Rice germination under oxygen presence and absence

This dataset originates from research carried out in 2016, published in the paper "Dynamic and rapid changes in the transcriptome and epigenome during germination and in developing rice (Oryza sativa) coleoptiles under anoxia and re-oxygenation." The RNA-seq data generated provides a detailed molecular profile of Oryza sativa enabling the identification of differentially expressed genes and uncovers the essential features for germination and early seedling growth under anoxic conditions.

The data provide insights into the molecular responses to oxygen deprivation. An extensive time course was examined, from dry seeds to germinating embryos (24 h) and up to 4-day-old rice coleoptiles, as well as coleoptiles collected from seedlings grown for 3 days under anoxic conditions and transferred to air for one day.

In rice, germination and seedling development can progress in both the presence and absence of oxygen. While the transcriptomic responses to anaerobic conditions, found using microarrays, have revealed common responses, even across kingdoms, these alone are not sufficient for altering tolerance to anaerobic conditions. An in-depth study was undertaken which resulted in data creation from several time points during germination and in the rice coleoptile using RNA-seq analyses.

Publication: http://dx.doi.org/10.1111/tpj.13418

Research Data Australia: researchdata.ands.org.au/rice-oryza-sativa-re-oxygenation/938693

Viewers: [GeneView (eFP)] [GeneExplore (Degust)]

Access: Public

Samples

0h

0-hour Control

1hA

1-hour Air

3hA

3-hour Air

12hA

12-hour Air

24hA

24-hour Air

2dA

48-hour Air

3dA

72-hour Air

4dA

96-hour Air

1hN

1-hour Nitrogen Gas

3hN

3-hour Nitrogen Gas

12hN

12-hour Nitrogen Gas

24hN

24-hour Nitrogen Gas

2dN

48-hour Nitrogen Gas

3dN

72-hour Nitrogen Gas

4dN

96-hour Nitrogen Gas

3dN1dA

72-hour Nitrogen Gas followed by 24-hour Air