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Gene expression profiles in the bacterial pustule-resistant soybean cultivars(2)

ABSTRACT: To investigate the differential action between resistance and susceptible cultivars, we examined genome wide expression levels at five time points after Xag-inoculation using microarray. The soybean microarray was designed using the server-based eArray platform (http://earray.chem.agilent.com/earray/) from Agilent Technologies (Wolber et al., 2006). The current slide layout consists of four arrays of >44,000 features, including a set of Agilent's positive and negative control features.

ORGANISM(S): Glycine max

PROVIDER: GSE54803 | GEO | 2014/02/12

SECONDARY ACCESSION(S): PRJNA237958

REPOSITORIES: GEO

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Gene expression profiles in the bacterial pustule-resistant soybean cultivars(2)

Project description:To investigate the differential action between resistance and susceptible cultivars, we examined genome wide expression levels at five time points after Xag-inoculation using microarray. The soybean microarray was designed using the server-based eArray platform (http://earray.chem.agilent.com/earray/) from Agilent Technologies (Wolber et al., 2006). The current slide layout consists of four arrays of >44,000 features, including a set of Agilent's positive and negative control features. An oligonucleotide microarray containing 42,564 unique probes (60-mer) was created from 33,574 unigenes from Glycine max database (http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?id=3847) (May 2009) as templates for probe design.

2014-02-12 | E-GEOD-54803 | biostudies-arrayexpress

Soybean cultivars,Soybean Hydrophobic Protein(HPS) comparison

Project description:The Hydrophobic protein from soybean (HPS) locus is polymorphic among soybean cultivars and copy-number changes in the tandem array at this locus are directly correlated with expression level and seed coat luster phenotypes. Keywords: comparative genomic hybridization

2006-03-21 | GSE3810 | GEO

Comparison of two clones (4106a and FRC) of Myzus Persicae (Sulzer) (Hemiptera: Aphididae)

Project description:The aim of this experiment was to compare the transciptome of the peach-potato aphid (Myzus persicae) clone 4106a (a laboratory insecticide-susceptible standard collected from potato in Scotland in 2000) with clone FRC (an insecticide resistant aphid clone collected from peach in France in 2009) to identify which genes are over or underexpressed in the resistant phenotype. The custom microarray used in this study was designed using the Agilent eArray platform (Agilent Technologies) by the Georg Jander Lab and is based on a previously described array containing probes for >10, 000 M. persicae unigenes produced by Sanger sequencing (Ramsey, Wilson et al. 2007) augmented with an additional 30, 517 probe set designed on EST unigene sequences identified in a 454 sequencing project (Ramsey, Rider et al. 2010). The final slide layout consists of four arrays of 45, 220 60-mer probes and these are produced by Agilent by in situ oligonucleotide synthesis. References: Ramsey, J. S., D. S. Rider, et al. (2010). "Comparative analysis of detoxification enzymes in Acyrthosiphon pisum and Myzus persicae." Insect Molecular Biology 19: 155-164. Ramsey, J. S., A. C. C. Wilson, et al. (2007). "Genomic resources for Myzus persicae: EST sequencing, SNP identification, and microarray design." BMC Genomics 8.

2013-07-29 | GSE24629 | GEO

Structural variation among soybean cultivars

Project description:CGH was used to compare structural variation among four soybean cultivars (Archer, Minsoy, Noir1 and Williams 82). Four additional hybridizations were performed with these and other accessions (Kingwa, Williams, M92-220, Richland and Essex) to confirm the patterns observed.

2011-05-03 | GSE28905 | GEO

In Vitro Plant Regeneration from Commercial Cultivars of Soybean.

Project description: Not available

| S-EPMC5485301 | biostudies-other

Oryza sativa Indica Group

Project description:Rice Transcriptome - Slide A; Slide B

| PRJNA92201 | ENA

Structural variation among soybean cultivars

Project description:CGH was used to compare structural variation among four soybean cultivars (Archer, Minsoy, Noir1 and Williams 82). Three different soybean cultivars (Archer, Minsoy and Noir1) were hybridized against the common reference genotype Williams 82. The soybean tiling array consists of 700k probes, spaced at approximately 1.1 kb intervals.

2011-05-03 | E-GEOD-28905 | biostudies-arrayexpress

Rapid genotyping of soybean cultivars using high throughput sequencing.

Project description: Not available

| S-EPMC3176760 | biostudies-literature

Soybean cultivars OX951 & OX736, seed coat permeablity comparison

Project description:Soybean cultivars, OX951 & OX736, comparison of seed coat at 3 growth stages, early, mid & late Keywords: time course

2007-01-01 | GSE4276 | GEO

Identification of the miRNA-mRNA regulatory network of Toxoplasma gondii based on RNA-seq

Project description:To explore the potential miRNA‑mRNA regulatory mechanism and relevant signaling pathways, we profiled host miRNA and mRNA levels during T.gondii infection with microarrays, bioinformatics, and integrated genomics analyses. Reverse transcription‑quantitative polymerase chain reaction (RT‑qPCR) was performed to validate the reliability of microarray data.The present study performed global expression analysis of 41,000 genes and 2,549 microRNAs using the Agilent Whole Human Genome 8 x 60k slide formats printed using Agilent's 60-mer SurePrint technology, respectively. Compared with the controlled cells, a total of 3,568 mRNAs were significantly differentially expressed, including 1,475 upregulated genes (fold change ≥2) and 463 downregulated genes (fold change ≤0.5).

2024-02-25 | GSE167582 | GEO

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