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Hordeum vulgare, Triticum aestivum
33 Downloadable Samples
Affymetrix Barley Genome Array (barley1)
Description
Transcript levels of barley genes were examined in the wheat-barley chromosome addition lines having one of six barley chromomes, 2H, 3H, 4H, 5H, 6H and 7H. ****[PLEXdb(http://www.plexdb.org) has submitted this series at GEO on behalf of the original contributor, Seungho Cho. The equivalent experiment is BB8 at PLEXdb.]
Publication Title
Transcriptome analysis and physical mapping of barley genes in wheat-barley chromosome addition lines.
Sample Metadata Fields
Specimen part
View Samples- Triticum aestivum
- 23 Downloadable Samples
- Affymetrix Wheat Genome Array (wheat)
Description
In this study, we used the Affymetrix wheat GeneChip to examine the transcript accumulation in a near-isogenic line pair carrying resistant and susceptible alleles at the wheat Fhb1 locus. The objectives of this study were: (1) to identify the overall response in wheat to F. graminearum infection; (2) to identify key genes involved in FHB resistance/susceptibility pathways in wheat; (3) to compare the transcript profiles of wheat and barley during F. graminearum infection; and (4) to examine the relationship between transcript accumulation, disease severity, fungal biomass and trichothecene accumulation in wheat. ****[PLEXdb(http://www.plexdb.org) has submitted this series at GEO on behalf of the original contributor, Seungho Cho. The equivalent experiment is TA20 at PLEXdb.]
Publication Title
Transcriptome analysis of a wheat near-isogenic line pair carrying Fusarium head blight-resistant and -susceptible alleles.
Sample Metadata Fields
Specimen part, Treatment, Time
View Samples- Hordeum vulgare
- 18 Downloadable Samples
- Affymetrix Barley Genome Array (barley1)
Description
Fusarium Head Blight susceptible barley variety, Morex, was infected with deoxynivalenol production deficient mutant strain (GZT40) and wild type stains (Z3639) of Fusarium graminearum. The RNA was sampled at 48 and 96 hours after inoculation. and was used hybridize to Barley_1 GeneChip. ****[PLEXdb(http://www.plexdb.org) has submitted this series at GEO on behalf of the original contributor, Jayanand Boddu. The equivalent experiment is BB52 at PLEXdb.]
Publication Title
Transcriptome analysis of trichothecene-induced gene expression in barley.
Sample Metadata Fields
Specimen part
View Samples- Hordeum vulgare
- 44 Downloadable Samples
- Affymetrix Barley Genome Array (barley1)
Description
Barley cv. Morex inoculated with Fusarium graminearum (isolate Butte 86) or water (mock). Sampled at 24, 48, 72, 96 and 144 hours after treatment. ****[PLEXdb(http://www.plexdb.org) has submitted this series at GEO on behalf of the original contributor, Jayanand Boddu. The equivalent experiment is BB9 at PLEXdb.]
Publication Title
Transcriptome analysis of the barley-Fusarium graminearum interaction.
Sample Metadata Fields
Specimen part, Time
View Samples- Hordeum vulgare, Triticum aestivum
- 36 Downloadable Samples
- Affymetrix Barley Genome Array (barley1)
Description
We utilized the Barley1 Affymetrix GeneChip for comparative transcript analysis of Betzes barley, Chinese Spring wheat, and Chinese SpringBetzes ditelosomic chromosome addition lines to physically map barley genes to their respective chromosome arm locations. We mapped barley genes to chromosome arms (1HS, 2HS, 2HL, 3HS, 3HL, 4HS, 4HL, 5HS, 5HL, 7HS, and 7HL) based on their transcript levels in the ditelosomic addition lines. ****[PLEXdb(http://www.plexdb.org) has submitted this series at GEO on behalf of the original contributor, Hatice Bilgic. The equivalent experiment is BB55 at PLEXdb.]
Publication Title
Mapping barley genes to chromosome arms by transcript profiling of wheat-barley ditelosomic chromosome addition lines.
Sample Metadata Fields
Specimen part
View Samples- Hordeum vulgare
- 24 Downloadable Samples
- Affymetrix Barley Genome Array (barley1)
Description
Barley florets (cv. Morex) were treated with 2.0 microgram deoxynivalenol per floret via a 10 microliter solution or mock inoculated with water. Samples were collected at 1, 12, 24, and 48 hours after inoculation. ****[PLEXdb(http://www.plexdb.org) has submitted this series at GEO on behalf of the original contributor, Stephanie A. Gardiner. The equivalent experiment is BB62 at PLEXdb.]
Publication Title
Transcriptome analysis of the barley-deoxynivalenol interaction: evidence for a role of glutathione in deoxynivalenol detoxification.
Sample Metadata Fields
Specimen part, Treatment, Time
View Samples
SRP094817- Zea mays
- 2 Downloadable Samples
Illumina HiSeq 3000
Description
Transposons in maize may be involved in the formation of circRNAs and further modulate phenotypic variation. To test our hypothesis, we performed circRNA-Seq(RNase R treated) on B73 seedlings(third leaves of V3 stage), and uncovered 1,572 high-confidence maize circRNAs, which show distinct genomic features compared to linear transcripts. Comprehensive analyses showed that LINE1-like elements (LLE) and their reverse complementary pairs (RCPLLEs) are significantly enriched in the flanking regions of circRNAs.
Publication Title
Circular RNAs mediated by transposons are associated with transcriptomic and phenotypic variation in maize.
Sample Metadata Fields
Specimen part, Disease
View Samples- Hordeum vulgare
- 90 Downloadable Samples
- Affymetrix Barley Genome Array (barley1)
Description
Transcriptome comparison of 15 lines representing the University of Minnesota six-rowed malting breeding program at two time points of the malting process: 'out of steep' and '3 days of germination'. Three replicates of each genotype and time point were accomplished. ****[PLEXdb(http://www.plexdb.org) has submitted this series at GEO on behalf of the original contributor, Maria Muoz-Amatriain. The equivalent experiment is BB91 at PLEXdb.]
Publication Title
Transcriptome analysis of a barley breeding program examines gene expression diversity and reveals target genes for malting quality improvement.
Sample Metadata Fields
Age, Specimen part
View Samples- Hordeum vulgare
- 12 Downloadable Samples
- Affymetrix Barley Genome Array (barley1)
Description
Transcriptome comparison of the winter malting barley '88Ab536' with the spring malting variety 'Morex' at two time points of the malting process: 'out of steeping' and '3 days of germination'. Three replicates of each genotype and time point were accomplished. ****[PLEXdb(http://www.plexdb.org) has submitted this series at GEO on behalf of the original contributor, Maria Munoz-Amatriain. The equivalent experiment is BB76 at PLEXdb.]
Publication Title
Structural and functional characterization of a winter malting barley.
Sample Metadata Fields
Age, Specimen part
View Samples- Oryza sativa, Zea mays, Hordeum vulgare, Sorghum bicolor, Triticum aestivum, Avena sativa
- 8 Downloadable Samples
- Affymetrix Barley Genome Array (barley1)
Description
This study was conducted to evaluate the efficiency of cross-species detection in Barley1 GeneChip array. We hybridized cRNA derived from first leaves of barley green seedlings (as a control), as well as the same stage of seedling leaf from representative genotypes of wheat, oat, rice, maize, and sorghum. Ten to twenty seedlings for each species were harvested and pooled for RNA preparation, labeling, and hybridization. ****[PLEXdb(http://www.plexdb.org) has submitted this series at GEO on behalf of the original contributor, Rico Caldo. The equivalent experiment is BB1 at PLEXdb.]
Publication Title
A new resource for cereal genomics: 22K barley GeneChip comes of age.
Sample Metadata Fields
Specimen part
View Samples