ABSTRACT: To identify salt-resistant related genes by histone deacetylase inhibitor Ky-2, expression profiles between plants treated with or without Ky-2 under salt stress were analyzed using the custom microarray (GPL20781). Wild-type plants (Arabidopsis thaliana ecotype Columbia) were grown on 1/2 MS 0.1 % Agar medium for four days. Then, the plants were administrated to Ky-2 for 24 hours and then treated 100 mM Nacl for two hours. Expression profiles were analyzed using the custom array (GPL20781).
Project description:To identify salt-resistant related genes by histone deacetylase inhibitor Ky-2, expression profiles between plants treated with or without Ky-2 under salt stress were analyzed using the custom microarray (GPL20781). Overall design: Wild-type plants (Arabidopsis thaliana ecotype Columbia) were grown on 1/2 MS 0.1 % Agar medium for four days. Then, the plants were administrated to Ky-2 for 24 hours and then treated 100 mM Nacl for two hours. Expression profiles were analyzed using the custom array (GPL20781).
Project description:To identify RDR1/2/6-dependent antisense RNA loci under 2hr drought stress and 2hr rehydration, expression profiles of Poly (A+) RNA between rdr1/2/6 and wild-type using the custom microarray (GPL19830) were analyzed. rdr1/2/6 and wild-type plants (Arabidopsis thaliana ecotype Columbia) were grown on MS medium for 2 weeks. Then, the plants were transferred to plastic dish and kept for 2hr. Poly (A+) RNA from 100μg total RNA by treating with Ambion Poly A purist twice.5 ng of Poly (A+) RNA were used for the expresion profiling using the custom array (GPL19830).
Project description:To identify RDR1/2/6-dependent antisense RNA loci under 2hr drought stress, expression profiles of Poly (A+) RNA and Poly (A-) RNA between rdr1/2/6 and wild-type using the custom microarray (GPL19830) were analyzed. rdr1/2/6 and wild-type plants (Arabidopsis thaliana ecotype Columbia) were grown on MS medium for 2 hours. Then, the plants were transferred to plastic dish and kept for 1 week. Poly (A+) RNA and Poly (A-) fractions were separated from 100μg total RNA by treating with Ambion Poly A purist twice. Poly (A-) RNA sample was prepared by depleting rRNA using Invitrogen RiboMinus Plant Kit. 5 ng of Poly (A+) RNA and 1.4 μg of Poly (A-) RNA samples were used for the expression profiling using the custom array (GPL19830).
Project description:To analyze the molecular function of HDAC inhibitors in salt stress responses in Arabidopsis, we conducted microarray analysis using 4-day-old plants, which were treated with 1 μM Ky-9 or Ky-72 or water for 24 h, and then treated with or without 100 mM NaCl for 2 h Overall design: Microarray analysis was conducted using HDAC inhibitors-treated and non-treated plants subjected to non-stress and salt-stress condition for 2 h.
Project description:To understand the role of cytokinins (CKs) in salt stress response, we have employed transcriptional profiling of the CK-deficient mutant, ipt1,3,5,7 and wild type plant, Col-0 under high salinity and control conditions to identify genes differentially expressed in ipt1,3,5,7 under salt stress and control conditions. Agilent's Whole Arabidopsis Gene Expression Microarray (G2519F, V4, 4x44K) was used. 10-d-old plants grown on GM medium (22ºC, 16-h-light/8-h-dark) were transfered onto 1/2 MS agar plates without sucrose containing either 0 or 200 mM NaCl. Independent biological samples, 10 plants/each biological replicate, were collected after 24 hours. Total RNA was prepared and used for the microarray hybridization. Three replicative hybridization experiments were carried out for each independent biological sample.
Project description:NK cells develop in the bone marrow and complete their maturation in peripheral organs, but the molecular events controlling maturation are incompletely understood. Utilizing an NK cell-specific miR-15/16 deficient genetic model (15aKO), we identified a critical role for miR-15/16 family microRNAs in the normal maturation of NK cells in vivo, with a specific reduction in mature CD11b+CD27- NK cells in multiple tissues. The mechanism responsible was a block in differentiation, since accelerated NK cell death was not evident, and earlier intermediates of NK cell maturation were expanded. Further, we identified Myb as a direct target of miR-15/16 in NK cells, with Myb expression increased in immature 15aKO NK cells. Following adoptive transfer, immature 15aKO NK cells exhibited defective maturation, which was rescued by ectopic miR-15/16 expression or Myb knockdown. Moreover, Myb overexpression resulted in defective NK cell maturation. Thus, miR-15/16 regulation of Myb controls the normal NK cell maturation program. KY-1 and KY-2 cell lines overexpressing c-Myb
Project description:To understand affected genes by overexpression of origouridylate binding protein 1b (UBP1b) under heat stress conditions, transcriptional profiling of UBP1box and control plants were analyzed under normal and heat stress (40°C) conditions using Arabidopsis custom microarrays. Microarray analysis was conducted using UBP1b-ox and Venus control plants subjected to non-stress and heat-stress condition for 1 h.
Project description:Arabidopsis thaliana is a glycophyte with a low salt tolerance, while Eutrema is a halophyte with a very high salt tolerance. To elucidate the transcriptional basis of this difference, we performed hydroponis culture experiments where we grew plants under control conditions (25 mM NaCl) or under salt stress (200 mM NaCl for both species, 500 mM for Eutrema). Salt concentration was increased for the stress treatments by increments of 50 mM per day (25 mM on the first day). Plants were grown at the final NaCl concentration for an additional week, when rosettes were harvested for RNA isolation.Expression patterns were compared between treatments and between species. In total, 15 samples were hybridized. They were derived from three independent biological experiments (replicate_1 to replicate_3). Controlds were grown at 25 mM NaCl, salt stressed plants at either 200 mM NaCl or 500 mM NaCl.
Project description:Plant basic helix-loop-helix (bHLH) transcription factors are involved in physiological and developmental processes, and also play essential roles in abiotic stresses. However, their exact roles in abiotic stress are still need to be elucidated, and most of bHLHs have not been functionally characterized. In the present study, we characterized the functional role of AtbHLH112 in response to abiotic stresses. AtbHLH112 is a nuclear-localized protein, and its nuclear-localization is induced by salt, drought and ABA. Besides binding to E-box motif, AtbHLH112 is found to bind to a novel motif with the sequence “GG[GT]CC[GT][GA][TA]C” (GCG-box), and the binding affinity is induced by salt and ABA. Gain- and loss-of-function analyses showed that the transcript level of AtbHLH112 is positively correlated with salt and drought tolerance. AtbHLH112 mediates stress tolerance by upregulating the expression of P5CS genes and decreasing the expression of P5CDH and PRODH genes to increase proline levels, and via enhancing the expression of POD and SOD genes to improve ROS scavenging ability. All data together suggested that AtbHLH112 regulates the expression of genes through binding to GCG-box and E-box to mediate the physiological stress responses, including proline biosynthesis and ROS scavenging pathways to enhance stress tolerance. Differentially expression genes of AtbHLH112-overexpression plants, mutant (SALK_033618C) plants and wild type of Columbia Arabidopsis thaliana were measured under salt stressed and normal condition for 3 hours, respectively. Three independent experiments were performed at each treatment using different plants for each experiment.