UV-B regulation of microRNAs in maize
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ABSTRACT:
ORGANISM(S): Triticum aestivum Solanum lycopersicum Brassica napus Physcomitrium patens Populus trichocarpa Medicago truncatula Gossypium hirsutum Oryza sativa Selaginella moellendorffii Zea mays Arabidopsis thaliana Glycine max Vitis vinifera Pinus taeda Sorghum bicolor Saccharum officinarum
PROVIDER: GSE19768 | GEO | 2013/10/31
SECONDARY ACCESSION(S): PRJNA121849
REPOSITORIES: GEO
Similar Datasets
Project description:Differential expression of microRNAs was studied in maize leaves after an 8-h-exposure under UV-B light. As a control, plants were kept in the greenhouse in the absence of UV-B 4-week maize plants were grown in the greenhouse in the absence of UV-B. Then, they were divided in two groups. One group was treated with UV-B lights provided once for 8 h, starting 3 h after the beginning of the light period, using fixtures mounted 30 cm above the plants (Phillips, F40UVB 40 W and TL 20 W/12) at a UV-B intensity of 2 W m-2, UV-A: 0.65 W m-2. The bulbs were covered with cellulose acetate to exclude wavelengths <280 nm. For the second control group, plants were exposed for 8 h under the same lamps covered with polyester film (no UV-B treatment, UV-B: 0.04 W m-2, UV-A: 0.4 W m-2). Lamp output was recorded using a UV-B/UV-A radiometer (UV203 A+B radiometer, Macam Photometrics, Ltd, Livingston, UK) to insure that both the bulbs and filters provided the designated UV dosage in all treatments. Leaf samples were collected immediately after irradiation. RNA was extracted immediately after the treatments, and used for the microRNA microarray experiments.
2013-10-31 | E-GEOD-19768 | biostudies-arrayexpress
Project description:This study looked for signals produced in UV-B irradiated leaves, and possibly induced in shielded leaves, that modulate physiological responses in maize. Transcriptome and proteomics profiling tracked changes in exposed and shielded organs. Metabolic profiling was examined for signaling molecules. Exposure of just the top leaf substantially alters the transcriptome of both irradiated and shielded organs, with greater changes as an additional 1-2 leaves are irradiated. Transcriptome, proteome and metabolome changes are UV-B regulated in shielded organs. Early steps in signal transduction and possible signal molecules are identified utilizing a time course experiment. Keywords: UVB, maize, leaves, ears
2011-02-01 | GSE25038 | GEO
Project description:To initiate a genomic scale analysis of high altitude maize, we performed expression-profiling experiments using Unigene I cDNA arrays from the Maize Gene Discovery Project that contain 5664 cDNAs printed in triplicate spots; a triplicate set for nearly all cDNAs was printed in at least one additional location on each slide, thus there is a minimum of 6 spots for each cDNA per slide. Four-week-old maize plants grown in the field under the three irradiation regimes no UV-B, solar UV-B or UV-B supplemental were used for the experiments. Samples were collected from adult leaves 9 and 10; samples from 6 plants were pooled for preparation of poly(A)+ RNA. Keywords: parallel sample
2005-01-20 | GSE1807 | GEO
Project description:This study looked for signals produced in UV-B irradiated leaves, and possibly induced in shielded leaves, that modulate physiological responses in maize. Transcriptome and proteomics profiling tracked changes in exposed and shielded organs. Metabolic profiling was examined for signaling molecules. Exposure of just the top leaf substantially alters the transcriptome of both irradiated and shielded organs, with greater changes as an additional 1-2 leaves are irradiated. Transcriptome, proteome and metabolome changes are UV-B regulated in shielded organs. Early steps in signal transduction and possible signal molecules are identified utilizing a time course experiment. Keywords: UVB, maize, leaves, ears Compared irradiated leaves in a time course, irradiated leaves versus shielded leaves, and shielded ears on plants with irradiated leaves. Also compared different number of leaves being irradiated. Spike-in controls were included.
2011-02-01 | E-GEOD-25038 | biostudies-arrayexpress
Project description:This study looked for early response signals produced in UV-B irradiated leaves and induced in shielded leaves and shielded ears that modulate physiological responses in maize. Transcriptome profiling tracked changes in exposed and shielded organs. Metabolic profiling was examined for signaling molecules. The top 2 leaves were exposed to 10, 30, or 60 minutes of ~3x normal UV-B and then tissue samples were taken from all 3 tissue types. Over 250 transcripts are differentially expressed at least 2 fold in irradiated leaves by 10 min of UV-B. At 30 min this decreased to ~150 then increased to over 500 transcripts at 60 min. Different pathways are affected at the various time exposures and specific responses are modulated by the time of exposure. Shielded leaves had a smaller number of transcripts affected at each time point but over 60% were in common with the irradiated leaves results at 10 min. and ~20% overlaps were found at 30 and 60 min. Metabolite samples were analyzed after 5, 10, 15, 30, and 90 min of UV-B. We identified 14 compounds with a statistically significant change from untreated plants in at least one time point.
2011-07-31 | GSE30278 | GEO
Project description:This study looked for early response signals produced in UV-B irradiated leaves and induced in shielded leaves and shielded ears that modulate physiological responses in maize. Transcriptome profiling tracked changes in exposed and shielded organs. Metabolic profiling was examined for signaling molecules. The top 2 leaves were exposed to 10, 30, or 60 minutes of ~3x normal UV-B and then tissue samples were taken from all 3 tissue types. Over 250 transcripts are differentially expressed at least 2 fold in irradiated leaves by 10 min of UV-B. At 30 min this decreased to ~150 then increased to over 500 transcripts at 60 min. Different pathways are affected at the various time exposures and specific responses are modulated by the time of exposure. Shielded leaves had a smaller number of transcripts affected at each time point but over 60% were in common with the irradiated leaves results at 10 min. and ~20% overlaps were found at 30 and 60 min. Metabolite samples were analyzed after 5, 10, 15, 30, and 90 min of UV-B. We identified 14 compounds with a statistically significant change from untreated plants in at least one time point. Compared transciptomes of irradiated leaves, shielded leaves, and shielded ears from plants whose top 2 leaves were exposed to ~3x normal UV-B for 10, 30, and 60 minutes.
2011-07-30 | E-GEOD-30278 | biostudies-arrayexpress
Project description:Additional to GSE1807 A comparative analysis, by expression profiling of maize, was performed to identify novel components in the mechanisms of maize responses to UV-B. Five high-altitude landraces grown from 2,000 to 3,400 m naturally receive higher UV-B fluence than plants at lower altitudes and similar latitudes. These high-altitude landraces were compared directly with a low-altitude line and with literature reports for other temperate maize lines. A microarray analysis demonstrated that among the UV-B responsive transcripts, several types of gene implicated in chromatin remodeling are differentially expressed before and after UV-B treatment in high-altitude lines. RNAi transgenic plants with lower expression of four such chromatin-associated genes exhibited hypersensitivity to UV-B by measurements of leaf arching, increased leaf chlorosis and necrosis, and altered UV-B regulation of selected genes. These results collectively suggest that genes involved in chromatin remodeling are crucial for UV-B acclimation and that some high-altitude lines exhibit adaptations to this challenge.
2005-05-17 | GSE2163 | GEO
Project description:Microarray hybridization was used to assess UV-B responses in both directly exposed and shielded tissues of a maize line deficient in anthocyanin accumulation. Among 347 transcripts found to be regulated after 8 h of high UV-B irradiation, 285 were increased significantly in at least one organ but only 80 were down-regulated by UV-B. Although some genes were regulated by UV-B in more than one sample, most UV-B regulated genes were organ-specific. A larger number of transcript changes occurred in directly exposed than in shielded organs, and more transcripts levels were changed in adult than in seedling tissues. Because shielded tissues including roots, immature ears, and leaves covered with a plastic that absorbs UV-B exhibited altered transcriptome profiles after plant exposure to UV-B, some signal(s) must be transmitted from irradiated to shielded tissues. The time course of transcript abundance changes monitored by RNA blot hybridization and real time RT-PCR indicated that the response kinetics to UV-B are very rapid as some transcript levels are altered within 1 h exposure, in both exposed and shielded tissues. As the same total UV-B irradiation dose applied at three intensities elicited different transcript profiles, transcriptome changes do not show reciprocity. Confirming and extending prior microarray hybridization results, supplemental UV-B increased expression of stress response and ribosomal protein genes, while photosynthesis-associated genes were down regulated in adult leaves. Keywords: other
2003-10-29 | GSE671 | GEO
Project description:UV-B radiation affects leaf growth in a wide range of species. In this work, we demonstrate that UV-B levels present in solar radiation inhibits maize leaf growth without causing any other visible stress symptoms, including accumulation of DNA damage. We conducted kinematic analyses of cell division and expansion to understand the impact of UV-B radiation on these cellular processes. Our results demonstrate that the decrease in leaf growth is a consequence of a reduction in cell production, and a shortened growth zone (GZ) in UV-B irradiated leaves. To determine the molecular pathways involved in UV-B inhibition of leaf growth, we performed RNA sequencing on isolated GZ tissues of control and UV-B exposed plants. Our results show a link between the observed leaf growth inhibition and the expression of specific cell cycle and developmental genes, including Growth Regulating Factors (GRFs) and transcripts for proteins participating in different hormone pathways.
2017-05-18 | GSE95858 | GEO
Project description:Intercropping is a vital technology in resource-limited agricultural systems with low inputs. Peanut/maize intercropping enhances iron (Fe) nutrition in calcareous soil. Proteomic studies of the differences in peanut leaves, maize leaves and maize roots between intercropping and monocropping systems indicated that peanut/maize intercropping not only improves Fe availability in the rhizosphere but also influences the levels of proteins related to carbon and nitrogen metabolism. Moreover, intercropping may enhance stress resistance in the peanut plant (Xiong et al. 2013b). Although the mechanism and molecular ecological significance of peanut/maize intercropping have been investigated, little is known about the genes and/or gene products in peanut and maize roots that mediate the benefits of intercropping. In the present study, we investigated the transcriptomes of maize roots grown in intercropping and monocropping systems by microarray analysis. The results enabled exploration differentially expressed genes in intercropped maize. Peanut (Arachis hypogaea L. cv. Luhua14) and maize (Zea mays L. cv. Nongda108) seeds were grown in calcareous sandy soil in a greenhouse. The soil was enhanced with basal fertilizers [composition (mg·kg−1 soil): N, 100 (Ca (NO3)2·4H2O); P, 150 (KH2PO4); K, 100 (KCl); Mg, 50 (MgSO4·7H2O); Cu, 5 (CuSO4·5H2O); and Zn, 5 (ZnSO4·7H2O)]. The experiment consisted of three cropping treatments: peanut monocropping, maize monocropping and intercropping of peanut and maize. After germination of peanut for 10 days, maize was sown. Maize samples were harvested after 63 days of growth of peanut plants based on the degree of Fe chlorosis in the leaves of monocropped peanut. The leaves of monocropped peanut plants exhibited symptoms of Fe-deficiency chlorosis at 63 days, while the leaves of peanut plants intercropped with maize maintained a green color.
2017-01-24 | GSE93771 | GEO