Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Next Generation Sequencing Facilitates Quantitative Analysis of differentially expressed genes between wild type and the fiber mutant Xuzhou142fl

ABSTRACT: Next Generation Sequencing Facilitates Quantitative Analysis of differentially expressed genes between wild type and the fiber mutant Xuzhou142fl

PROVIDER: PRJNA736045 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR14760705.fastq.gz	Fastqsanger.gz
	SRR14760706.fastq.gz	Fastqsanger.gz
	SRR14760707.fastq.gz	Fastqsanger.gz
	SRR14760708.fastq.gz	Fastqsanger.gz
	SRR14760709.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 6

Similar Datasets

Next Generation Sequencing Facilitates Quantitative Analysis of differentially expressed genes between wild type and the fiber mutant Xuzhou142fl

Project description:Tetraploid cotton plants serve as prime natural fiber source for the textile industry. Although various omics studies have revealed molecular basis for fiber development, a better understanding of transcriptional regulation mechanism regulating lint fiber initiation is necessary to meet global natural fiber demand. Here, we aimed to perform transcriptome sequencing to identify DEGs (differentially expressed genes) in ovules of the cotton variety Xu142 and its fibreless mutant Xu142fl during early lint fiber initiation period. Totally, 5516 DEGs including 1840 upregulated and 3676 downregulated were identified. GO enrichment analysis revealed that the downregulated DEGs mainly associated with biological processes such as transcription related biosynthesis and metabolism, organic cyclic compound biosynthesis and metabolism, photosynthesis, and plant cell wall organization, with molecular functions involving transcription related binding, organic cyclic compound binding, and dioxygenase activity, while the upregulated DEGs were associated with DNA replication and phospholipid biosynthetic related processes. Among the 490 DEGs annotated as transcription factor genes 86.5% were downregulated in the mutant including the Malvaceae-specific MMLs, expression patterns of which were confirmed during the central period of lint fiber initiation. Investigation of the 20 genes enriched in the cell wall organization revealed that 17 were EXPA coding genes. Overall, we suggest that lint fiber initiation is a complicated process involving cooperation of multiple transcription factor families, which ultimately lead to the reorganization of the cell wall and terminated cell division of the differentiating fiber initials.

2021-11-03 | GSE176384 | GEO

Genes differentially expressed in fiber 1 day post anthesis (dpa)

Project description:A method was developed to isolate RNA from 1 dpa fiber. ESTs derived from this and other cotton mRNAs were sequenced and assembled into contigs. Contigs composed of EST unique to libraries of interest and unique singletons were represented on a microarray. Microarrays were hybridized with labed nucleic acids derived from whole 1 dpa ovules and 1 dpa fiber to identify genes differentially regulated during fiber initiation. Genes with known expression in fiber were included to validate the microarray. Analysis of the gene ontology (GO) of differentially expressed genes suported previously reported aspects of fiber initiation such as an increase in protein biosynthesis. An increase in the "membrane" was indicated by the GO analysis ans supported by increased staining of fiber initial ER. Analysis of individule genes differentially regulated in fiber initials indicated calcium may play a role in fiber deveopment which was also supported by an increase in calcium in fiber initials. Keywords: comparative hybridization

2007-06-26 | GSE6851 | GEO

Identification of genes differentially expressed in 1 dpa and 10 dpa fiber

Project description:A method was developed to isolate RNA from 1 dpa fiber. ESTs derived from this and other cotton mRNAs were sequenced and assembled into contigs. Contigs composed of EST unique to libraries of interest and unique singletons were represented on a microarray. Microarrays were hybridized with labed nucleic acids derived from 10 dpa fiber and 1 dpa fiber to identify genes differentially regulated during fiber initiation and fiber elongation. Genes with known expression in fiber were included to validate the microarray. Analysis of the gene ontology (GO) of differentially expressed genes suported previously reported aspects of fiber initiation such as cell wall remodeling. Transcription factors upregulated in fiber initials and elongating fiber were identified Keywords: cell type comparison

2007-06-26 | GSE6852 | GEO

RNA Sequencing Facilitates Quantitative Analysis of differentially expressed genes during human erythroipoiesis

Project description:RNA Sequencing Facilitates Quantitative Analysis of differentially expressed genes during human erythroipoiesis

| PRJNA488730 | ENA

Next Generation Sequencing Facilitates Quantitative Analysis of Differentially Expressed Genes in Radiated and Non-Radiated femurs

Project description:Next Generation Sequencing Facilitates Quantitative Analysis of Differentially Expressed Genes in Radiated and Non-Radiated femurs

| PRJNA746472 | ENA

Next-generation sequencing (NGS) facilitates quantitative analysis of differentially expressed genes in ethanol-fed murine livers after ethanol binge

Project description:Next-generation sequencing (NGS) facilitates quantitative analysis of differentially expressed genes in ethanol-fed murine livers after ethanol binge

| PRJNA804242 | ENA

RNA Sequencing Facilitates Quantitative Analysis of differentially expressed genes after UCA1 knockdown in human erythroid cells

Project description:RNA Sequencing Facilitates Quantitative Analysis of differentially expressed genes after UCA1 knockdown in human erythroid cells

| PRJNA417183 | ENA

RNA Sequencing Facilitates Quantitative Analysis of differentially expressed genes after PTBP1 knockdown in human erythroid cells

Project description:RNA Sequencing Facilitates Quantitative Analysis of differentially expressed genes after PTBP1 knockdown in human erythroid cells

| PRJNA417253 | ENA

Next Generation Sequencing Facilitates Quantitative Analysis of Differentially Expressed Genes in Radiated and Non-Radiated femurs

Project description:Mechanisms underlying radiation induced bone loss seen following clinical radiotherapy are largely unkown. In order to identify mechanisms underlying focal radiation induced bone loss, differentially expressed genes were assessed in radiated bones as compared to the contralateral leg from the same animal.

2021-07-15 | GSE180076 | GEO

Next Generation Sequencing Facilitates identification of genes differentially expressed during feather elongation

Project description:Purpose: The goals of this study is to identify genes differentially expressed at different stages of feather elongation

2018-08-30 | GSE86251 | GEO