ABSTRACT
The NAC family is an important transcription factor which regulate plant growth and development， signal transduction， and stress response.In this study， the protein identification， subfamily classification， the determination of physical and chemical properties， protein structure， and expression pattern of NAC family were performed using bioinformatic methods based on the RNA-seq data of ginger. The results showed that a total of 72 NAC transcription factors were identified in 271.1 Mb total nucleotides， and they could be clustered into 13 subfamilies according to the phylogenetic tree.The physical and chemical properties， structure analysis revealed that the amino acid number and isoelectric point were different among 13 NAC subfamilies; the secondary structure of NACs transcription factors mainly consist of random coil， and the tertiary structure is similar.In addition，the expression patterns of genes under different soil moisture and Ralstonia solanacearum infection showed that 23 NACs were differentially expressed， which were mainly distributed in Ⅷ，Ⅶ， and ⅩⅤ subfamilies related to plant senescence， hormone metabolism and cell wall metabolism.The results provide some valuable information for the research and development of NAC transcription factors in ginger.
Subject(s)
Gene Expression Regulation, Plant , Zingiber officinale , Genetics , Multigene Family , Phylogeny , Plant Proteins , Genetics , Protein Structure, Tertiary , RNA, Plant , Genetics , Sequence Analysis, RNA , Transcription Factors , GeneticsABSTRACT
El estudio del perfil de expresión génica en las células eucariotas se constituye como una herramienta importante en el entendimiento de las huellas moleculares generadas en respuesta a un estímulo farmacológico. A partir de Petiveria alliacea, una de las plantas colombianas con actividad antitumoral, se ha obtenido la fracción FAST 8 7:3, en la cual se han encontrado diferentes compuestos, como el trisulfuro de dibencilo, uno de los componentes antitumorales más potentes reportados para la planta. Esta fracción también posee actividad citotóxica sobre la línea de células tumorales K562 e induce cambios en el perfil de expresión de genes, que podrían estar relacionados de alguna forma con la actividad antitumoral tradicional reportada para esta planta. Esta actividad puede ser ejercida, en parte, por la presencia del trisulfuro de dibencilo y por la actividad de los otros componentes de la fracción. En este contexto, proponemos el uso del ADNc-AFLP como herramienta útil en la tamización del perfil de genes transcritos en las células tumorales y, también, como herramienta útil para el descubrimiento de nuevos fármacos antitumorales...
Abstract Gene expression profile in eukaryotic cells is a very useful tool to understand the molecular footprint responsible for the pharmacological response to a stimulus. In the present study a fraction named FAST 8 (7:3), obtained from Petiveria alliacea, was used as stimulus to track out the gene expression profile on K562 cell line. P. alliacea is a plant that grows in Colombia, and in traditional medicine is used for its anti-tumoral activity. Of the different compounds present in the fraction, dibenzyl trisulfide (DTS), is a compound described by previous reports to have anti-tumoral properties. The fraction exhibits cytotoxic activity over tumor cell line K562 inducing changes in gene expression profile. DTS might be in part responsible for the fraction activity, but the other compounds may also contribute to the biological response. Herein, we propose the use of cDNAAFLP as a useful tool for gene expression profile screening of tumoral cells and in the discovery of new anti-tumoral drugs...
Subject(s)
Eukaryotic Cells , Pharmaceutical PreparationsABSTRACT
Objective To detect the differential expression genes(DEGs)between Barrettg esophagus(BE)and normal esophagus with oligomicroarray,and to explore the target genes related to the development of BE.Methods The total RNAs of matched BE and normal esophagus mucosa from saIne patient were isolated with one step Trizol method.Matched RNAs were qualified with 10g/L agarose gel electrophoresis.After tRNA purification,cRNAs were synthesized and labeled with fluorescence.which were tIlen hybridized with Agilent oligomicroarray containing 30,968 probes.The fluorescence intensity features were detected by Agilent scanner and quantified by software Feature Extraction.Results On average,2 biopsies by disposable jumbo biopsy forceps provided approximately 5μg RNA required for microarray.The total RNA,reverse transcription product and fluorescence labeled cRNA were all of high quality.Among 2-fold DEGs,there were 142 up-regulated genes and 284 down-regulated genes including 15 bel-2 related genes such as bel-2,MCL1,BAX,BIK and BCLAF1 Conclusion Microarray-based studies are feasible in endoscopically obtained tissues.The development of BE is a complicated process involving multi-genes,in which abnormal expression of bel-2 family related genes might be involved,but the exact mechanism needs further research.
ABSTRACT
AIM:To investigate a profile of gene differential expression in deficiency of spleen-QI syndrome(DSQ)patients.METHODS:4 DSQ patients and 4 healthy volunteers were selected.The gastric mucosa was taken to extract total RNA.The matched samples were hybridized on the gene chip.The fluorescent signals were scanned,the ratio of fluorescent value,the analysis of bioinformatics and t-test were also applied.Related genes were detected by real-time quantitated PCR.RESULTS:Between two groups,54 genes differentially expressed and 72.2% of them were down regulated.45 were genes about metabolism of nutrient substance and immunological regulation,and 71.1% were down regulated.4 had significant difference.Of 5 applied by real-time PCR,4 accorded with the results of the gene chip.CONCLUSION:The differentially expressed genes of DSQ patients are significantly down regulated,especially the genes involved in metabolism of nutrient substance and immunological regulation.