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GSE7197
Oryza sativa
6 Downloadable Samples
Affymetrix Rice Genome Array (rice)
Description
In order to study the physiological function of OsSRT1, a 412 bp segment of the 3-untranslated region of OsSRT1, which was not conserved with OsSRT2, was inserted in inverted repeats to build a construct for RNA interference (RNAi). The construct was used to transform an indica rice variety (Minghui63).To study whether the down-regulation of OsSRT1 affected gene expression, we compared the transcripts of the RNAi to the wild type plants by microarray analysis (Affymetrix). RNAs were isolated from young leaves of 11 day-old plants (before appearance of lesions in the RNAi plants). Affymetrix GeneChip Rice Genome Array were performed. Data was analyzed with SAM excel add-in and in-house perl scripts.Analysis of data from three biological repeats revealed that 521 genes are up-regulated, and 213 genes are down-regulated (with q value at 5%).
Publication Title
Down-regulation of a SILENT INFORMATION REGULATOR2-related histone deacetylase gene, OsSRT1, induces DNA fragmentation and cell death in rice.
Sample Metadata Fields
Age
View Samples- Oryza sativa indica group
- 189 Downloadable Samples
- Affymetrix Rice Genome Array (rice)
Description
Transcriptional programs are important for the development of complex eukaryotic organisms. Suites of genes expressed with temporal and spatial controls by regulatory networks in response to environmental cues are the cornerstone for achieving the specification of morphology and physiology of the tissue or organ systems. Thus, an important issue of developmental biology is to define the subsets of expressed genes and their expression patterns that are related to the organ or tissue system. Rice is a model plant for cereal genome research. Although large amounts of data of whole genome expression have been generated in recent years in rice, the majority of the studies were designed to identify differentially expressed genes between controls and treatments with certain experimental conditions such as biotic, abiotic or light, or to investigate the comparative expression patterns between wild type and mutants of certain genes. Only in a few cases were the datasets designed for studying the transcriptomes of a limited number of organs and cell types. Thus, there is still insufficiency in the available datasets that would allow for the establishment of expression patterns for suits of genes during the developmental processes of rice.
Publication Title
A dynamic gene expression atlas covering the entire life cycle of rice.
Sample Metadata Fields
No sample metadata fields
View Samples- Citrus unshiu, Citrus maxima, Citrus reticulata, Citrus sinensis
- 24 Downloadable Samples
- Affymetrix Citrus Genome Array (citrus)
Description
The postharvest senescence processes of citrus fruits were analyzed transcriptomic. The present study was aimed to: further uncover the rind-flesh communication of hesperidium; characterize the differential storage behaviors of different citrus varieties; reveal the important changes during storing process; and demonstrate the specific non-climacteric characteristics of citrus fruits.
Publication Title
Network analysis of postharvest senescence process in citrus fruits revealed by transcriptomic and metabolomic profiling.
Sample Metadata Fields
Specimen part, Time
View Samples- Oryza sativa
- 35 Downloadable Samples
- Affymetrix Rice Genome Array (rice)
Description
In order to reveal the molecular foundation of BPH resistance of RH, the whole genome expressional profiles of RH together with the control TN1 under BPH infestation were determined using cDNA microarray analysis.
Publication Title
No associated publication
Sample Metadata Fields
Specimen part, Treatment
View Samples- Oryza sativa
- 23 Downloadable Samples
- Affymetrix Rice Genome Array (rice)
Description
Low temperature is one of the major abiotic stresses limiting rice growth and productivity, it is urgent to reveal the genetic and molecular mechanisms of plant responses to low temperature stress and to search for useful genetic resources for improving low-temperature tolerance. the 8 accessions from China Core Collection include 4 cold tolerance accessions, 3 sensitivity accessions and 1 intermediate type accession.
Publication Title
New insights into the genetic basis of natural chilling and cold shock tolerance in rice by genome-wide association analysis.
Sample Metadata Fields
Specimen part, Treatment
View Samples- Sus scrofa
- 18 Downloadable Samples
- Affymetrix Porcine Genome Array (porcine)
Description
Streptococcus suis serotype 2 is an important pathogen of pigs, and the disease it causes is characterized by meningitis, septicaemia and pneumonia with high mortality. The pathogen is also an emerging zoonotic agent and threatens humans that are exposed to pigs or their by-products.
Publication Title
Understanding Streptococcus suis serotype 2 infection in pigs through a transcriptional approach.
Sample Metadata Fields
Specimen part
View Samples- Escherichia coli
- 15 Downloadable Samples
- Affymetrix E. coli Genome 2.0 Array (ecoli2)
Description
Cyadox(CYA), as a new species of Quinoxaline 1, 4-dioxides and olaquindox(OLA) both showed higher antibacterial activity under anaerobic incubation. Microarray was used for global gene expression studies, which were further confirmed by real-time PCR.
Publication Title
No associated publication
Sample Metadata Fields
No sample metadata fields
View Samples- Sus scrofa
- 12 Downloadable Samples
- Affymetrix Porcine Genome Array (porcine)
Description
The interferon (IFN) is a major effector of the innate immunity which mediates an adaptive immune response against broad spectrum pathogens. The aim of this work has been to investigate the differences of the virus mimic dsRNA (Poly I:C)-inducted in vivo transcriptomic alteration between pigs with high (HIGH) and low (LOW) serum interferon-alpha production. The pigs with extreme yield of induced interferon-alpha from a F2 resource population were selected for whole blood gene expression analysis using the porcine Affymetrix microarray
Publication Title
No associated publication
Sample Metadata Fields
Specimen part, Compound
View Samples- Sus scrofa
- 12 Downloadable Samples
- Affymetrix Porcine Genome Array (porcine)
Description
From gestation day 75 to gestation day 90, an important stage for the placental and fetal development, the fetuses grow rapidly and need adequate nutrition. The Meishan pigs and the Large White pigs employ different ways in supplying the enough nutrients and oxygen to the fetus. The Meishan pigs increased the vascular density and the Large White pigs have the second increase in the surface of placenta. To understand the molecular basis related to late gestation placenta development in Chinese indigenous and Western breeds with different placental efficiency, samples were collected and used to hybridized. The results offered new data on understanding the molecular basis of placenta efficiency, and indicated that Erhualian pigs had the more efficient than the Large White pigs.
Publication Title
Detection of differentially expressed genes between Erhualian and Large White placentas on day 75 and 90 of gestation.
Sample Metadata Fields
No sample metadata fields
View Samples- Sus scrofa
- 10 Downloadable Samples
- Affymetrix Porcine Genome Array (porcine)
Description
The skeletal muscle growth and development is a very complicated but precisely regulated process with interwoven molecular mechanisms. Skeletal muscle is a very heterogeneous tissue that is made up of a large variety of functionally diverse fiber types. Muscle mass is therefore largely determined by the number and size of those fibres. These fibre characteristics are determined by hyperplasia before birth and by hypertrophy after. Around 65 dpc and three postnatal stages (newborn, 3 days; young, 60 days; and mature, 120 days) are key time points in swine skeletal muscle growth and development.
Publication Title
No associated publication
Sample Metadata Fields
Specimen part
View Samples