GEO DataSets

(Submitter supplied) Transcriptional profiling of cotton fiber cells from two cotton germplasm lines, MD 52ne and MD 90ne. Comparison of fiber cell transcription profiles is between the two germplasm lines and over a developmental time-course from 8 to 24 days post anthesis in four day intervals.

Organism:

Gossypium arboreum; Gossypium hirsutum; Gossypium raimondii

Type:

Expression profiling by array

Platform:

GPL8062

80 Samples

Download data: GPR

(Submitter supplied) Cotton is one of the most commercially important Fiber crops in the world and used as a source for natural textile Fiber and cottonseed oil. The fuzzless-lintless ovules of cotton mutants are ideal source for identifying genes involved in Fiber development by comparing with Fiber bearing ovules of wild-type. To decipher molecular mechanisms involved in Fiber cell development, transcriptome analysis has been carried out by comparing G. more...

Organism:

Gossypium barbadense; Gossypium raimondii; Gossypium arboreum; Gossypium hirsutum

Type:

Expression profiling by array

Platform:

GPL8672

30 Samples

Download data: CEL, CHP

(Submitter supplied) Sea-island cotton (Gossypium barbadense L.) has superior fiber quality properties such as length, fineness and strength, while Upland cotton (Gossypium hirsutum L.) is characterized by high yield. To reveal features of Upland cotton and Sea-island cotton fiber cells, differential genes expression profiles during fiber cell elongation and in secondary wall deposits were established using cDNA microarray technology. more...

Organism:

Gossypium hirsutum; Gossypium barbadense

Type:

Expression profiling by array

Platform:

GPL2610

15 Samples

Download data: TXT

(Submitter supplied) In order to study gene expression at the genomic level during elongation and secondary cell wall synthesis of upland cotton fiber, oligonucleotide microarrays were employed. RNA was isolated from fibers in 7 different time points beginning prior to peak fiber expansion, continuing through termination of fiber expansion and ending at peak cellulose synthesis (5, 8, 10, 14, 17, 21, and 24dpa). The arrays contained ~25,000 oligonucleotides representing ~12,200 genes designed from a fiber EST database during peak cell expansion. more...

Organism:

Gossypium hirsutum; Gossypium arboreum

Type:

Expression profiling by array

Platform:

GPL6917

6 Samples

Download data: TXT

(Submitter supplied) To gain novel insights into the molecular mechanisms underlying Pima cotton fiber quality, expression profiling of the Pima fiber transcriptome was performed as a function of development. The profiling was performed at 6 developmental time points: 8, 11, 14, 17, 21, and 24dpa. The expression profiling using long oligonucleotide microarray showed dynamic changes to the fiber transcriptome that correlate to morphogenesis, and biological cellular processes. more...

Organism:

Gossypium barbadense; Gossypium arboreum

Type:

Expression profiling by array

Platform:

GPL6917

6 Samples

Download data: TXT

(Submitter supplied) A gene expression profiling study on two major cotton species that are cultivated for fibre, Gossypium hirsutum (L.) and Gossypium barbadense (L.), at different stages during fibre development using a printed cDNA microarray was undertaken to identify potential candidate genes for manipulation to improve fibre quality. Keywords: Species comparison, development

Organism:

Gossypium barbadense; Gossypium hirsutum

Type:

Expression profiling by array

Platform:

GPL4043

18 Samples

Download data: GPR

(Submitter supplied) Cotton fiber ESTs were generated from 7-10 dpa fibers from the diploid species, Gossypium arboreum L. cv. AKA8401, at the Cotton Functional Genomic Center (CFGC) at the University of California-Davis (UCD) (cfgc.ucdavis.edu). A Unigene (UG)/Non-redundant (NR) set of 13,947 quality-controlled consensus sequences that define the cotton fiber transcriptome during rapid fiber elongation was assembled by Arpat et al 2004. more...

Organism:

Gossypium arboreum

2 Series

12 Samples

Download data

(Submitter supplied) Website: http://cottongenomecenter.ucdavis.edu/production.asp

Organism:

Gossypium hirsutum

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(Submitter supplied) Comparative analysis of transcriptome profiles of G. arboreum L. cv. and its fuzzy-lintless mutant (ANOI 1960) at 0 and 10 dpa. Cotton is one of the most commercially important fibre crops in the world and used as a source for natural textile fibre and cottonseed oil. The fuzzy-lintless ovules of cotton mutants are ideal source for identifying genes involved in fibre development by comparing with fibre bearing ovules of wild-type. more...

Organism:

Gossypium barbadense; Gossypium hirsutum; Gossypium raimondii; Gossypium arboreum

Type:

Expression profiling by array

Platform:

GPL8672

12 Samples

Download data: CEL, CHP

(Submitter supplied) To examine expression of miRNAs in cotton fiber development, we employed miRNA microarrays and compared miRNA accumulation level in cotton fibers, cotton leaves and mutant fibers.

Organism:

Gossypium hirsutum; Arabidopsis thaliana

Type:

Non-coding RNA profiling by array

Platform:

GPL8814

36 Samples

Download data: TXT

(Submitter supplied) Cotton fibers are seed trichomes, and their development undergoes a series of rapid and dynamic changes from fiber cell initiation, elongation to primary and secondary wall biosynthesis and fiber maturation. Previous studies showed that cotton homologues encoding putative MYB transcription factors and phytohormone responsive factors were induced during early stages of ovule and fiber development. Many of these factors are targets of microRNAs (miRNAs). more...

Organism:

Gossypium hirsutum

Type:

Non-coding RNA profiling by high throughput sequencing

Platform:

GPL9362

4 Samples

Download data: TXT

(Submitter supplied) Purpose: The goal of this experiment was to use RNA-seq to compare the two commercial cotton species Gossypium hirsutum and Gossypium barbadense and determine what transcripts may account for the better fiber quality in the latter. Methods: RNA was extracted from Gossypium barbadense or Gossypium hirsutum fibers at 10, 15, 18, 21, and 28 days post anthesis. Paired-end, 100-bp RNA-seq was performed on an Illumina HiSeq2000 and the reads were mapped to the Gossypium raimondii genome at www.phytozome.net and non-homologous contig assemblies from Gossypium arboreum. more...

Organism:

Gossypium hirsutum; Gossypium barbadense

Type:

Expression profiling by high throughput sequencing

Platforms:

GPL19651 GPL16485

30 Samples

Download data: FA, XLSX

(Submitter supplied) To gain novel insights into the molecular mechanisms of fiber initiation development,transcription profiling of the lintless-fuzzless mutant (XinWX) and its near-isogenic line,XinFLM (fuzzless-linted mutant) were compared using cDNA microarray technology. The expression profiling was performed at 3 developmental time points: -1, 0, and 1 dpa. fiber initiation development related genes were identified by differentially expressed gene analysis. more...

Organism:

Gossypium hirsutum

Type:

Expression profiling by array

Platform:

GPL8569

9 Samples

Download data: TXT

(Submitter supplied) Cotton fiber were used for the expression analysis at different developmental stages Affymetrix Cotton Genome array were used for the global profiling of gene expression of cotton fiber at different developmental stages

Organism:

Gossypium hirsutum; Gossypium arboreum; Gossypium raimondii; Gossypium barbadense

Type:

Expression profiling by array

Platform:

GPL8672

89 Samples

Download data: CEL, CHP

(Submitter supplied) The comparative analysis between 57-4 and Pima S-1 identified 284 genes in anthers and 1,864 genes in ovules as being differentially expressed in the semigametic genotype. Based on gene functions, 127 differentially expressed genes were common to both semigametic anthers and ovules, with 115 being consistently differentially expressed in both tissues. Nine of those genes were selected for qRT-PCR analysis, seven of which were confirmed. more...

Organism:

Gossypium barbadense; Gossypium raimondii; Gossypium arboreum; Gossypium hirsutum

Type:

Expression profiling by array

Platform:

GPL8672

4 Samples

Download data: CEL

(Submitter supplied) exceptional example of evolutionary innovation is the single-celled seed trichome in Gossypium ("cotton fiber"). We have used fiber development in Gossypium as a system to understand how morphology can rapidly evolve. Fiber has undergone considerable morphological changes between the short, tightly adherent fibers of G. longicalyx and the derived long, spinable fibers of its closest relative, G. herbaceum, that facilitated cotton domestication. more...

Organism:

Gossypium barbadense; Gossypium raimondii; Gossypium arboreum; Gossypium longicalyx; Gossypium hirsutum; Gossypium herbaceum

Type:

Expression profiling by array

Platform:

GPL4808

48 Samples

Download data

(Submitter supplied) Comparison of gene expression profiles of wild-type and fl-mutant upland cotton ovules Keywords: repeat samples

Organism:

Gossypium hirsutum

Type:

Expression profiling by array

Platform:

GPL2610

51 Samples

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(Submitter supplied) To estabilish upland cotton fiber-specific cDNA array, we constructed cDNA library from 5-10 day post anthesis cotton fibers when fiber cells elongate most quickly. Secondly, we randomly sequenced over 35,000 ESTs from this library and acquired a gene pool of more than 11,000 UniESTs. The cotton UniESTs were then PCR-amplified and printed onto microarray. This array is comprised of 11,692 high-quality cotton cDNAs (each sequence length>300bp, average length = 586bp) representing over 8,000 cotton genes. more...

Organism:

Gossypium hirsutum

2 Series

66 Samples

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(Submitter supplied) Transcriptional profiling of cotton fibers during development. Time course at 6 days post anthesis (dpa), 10 dpa, 20 dpa, and 24 dpa. All referenced to 20 dpa.

Organism:

Gossypium hirsutum

Type:

Expression profiling by array

Platform:

GPL6925

18 Samples

Download data: GPR, TXT

(Submitter supplied) Hpa1Xoo-Mediated Transcriptome in Transgenic Cotton Reveals the Constitutively Expressed Diverse Defense genes in Multiple Signaling Pathways Associated with Hypersensitive Cell Death Like other harpins, harpinXoo enables plants to acquire multiple resistance to pathogen and insect attack. However, the molecular model is not fully understood, especially in transgenic plant harpinXoo for genome-wide constitutive expression. more...

Organism:

Gossypium hirsutum

Type:

Expression profiling by array

Platform:

GPL10085

7 Samples

Download data: TXT