Project description: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. Results from RNA-seq were combined with non-targeted metabolomics. Results: Approximately 38,000 transcripts were expressed (RPKM>2) in each fiber type and approximately 2,000 of these transcripts were differentially expressed in a cross-species comparison at each timepoint. Enriched Gene Ontology biological processes in differentially expressed transcripts suggested that Gh fibers were more stressed. Conclusions: Both metabolomic and transcriptomic data suggest that better mechanisms for managing reactive oxygen species contribute to the increased fiber length in Gossypium barbadense. This appears to result from enhanced ascorbate biosynthesis via gulono-1,4-lactone oxidase and ascorbate recycling via dehydroascorbate reductase.

2015-06-26 | GSE64958 | GEO

Gossypium hirsutum cultivar:Yuanmian11

Project description:Gossypium hirsutum cultivar:Yuanmian11 Genome sequencing and assembly

| PRJNA974964 | ENA

Gossypium hirsutum cultivar:ZM113

Project description:Gossypium hirsutum cultivar:ZM113 Genome sequencing

| PRJNA1039892 | ENA

Gossypium hirsutum cultivar:yucatanense

Project description:Gossypium hirsutum cultivar:yucatanense Genome sequencing

| PRJNA192692 | ENA

Gossypium hirsutum cultivar:PSC355

Project description:Gossypium hirsutum cultivar:PSC355 Genome sequencing