Glycine max
Ontology highlight
ABSTRACT:
PROVIDER: PRJNA280872 | ENA |
REPOSITORIES: ENA
Dataset's files
| Action | DRS | |||
|---|---|---|---|---|
| SRR1965010.fastq.gz | Fastqsanger.gz | |||
| SRR1965020.fastq.gz | Fastqsanger.gz | |||
| SRR1965011.fastq.gz | Fastqsanger.gz | |||
| SRR1965021.fastq.gz | Fastqsanger.gz | |||
| SRR1965012.fastq.gz | Fastqsanger.gz |
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Project description:The soybean aphid, a plant sap sucking insect, is an important soybean pest in the USA causing significant yield losses. The Rag2 gene of soybean provides resistance to soybean aphid biotypes I and II. Transcriptomic analyses were performed on near isogenic lines (NILs) with the Rag2 allele for aphid resistance or rag2 for susceptibility at the Rag2 locus. Soybeans were infested with soybean aphids and leaves were collected at 0, 4, 8, 24, and 48 hours after infestation. RNA were extracted and a high throughput RNA-seq approach was used to examine mRNA expression in Rag2 and rag2 soybean leaves. The expression of ~43,000 genes was detected in both the Rag2 and rag2 leaves. Statistical analysis identified 2361 genes significantly regulated between the resistant and susceptible lines at different times after aphid infestation. Genes found up-regulated in the Rag2 line were annotated as involved in the cell wall, secondary and hormone metabolism, as well as in stress, signaling and transcriptional responses. Genes found up-regulated in the rag2 line were annotated as involved in photosynthesis and carbon metabolism. Interestingly, mRNAs of 2 genes (unknown and mitochondrial protease) located within the Rag2 locus were expressed significantly higher in the resistant genotype. The expression of the putative NBS-LRR resistant gene present in the Rag2 locus was not different between the two soybean lines. However, another NBL-LRR gene located just at the border of the Rag2 locus was and, therefore, may be involved in the differential resistance to aphid infestation exhibited by the two NIL genotypes analyzed.
2016-04-08 | GSE67779 | GEO
Project description:Transcriptional response to soybean aphid infestation in susceptible and resistant soybean plants
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Project description:Soybean aphid is one of the major limiting factors for soybean production. However, the mechanism for aphid resistance in soybean is remain enigmatic, very little information is available about the different mechanisms between antibiosis and antixenosis genotypes. Here we dissected aphid infestation into three stages and used genome-wide gene expression profiling to investigate the underlying aphid-plant interaction mechanisms. Approximately 990 million raw reads in total were obtained, the high expression correlation in each genotype between infestation and non-infestation indicated that the response to aphid was controlled by a small subset of important genes. Moreover, plant response to aphid infestation was more rapid in resistant genotypes. Among the differentially expressed genes (DEGs), a total of 901 transcription factor (TF) genes categorized to 40 families were identified with distinct expression patterns, of which AP2/ERF, MYB and WRKY families were proposed to playing dominated roles. Gene expression profiling demonstrated that these genes had either similar or distinct expression patterns in genotypes. Besides, JA-responsive pathway was domination in aphid-soybean interaction compared to SA pathway, which was not involved plant response to aphid in susceptible and antixenotic genotypes but played an important role in antibiosis one. Throughout, callose were deposited in all genotypes but it was more rapidly and efficiently in antibiotic one. However, reactive oxygen species were not involved in response to aphid attack in resistant genotypes during aphid infestation. Our study helps uncover important genes associated with aphid-attack response in antibiosis and antixenotic genotypes of soybean.
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Project description:Two Near Isogenic soybean (Glycine max) lines were grown in hydroponic conditions with either 50uM ferric nitrate or 100uM ferric nitrate. After 10 days, half the plants were harvested (total root tissue). At 12 days after planting, iron was added to plants grown in low iron conditions bringing them up to sufficient iron growth conditions. Root tissue was harvested for the remaining plants at 14 days after planting. Gene expression analysis from root tissue of two Near Isogenic Lines (NILs), Clark (PI548553) and IsoClark (PI547430), grown in iron stress or iron stress recovered conditions.
2010-09-06 | GSE22227 | GEO
Project description:Two Near Isogenic soybean (Glycine max) lines were grown in hydroponic conditions with either 50uM ferric nitrate or 100uM ferric nitrate. After 10 days, half the plants were harvested (total root tissue). At 12 days after planting, iron was added to plants grown in low iron conditions bringing them up to sufficient iron growth conditions. Root tissue was harvested for the remaining plants at 14 days after planting. Gene expression analysis from root tissue of two Near Isogenic Lines (NILs), Clark (PI548553) and IsoClark (PI547430), grown in iron stress or iron stress recovered conditions. A total of 24 samples from four growth conditions, three biological replicates per treatment
2010-09-06 | E-GEOD-22227 | biostudies-arrayexpress
Project description:Comparative Transcriptomics of Soybean Near Isogenic Lines in Response to Phytophthora Sojae
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Project description:Expression analysis of reciprocal grafted of near-isogenic soybean lines under iron stress
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Project description:Transcriptome Profile of Near-isogenic Soybean Lines for α-Subunit Deficiency during Seed Maturation
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Project description:Two soybean near-isogenic lines (NILs) differing in seed protein content were genotyped to determine differential genetic introgressions from the wild relative Glycine soja. The CGH comparison reveals loci that are differentially introgressed between the two lines.
2013-02-28 | GSE44725 | GEO