Project description:High temperature (HT) stress is a major environmental stress that limits cotton growth, metabolism, and yield worldwide. The identification and characterization of thermotolerance is restricted by the plant growth environment and growth stage. In this study, four genotypes of upland cotton (Gossypium hirsutum L.) with known field thermotolerance were evaluated under normal and HTs at the seedlings stage in a growth cabinet with 11 physiological, biochemical, and phenotypic assays. Consistent with previous field observations, the thermotolerance could be identified by genotype differences at the seedling stage under HT in a growth cabinet. Comparative transcriptome analysis was performed on seedlings of two contrasting cotton genotypes after 4 and 8 hours of HT exposure. Gene ontology analysis combined with BLAST annotations revealed a large number of HT-induced differentially expressed genes (4,698) that either exhibited higher expression levels in the heat-tolerant genotype (Nan Dan Ba Di Da Hua) compared with the heat-sensitive genotype (Earlistaple 7), or were differentially expressed only in Nan Dan Ba Di Da Hua. These genes encoded mainly protein kinases, transcription factors, and heat shock proteins, which were considered to play key roles in thermotolerance in upland cotton. Two heat shock transcription factor genes (homologs of AtHsfA3, AtHsfC1) and AP2/EREBP family genes (homologs of AtERF20, AtERF026, AtERF053, and AtERF113) were identified as possible key regulators of thermotolerance in cotton. Some of the differentially expressed genes were validated by quantitative real-time PCR analysis. Our findings provide candidate genes that could be used to improve thermotolerance in cotton cultivars.

2016-06-30 | GSE70205 | GEO

Mus musculus

Project description:Identification of differentially expressed genes in runx1-/- primitive erythroid

| PRJNA105595 | ENA

Homo sapiens

Project description:Identification of differentially expressed genes in LBH589-treated cells

| PRJNA153461 | ENA

Next Generation Sequencing Facilitates Quantitative Analysis of Differentially Expressed Genes and Transcriptional Regulation Induced by Salt Stress in Upland Cotton

Project description:Purpose:Identification of genes and miRNAs responsible for salt tolerance in upland cotton (Gossypium hirsutum L.) would help reveal the molecular mechanisms of salt tolerance. We performed physiological experiments and transcriptome sequencing (mRNA-seq and small RNA-seq) of cotton leaves under salt stress using Illumina sequencing technology. And quantitative reverse transcription polymerase chain reaction (qRT–PCR) methods and to evaluate protocols for optimal high-throughput data analysis Methods:We investigated two distinct salt stress phases—dehydration (4 h) and ionic stress (osmotic restoration; 24 h)—that were identified by physiological changes of 14-day-old seedlings of two cotton genotypes, one salt tolerant and the other salt sensitive, during a 72-h NaCl exposure. A comparative transcriptomics approach was used to monitor gene and miRNA differential expression at two time points (4 and 24 h) in leaves of the two cotton genotypes under salinity conditions. Results:During a 24-h salt exposure, 819 transcription factor unigenes were differentially expressed in both genotypes, with 129 unigenes specifically expressed in the salt-tolerant genotype. Under salt stress, 108 conserved miRNAs from known families were differentially expressed at two time points in the salt-tolerant genotype. Conclusions:Our comprehensive transcriptome analysis has provided new insights into salt-stress response of upland cotton. The results should contribute to the development of genetically modified cotton with salt tolerance.

2017-06-18 | GSE58655 | GEO

Label-free quantitative proteomics of cotton genotypes with contrasting resistance to leafhopper

Project description:In cotton, after the Bt introduction, lepidopteron pest attack been reduced to a greater extent, however, the sucking pests became major problem. Among the sucking pests, the leafhopper Amrasca biguttula biguttula (Ishida), considered to be a severe pest. Here, we reported the label-free quantitative proteomics to identify putative differentially expressed proteins contributing to leafhopper resistance. The results obtained from this work not only aimed to provide a new clue that will facilitate better understanding of molecular interaction between cotton plant and leafhopper, but also explored the key genes for the development of functional markers in cotton towards leafhopper resistance.

2024-08-29 | PXD038644 | Pride

Gallus gallus

Project description:Identification of differentially expressed genes in early inner ear development

| PRJNA117713 | ENA

Mus musculus

Project description:Identification of differentially expressed genes in Sfmbt1-knockdown C2C12 myoblasts

| PRJNA177954 | ENA

Bacillus anthracis str. Sterne

Project description:Identification of Bacillus anthracis genes differentially expressed in human serum

| PRJNA382329 | ENA