical to the previous isolated PPDK-cDNA from this species. The gene spans about 13 kb and consists of 21 exons, it thus contains two additional exons compared to the maize gene. As in maize, a long intervening sequence of 6.1 kb is positioned at the boundary of the transit peptide segment and the mature protein region. Pdk transcripts accumulate abundantly in leaves, but are also detectable in stems and roots. While the leaf and stem transcripts are 3.4 kb in size and encode the chloroplastic PPDK isoform, a 3.0 kb transcript lacking the region encoding the plastidic transit peptide accumulates in roots. Thus two different transcripts can be produced from a single pdk gene most likely by use of alternative promoters and not by alternative splicing. The accumulation of the 3.4 kb transcript is under light control. Darkening leads to a drastic depletion of this transcript in both leaves and stems. Instead, the 3.0 kb transit peptide-lacking pdk transcript accumulates, but only in stems and roots, not in leaves.

Amino Acid Sequence↗
PubMed2001

Spatial distribution of the 26S proteasome in meristematic tissues and primordia of rice (Oryza sativa L.).

The 26S proteasome is known to play central roles in the growth of many eukaryotes. However, little is known regarding its distribution in higher plants. Here, we report the spatial distribution pattern of Rpn3 (a regulatory PA700 subunit) and C2 (a subunit of the 20S proteasome) in rice ( Oryza sativa L.) seedlings as determined by in situ hybridization. The transcripts were abundantly co-expressed in the apical and marginal meristems of shoots and roots. Interestingly, these transcripts also accumulated in the leaf and ligule primordia of the shoot apex. Our results suggest that the 26S proteasome is spatially distributed among various tissues and may be involved not only in cell division but also in organ formation in higher plants.

Amino Acid Sequence↗
PubMed1994

A novel cDNA, priBc, encoding a protein with a Zn(II)2Cys6 zinc cluster DNA-binding motif, derived from the basidiomycete Lentinus edodes.

A cDNA clone (designated priBc) was isolated from a primordial cDNA library of the basidiomycete, Lentinus edodes (Le). The priBc clone consisted of 2628 bp encoding 565 amino acids. As was expected, the priB transcript was abundant in primordia, while preprimordial mycelia and mature fruiting bodies contained lower levels of this Le transcript. The deduced PRIB protein (64 kDa) contained a 'Zn(II)2Cys6 zinc cluster' DNA-binding motif. PRIB was produced in Escherichia coli using the bacteriophage T7 expression system. Southwestern blot analysis revealed that PRIB binds to the DNA fragment containing the upstream region of priB.

Amino Acid Sequence↗
PubMed2004

Collagen IV-mediated signalling is involved in progenitor Leydig cell proliferation.

In rats, during postnatal Leydig cell development, the progenitor Leydig cells (PLC) proliferate actively during days 14-21 of postnatal life. Luteinizing hormone (LH) is known to stimulate Leydig cell proliferation and oestradiol 17beta inhibits this process. In order to identify the molecules involved in Leydig cell proliferation, differentially expressed genes in proliferating and non-proliferating PLC isolated from vehicle and oestradiol 17beta-treated rats respectively, were analysed by differential display reverse transcription polymerase chain reaction (DD-RT-PCR). Results revealed that the expression of collagen IV alpha4 (Col IV alpha4), a subunit of extracellular matrix (ECM) protein collagen IV, was down regulated in PLC isolated from oestradiol 17beta-treated rats. Studies on stage specific expression of Col IV alpha4 during Leydig cell development revealed that this transcript is abundantly expressed at the stage where Leydig cell proliferation is maximal and the expression of this transcript decreased during differentiation of Leydig cells, which is associated with loss of proliferation. These observations suggest that Col IV alpha4 is important for PLC proliferation. Stimulation of PLC proliferation in vitro in the presence collagen IV provides additional support for the conclusion that collagen IV-mediated signalling is involved in PLC proliferation. Further studies revealed that active forms of focal adhesion kinase (FAK) and mitogen activated protein kinase 1/2 (MAPK 1/2), the intracellular signalling molecules that are known to mediate ECM protein signalling are present only in proliferating forms of Leydig cells and are absent in non-proliferating Leydig cells. These results suggest that collagen IV-mediated signalling is involved in PLC proliferation.

Animals↗
PubMed2003

The master regulator for entry into sporulation in Bacillus subtilis becomes a cell-specific transcription factor after asymmetric division.

Gene transcription at the onset of sporulation in Bacillus subtilis is governed by Spo0A, a member of the response regulator family of transcription factors. Spo0A is traditionally viewed as the master regulator for entry into development. We now report that Spo0A continues to function after the initiation phase of sporulation and that it becomes a cell-specific transcription factor when the sporangium is divided into a mother cell and forespore. We observed that (1) Spo0A and Spo0A-directed gene transcription reached high levels in the mother cell; (2) an activated form of Spo0A impaired sporulation when produced in the forespore but not when produced in the mother cell; and (3) an inhibitor of Spo0A called Spo0A-N impaired sporulation and Spo0A-directed transcription when produced in the mother cell but not when produced in the forespore. Spo0A-N, which corresponds to the NH(2)-terminal domain of Spo0A, was shown to compete with the full-length response regulator for phosphorylation by the phosphorelay protein Spo0B. We propose that Spo0A is the earliest-acting transcription factor in the mother-cell line of gene expression and that in terms of abundance and transcriptional activity Spo0A may function predominantly as a cell-specific regulatory protein.

Bacillus subtilis↗
PubMed2000

dCLOCK is present in limiting amounts and likely mediates daily interactions between the dCLOCK-CYC transcription factor and the PER-TIM complex.

In Drosophila melanogaster four circadian clock proteins termed PERIOD (PER), TIMELESS (TIM), dCLOCK (dCLK), and CYCLE (CYC/dBMAL1) function in a transcriptional feedback loop that is a core element of the oscillator mechanism. dCLK and CYC are members of the basic helix-loop-helix (bHLH)/PAS (PER-ARNT-SIM) superfamily of transcription factors and are required for high-level expression of per and tim and repression of dClk, whereas PER and TIM inhibit dCLK-CYC-mediated transcription and lead to the activation of dClk. To understand further the dynamic regulation within the circadian oscillator mechanism, we biochemically characterized in vivo-produced CYC, determined the interactions of the four clock proteins, and calculated their absolute levels as a function of time. Our results indicate that throughout a daily cycle the majority of the dCLK present in adult heads stably interacts with CYC, indicating that CYC is the primary in vivo partner of dCLK. dCLK-CYC dimers are bound by PER and TIM during the late evening and early morning, suggesting the formation of a tetrameric complex with impaired transcriptional activity. Although dCLK is present in limiting amounts and CYC is by far the most abundant of the four clock proteins that have been examined, PER and TIM appear to interact preferentially with dCLK. Our results suggest that dCLK is the main component regulating the daily abundance of transcriptionally active dCLK-CYC complexes.

ARNTL Transcription Factors↗
PubMed1997

The human protein p19ARF is not detected in hemopoietic human cell lines that abundantly express the alternative beta transcript of the p16INK4a/MTS1 gene.

The p16/MTS1/CDKN2 gene on human chromosome band 9p21 encodes two unrelated proteins: p16INK4a, a specific inhibitor of the cyclin D-dependent kinases CKD4 and CDK6, and the structurally unrelated p19ARF protein that arrests cell growth in G1/S and also in G2/M. By use of polyclonal antibodies, the human p19ARF (hp19ARF) protein has been identified in the nucleus of various cells including normal cultured fibroblasts. The level of this protein did not fluctuate throughout the cell cycle and was more elevated in fibroblasts with limited or arrested growth, suggesting that p19ARF accumulated in presenescent or senescent cells. Interestingly, hp19ARF was not detected in several hemopoietic tumor cell lines (mainly of B-type lymphoid origin) that expressed abundant amounts of the p16beta transcript. This finding indicates that in certain tumors, the expression of hp19ARF RNA and protein may be uncoupled. Furthermore, it suggests that disruption of a translational mechanism may be involved in the inactivation of hp19ARF.

Animals↗
PubMed1994

Molecular cloning, expression analysis, and chromosomal localization of mouse Hmg1-containing sequences.

We isolated clones encoding the mouse high-mobility-group (Hmg) chromatin protein, Hmg1, from a 7.5-day mouse embryo cDNA library. The translated amino acid sequence encodes a protein of 24,890 daltons and is identical to previously characterized mouse, rat, and hamster Hmg1. However, comparison of the two mouse Hmg1 cDNA sequences revealed nine sequence alterations. This observation, together with the finding of a complex pattern of hybridizing bands in genomic Southern analysis, suggests that mouse Hmg1 is encoded by a multigene family. The expression of Hmg1 was examined by Northern analysis of RNA isolated from the early mouse embryo and revealed a predominant 1.5-kb transcript in conjunction with low levels of a 2.5-kb transcript. Further analysis of mouse embryos by in situ hybridization showed that Hmg1 transcripts are expressed in high abundance during early mouse embryogenesis. As development progresses, Hmg1 transcript abundance is modulated in a spatially restricted and developmentally regulated manner. Chromosomal localization with recombinant inbred strains revealed that Hmg1-related sequences are widely dispersed in the mouse genome. Here we also report the mapping of six Hmg1 loci to mouse Chromosomes (Chrs) 10, 13, 16, and 17.

Animals↗
PubMed2003

Gene expression at early stages of Brassica napus seed development as revealed by transcript profiling of seed-abundant cDNAs.

Approximately 5000 plaques derived from a Brassica napus L. (canola) seed-cDNA library representing 15 days after pollination (DAP) were differentially screened for highly expressed genes at the early stages of seed development. Analysis of 104 differentially expressed sequence tags revealed 54 unique genes, of which 33 had putative homologues described in Arabidopsis thaliana (L.) Heynh. or B. napus. These encoded diverse proteins, ranging from proteins of unknown function to metabolic enzymes and proteins associated with cell structure and development. Twenty-five genes were only expressed in seeds, and 11 of these started to express as early as 5 or 10 DAP. The majority of the seed-specific genes that are expressed at early stages of seed development encoded proteins with high similarity to hypothetical Arabidopsis proteins. Tissue-specificity determined by Northern analysis revealed that four seed-specific genes were expressed only in seed coats and another five in both embryos and seed coats. Analysis of transcript profiles of seed-abundant as well as seed-specific genes, and their expression patterns, implies that the B. napus seed is undergoing an active cell proliferation during 10-20 DAP, while establishing metabolic networks for subsequent seed maturation.

Arabidopsis↗
PubMed1987

The mitochondrial genotype can influence nuclear gene expression in yeast.

Isochromosomal, respiratory-deficient yeast strains, such as a mit-, a hypersuppressive petite, and a petite lacking mitochondrial DNA, are phenotypically identical in spite of differences in their mitochondrial genomes. Subtractive hybridizations of complementary DNA's to polyadenylated RNA isolated from derepressed cultures of these strains reveal the presence of nuclear-encoded transcripts whose abundance varies not only between them and their respiratory-competent parent, but among the respiratory-deficient strains themselves. Transcripts of some nuclear-encoded mitochondrial proteins, like cytochrome c and the alpha and beta subunits of the mitochondrial adenosine triphosphatase, whose abundance is affected by glucose or heme, do not vary. In the absence of major metabolic variables, yeast cells seem to respond to the quality and quantity of mitochondrial DNA and modulate the levels of nuclear-encoded RNA's, perhaps as a means of intergenomic regulation.

Base Sequence↗
PubMed2006

Stages of germinal center transit are defined by B cell transcription factor coexpression and relative abundance.

The transit of T cell-activated B cells through the germinal center (GC) is controlled by sequential activation and repression of key transcription factors, executing the pre- and post-GC B cell program. B cell lymphoma (BCL) 6 and IFN regulatory factor (IRF) 8 are necessary for GC formation and for its molecular activity in Pax5+PU.1+ B cells. IRF4, which is highly expressed in BCL6- GC B cells, is necessary for class switch recombination and the plasma cell differentiation at exit from the GC. In this study, we show at the single-cell level broad coexpression of IRF4 with BCL6, Pax5, IRF8, and PU.1 in pre- and post-GC B cells in human and mouse. IRF4 is down-regulated in BCL6+ human GC founder cells (IgD+CD38+), is absent in GC centroblasts, and is re-expressed in positive regulatory domain 1-positive centrocytes, which are negative for all the B cell transcription factors. Activated (CD30+) and activation-induced cytidine deaminase-positive extrafollicular blasts coexpress Pax5 and IRF4. PU.1-negative plasma cells and CD30+ blasts uniquely display the conformational epitope of IRF4 recognized by the MUM1 Ab, an epitope that is absent from any other IRF4+PU.1+ lymphoid and hemopoietic subsets. Low grade B cell lymphomas, representing the malignant counterpart of pre- and post-GC B cells, accordingly express IRF4. However, a fraction of BCL6+ diffuse large B cell lymphomas express IRF4 bearing the MUM1 epitope, indicative of a posttranscriptional modification of IRF4 not seen in the normal counterpart.

Animals↗
PubMed1997

Equine inhibin/activin beta A-subunit mRNA is expressed in the endometrial gland, but not in the trophoblast, during pregnancy.

The expression of both inhibin alpha- and inhibin/activin beta A-subunit mRNA was examined in equine uteroplacental tissues collected during pregnancy (days 90 to 300). Northern blot analysis revealed that 5 transcripts (7.0, 4.1, 3.4, 2.6, 1.5 kb) of beta A-subunit were present, and the most abundantly expressed transcript was the 1.5 kb one. Relatively high levels of the 1.5 kb transcript were seen in the second trimester of pregnancy compared to what was found in the third trimester. To identify the tissue localization of beta A-subunit mRNA, in situ hybridization was performed, and the positive signal was observed exclusively in the endometrial glands, but not in the fetal placental tissue (trophoblast) at days 150, 210, and 300 of pregnancy. On the other hand, inhibin alpha-subunit transcript could not be detected at any stage of pregnancy examined either by Northern blot analysis or in situ hybridization. Although the factor(s) regulating the gene expression of beta A-subunit in this equine tissue is currently unknown, these results suggest that activin, but not inhibin, is predominantly produced in the endometrial glands of the pregnant mare, and thus produced activin may play a paracrine or endocrine role during pregnancy in this species.

Animals↗
PubMed1987

The tko locus, site of a behavioral mutation in D. melanogaster, codes for a protein homologous to prokaryotic ribosomal protein S12.

The tko (technical knockout) mutation is one of a family of behavioral mutations that cause "bang sensitivity" in D. melanogaster. Using P-element-mediated transformation, we show that a 3.1 kb piece of genomic DNA complements tko. This fragment contains only one complete transcript, 0.68 kb in length. This transcript is abundantly expressed through all stages of the life cycle, and we have isolated cDNAs corresponding to this transcript. Their sequence implies a protein product composed of 140 amino acids, which exhibits considerable sequence similarity to ribosomal protein S12 from both Euglena gracilis chloroplasts and E. coli. We suggest that tko codes for a mitochondrial ribosomal protein and that the tko phenotype results from defective mitochondria.

Amino Acid Sequence↗
PubMed2002

Empty pericarp2 encodes a negative regulator of the heat shock response and is required for maize embryogenesis.

The heat shock response (HSR) is an evolutionarily conserved molecular/biochemical reaction to thermal stress that is essential to the survival of eukaryotic organisms. Recessive Mutator transposon mutations at the maize empty pericarp2 (emp2) locus led to dramatically increased expression of heat shock genes, retarded embryo development, and early-stage abortion of embryogenesis. The developmental timing of emp2 mutant embryo lethality was correlated with the initial competence of maize kernels to invoke the HSR. Cloning and sequence analyses revealed that the emp2 gene encoded a predicted protein with high similarity to HEAT SHOCK BINDING PROTEIN1, which was first described in animals as a negative regulator of the HSR. emp2 is a loss-of-function mutation of an HSR-negative regulator in plants. Despite the recessive emp2 phenotype, steady state levels of emp2 transcripts were abundant in mutant kernels, and the predicted coding region was unaffected. These expression data suggest that emp2 transcription is feedback regulated, whereas S1 nuclease mapping suggests that emp2 mutant transcripts are 5' truncated and nontranslatable. In support of this model, immunoblot assays revealed that EMP2 protein did not accumulate in mutant kernels. These data support a model whereby an unattenuated HSR results in the early abortion of emp2 mutant embryos. Furthermore, the developmental retardation of emp2 mutant kernels before the HSR suggests an additional role for EMP2 during embryo development distinct from the HSR.

5' Untranslated Regions↗
PubMed1990

Growth factor and proto-oncogene expression in psoriasis.

The expression of several proto-oncogenes and growth factors was analyzed in normal skin and psoriatic lesions by RNA blot hybridization. Isolation of intact RNA from frozen biopsy samples required immediate exposure to denaturants during tissue homogenization. Lipocortin II and cyclophilin transcripts were used as internal controls. These transcripts were abundant and slightly but significantly elevated in psoriatic lesions. When results were normalized according to these reference transcripts, there was no increase in the expression of c-myc, c-Ha-ras, c-erbB (EGF receptor), c-jun, or transforming growth factor-beta (TGF-beta) transcripts in psoriatic lesions, and lesional c-fos transcripts were decreased relative to normal skin. In contrast, expression of TGF-alpha mRNA transcripts were markedly increased in psoriatic lesions even after normalization. Placement of normal or psoriatic tissue in organ culture for 2 to 4 h resulted in strong induction of c-fos, c-jun, and c-myc transcripts, but not of the other genes studied. Thus, overexpression of proto-oncogenes may be more characteristic of the epidermal response to acute injury than of the steady-state hyperplasia characteristic of psoriasis. Interferon-gamma (IFN-gamma) increased TGF-alpha mRNA levels in cultured human KC at long time intervals (24-48 h). However, of various cytokines tested, only EGF and TGF-alpha induced TGF-alpha mRNA after short time intervals (2-4 h). These results as well as the selective overabundance of TGF-alpha mRNA in psoriatic lesions among various cytokines tested suggest that activation of the EGF receptor tyrosine kinase by TGF-alpha is important in the pathogenesis of psoriatic epidermal hyperplasia.

ErbB Receptors↗
PubMed1995

Cloning, nucleotide sequence, and transcriptional analysis of the Pediococcus acidilactici L-(+)-lactate dehydrogenase gene.

Recombinant plasmids containing the Pediococcus acidilactici L-(+)-lactate dehydrogenase gene (ldhL) were isolated by complementing for growth under anaerobiosis of an Escherichia coli lactate dehydrogenase-pyruvate formate lyase double mutant. The nucleotide sequence of the ldhL gene predicted a protein of 323 amino acids showing significant similarity with other bacterial L-(+)-lactate dehydrogenases and especially with that of Lactobacillus plantarum. The ldhL transcription start points in P. acidilactici were defined by primer extension, and the promoter sequence was identified as TCAAT-(17 bp)-TATAAT. This sequence is closely related to the consensus sequence of vegetative promoters from gram-positive bacteria as well as from E. coli. Northern analysis of P. acidilactici RNA showed a 1.1-kb ldhL transcript whose abundance is growth rate regulated. These data, together with the presence of a putative rho-independent transcriptional terminator, suggest that ldhL is expressed as a monocistronic transcript in P. acidilactici.

Amino Acid Sequence↗
PubMed1995

Wilms' tumor protein WT1 as an ovarian transcription factor: decreases in expression during follicle development and repression of inhibin-alpha gene promoter.

WT1, a gene deleted in some Wilms' tumors, encodes a transcription factor with zinc fingers and shares homology with proteins in the early growth response gene family. Although defects in the WT1 gene are associated with nephroblastoma and genitourinary malformation, the specific function of WT1 in the gonads remains unclear. We investigated the expression of WT1 transcripts in rat ovary during follicle development by Northern blotting, RNase protection assay, and in situ hybridization. Abundant WT1 transcripts were found in the ovary, testis, uterus, and kidney, with lower levels in the heart and pancreas. Treatment with estrogen or gonadotropins did not affect the concentration of ovarian WT1 mRNA. In situ hybridization analysis indicated that ovarian WT1 mRNA is expressed exclusively in the surface epithelium and granulosa cells of primordial, primary, and secondary follicles, and its levels decrease during follicle growth. Although RNase protection assay suggested the presence of four alternatively spliced forms of WT1 mRNA, the ratio of these transcripts remains constant during ovarian growth. Developmental changes in the expression of two granulosa cell differentiation marker genes, inhibin-alpha and FSH receptor, were found to be inversely correlated with WT1 levels. Because potential WT1-binding sites were found in the promoter of inhibin-alpha gene, we further tested whether WT1 might regulate the expression of this gene. Cotransfection of a WT1 expression vector with a promoter reporter plasmid of inhibin-alpha resulted in the repression of promoter activities in CHO cells in a dose-dependent manner. These results suggest that WT1 is expressed in high levels in granulosa cells of primordial, primary, and secondary follicles but decreases with follicle development. This transcription factor might be a repressor of ovarian differentiation genes in the granulosa cells and play a role in arresting the differentiation of immature follicles.

Animals↗
PubMed1987

Mitochondrial and cytoplasmic fumarases in Saccharomyces cerevisiae are encoded by a single nuclear gene FUM1.

Respiratory defective pet mutants of Saccharomyces cerevisiae assigned to complementation group G5 are deficient in fumarase. A representative mutant from this complementation group was used to clone a nuclear gene (FUM1) whose sequence encodes a protein homologous to bacterial fumarase. Based on the primary structure homology and the elevated levels of fumarase in transformants harboring FUM1 on a multicopy plasmid, this gene is concluded to code for yeast fumarase. In wild type yeast, fumarase is detected in both mitochondria and the soluble postribosomal protein fraction. Several lines of evidence indicate that the two compartmentally distinct fumarases are isoenzyme products of FUM1. Mutations in FUM1 simultaneously abolish both activities. Transformation of a fumarase mutant with a plasmid containing FUM1 leads to increased fumarase activity in mitochondria and in the postribosomal supernatant fraction. Transformation of the same mutant with a plasmid construct in which the region of FUM1 coding for the amino-terminal 17 amino acids of fumarase is deleted results in a preferential increase of nonmitochondrial fumarase. Northern and S1 nuclease analysis of fumarase transcripts in wild type yeast and in a mutant transformed with FUM1 on an episomal plasmid indicate that the gene is transcribed from multiple start sites, some of which are located inside the coding sequence. The major transcript presumed to code for mitochondrial fumarase has a 5'-untranslated leader of 185 nucleotides. The most abundant shorter transcripts have 5' termini from 57 to 68 nucleotides downstream of the first ATG; their translation products lacking the amino-terminal mitochondrial import signal are proposed to target fumarase to the cytoplasm.

Amino Acid Sequence↗