scholarly journals Gene expression profile in rat pancreatic islet and RINm5F cells

2005 ◽  
Vol 35 (1) ◽  
pp. 1-12 ◽  
Author(s):  
H Wang ◽  
Y Horikawa ◽  
L Jin ◽  
T Narita ◽  
S Yamada ◽  
...  
Keyword(s):  
Pancreatic Islet ◽  
Expression Profile ◽  
Large Scale ◽  
Expressed Sequence Tag ◽  
Homology Search ◽  
Cdna Libraries ◽  
Rinm5f Cells ◽  
Disease States ◽  
Blast Database ◽  
Rat Pancreatic Islet

To clarify tissue-specificity of pancreatic β cells, comparison of mRNA expression in various conditions of the tissue of multiple organisms is important. Although the developed methodologies for mRNA monitoring such as microarray, rely on the growth of dbEST (database of expressed sequence tag), a large number of unknown genes in the genome, especially in the rat, have not been shown to be expressed. In this study, we have established the first database of ESTs from rat pancreatic islet and RINm5F cells. Two cDNA libraries were constructed using mRNAs from rat pancreatic islet and RINm5F cells to cover a wider spectrum of expressed genes. Over 40 000 clones were randomly selected from the two libraries and partially sequenced. The sequences obtained were subjected to BLAST database analyses. This large-scale sequencing generated 40 710 3′-ESTs. Clustering analysis and homology search of nucleotide and peptide databases using both 3′- and 5′-ESTs revealed 10 406 non-redundant transcripts representing 4078 known genes or homologs and 6328 unknown genes. To confirm actual expression, the unknown sequences were further subjected to dbEST search, resulting in the identification of 5432 significant matches to those from other sources. Interestingly, of the remaining sequences showing no match, 779 were found to be encoded by exon–intron organization in the corresponding genomic sequences, suggesting that these are newly found as actually expressed in this study. Since many genes are up- or down-regulated in differing conditions, applications of the expression profile should facilitate identification of the genes involved in cell-specific functions in normal and disease states.

Cadherin-mediated adhesion in pancreatic islet cells is modulated by a cell surface N-acetylgalactosaminylphosphotransferase

1992 ◽  
Vol 103 (4) ◽  
pp. 1235-1241 ◽  
Author(s):  
G.E. Bauer ◽  
J. Balsamo ◽  
J. Lilien
Keyword(s):  
Cell Adhesion ◽  
Cell Surface ◽  
Pancreatic Islet ◽  
Islet Cells ◽  
Pancreatic Islet Cells ◽  
Rinm5f Cells ◽  
Pancreatic Islet Cell ◽  
A Cell ◽  
Rat Pancreatic Islet ◽  
Cell Cell

Rat pancreatic islet cells and RINm5F cells, an islet derived cell line, have at their cell surface an N-acetylgalactosaminylphosphotransferase (GalNAcPTase) similar to that found at the surface of chick neural retina cells and at the rat neuromuscular junction. On islet cells and RINm5F cells the GalNAcPTase is stably associated with cadherin cell-cell adhesion molecules. The effect of antibodies directed against the GalNAcPTase on homophilic, cadherin mediated adhesion was analyzed by measuring their effect on adhesion of islet and RINm5F cells to an immobilized anti-cadherin antibody. In this experimental paradigm anti-GalNAcPtase antibodies completely inhibit cadherin mediated adhesion. Furthermore, cadherin and GalNAcPTase co-distribute in islet and non-islet tissue. We conclude that pancreatic islet cell-cell adhesion is cadherin mediated and under the control of a tightly associated, cell surface GalNAcPTase.

scholarly journals Comparative Transcriptomic and Proteomic Analyses of Trichomonas vaginalis following Adherence to Fibronectin

2012 ◽  
Vol 80 (11) ◽  
pp. 3900-3911 ◽  
Author(s):  
Kuo-Yang Huang ◽  
Po-Jung Huang ◽  
Fu-Man Ku ◽  
Rose Lin ◽  
John F. Alderete ◽  
...  
Keyword(s):  
Batch Culture ◽  
Trichomonas Vaginalis ◽  
Large Scale ◽  
Expressed Sequence Tag ◽  
Morphological Changes ◽  
Cdna Libraries ◽  
Morphological Transformation ◽  
Content Type ◽  
Est Library ◽  
Expression Of Genes

ABSTRACTThe morphological transformation ofTrichomonas vaginalisfrom an ellipsoid form in batch culture to an adherent amoeboid form results from the contact of parasites with vaginal epithelial cells and with immobilized fibronectin (FN), a basement membrane component. This suggests host signaling of the parasite. We applied integrated transcriptomic and proteomic approaches to investigate the molecular responses ofT. vaginalisupon binding to FN. A transcriptome analysis was performed by using large-scale expressed-sequence-tag (EST) sequencing. A total of 20,704 ESTs generated from batch culture (trophozoite-EST) versus FN-amoeboid trichomonad (FN-EST) cDNA libraries were analyzed. The FN-EST library revealed decreased amounts of transcripts that were of lower abundance in the trophozoite-EST library. There was a shift by FN-bound organisms to the expression of transcripts encoding essential proteins, possibly indicating the expression of genes for adaptation to the morphological changes needed for the FN-adhesive processes. In addition, we identified 43 differentially expressed proteins in the proteomes of FN-bound and unbound trichomonads. Among these proteins, cysteine peptidase, glyceraldehyde-3-phosphate dehydrogenase (an FN-binding protein), and stress-related proteins were upregulated in the FN-adherent cells. Stress-related genes and proteins were highly expressed in both the transcriptome and proteome of FN-bound organisms, implying that these genes and proteins may play critical roles in the response to adherence. This is the first report of a comparative proteomic and transcriptomic analysis after the binding ofT. vaginalisto FN. This approach may lead to the discovery of novel virulence genes and affirm the role of genes involved in disease pathogenesis. This knowledge will permit a greater understanding of the complex host-parasite interplay.

scholarly journals Construction and Evaluation of cDNA Libraries for Large-Scale Expressed Sequence Tag Sequencing in Wheat (Triticum aestivumL.)

Genetics ◽  
2004 ◽  
Vol 168 (2) ◽  
pp. 595-608 ◽  
Author(s):  
D. Zhang ◽  
D. W. Choi ◽  
S. Wanamaker ◽  
R. D. Fenton ◽  
A. Chin ◽  
...  
Keyword(s):  
Large Scale ◽  
Expressed Sequence Tag ◽  
Cdna Libraries ◽  
Expressed Sequence

scholarly journals In Silico Identification and Functional Characterization of Conserved miRNAs in the Genome of Cryptosporidium parvum

2021 ◽  
Vol 15 ◽  
pp. 117793222110276
Author(s):  
Md. Irtija Ahsan ◽  
Md. Shahidur Rahman Chowdhury ◽  
Moumita Das ◽  
Sharmin Akter ◽  
Sawrab Roy ◽  
...  
Keyword(s):  
Cryptosporidium Parvum ◽  
Target Genes ◽  
Expressed Sequence Tag ◽  
Functional Characterization ◽  
Childhood Mortality ◽  
Homology Search ◽  
Health Concern ◽  
Nutrient Metabolism ◽  
Screening Process ◽  
Computational Screening

Cryptosporidium parvum, a predominant causal agent of a fatal zoonotic protozoan diarrhoeal disease called cryptosporidiosis, bears a worldwide public health concern for childhood mortality and poses a key threat to the dairy and water industries. MicroRNAs (miRNAs), small but powerful posttranscriptional gene silencing RNA molecules, regulate a variety of molecular, biological, and cellular processes in animals and plants. As to the present date, there is a paucity of information regarding miRNAs of C. parvum; hence, this study was used to identify miRNAs in the organism using a comprehensible expressed sequence tag–based homology search approach consisting of a series of computational screening process from the identification of putative miRNA candidates to the functional annotation of the important gene targets in C. parvum. The results revealed a conserved miRNA that targeted 487 genes in the model organism ( Drosophila melanogaster) and 85 genes in C. parvum, of which 11 genes had direct involvements in several crucial virulence factors such as environmental oocyst protection, excystation, locomotion, adhesion, invasion, stress protection, intracellular growth, and survival. Besides, 20 genes showed their association with various major pathways dedicated for the ribosomal biosynthesis, DNA repair, transportation, protein production, gene expression, cell cycle, cell proliferation, development, immune response, differentiation, and nutrient metabolism of the organism in the host. Thus, this study provides a strong evidence of great impact of identified miRNA on the biology, virulence, and pathogenesis of C. parvum. Furthermore, the study suggests that the detected miRNA could be a potential epigenomic tool for controlling the protozoon through silencing those virulent and pathway-related target genes.

Sign in / Sign up

Export Citation Format

Share Document