GEO DataSets

(Submitter supplied) Oil palm (Elaeis guineensis Jacq.) is one of the most important oil-producing crops in the world. However, the demand for oil from this crop will increase in the future. A comparative gene expression profile of the oil palm leaves was needed in order to understand the key factors that influence the oil production. Here, we reported an RNA-seq dataset from three different oil yields and three different genetic populations of oil palm. more...

Organism:

Elaeis guineensis

Type:

Expression profiling by high throughput sequencing

Platform:

GPL33011

9 Samples

Download data: TXT

(Submitter supplied) We report the result of CHIP-seq of EgAGL9 transcription factor in Elaeis guineensis Jacq.

Organism:

Elaeis guineensis

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL30931

2 Samples

Download data: BW, NARROWPEAK

(Submitter supplied) Oil palm breeding and seed development have been hindered due to the male parent's incapacity to produce male inflorescence as a source of pollen under normal conditions. On the other hand, a young oil palm plantation has a low pollination rate due to a lack of male flowers. These are the common problem of sex ratio in the oil palm industry. Nevertheless, the regulation of sex ratio in oil palm plants is a complex mechanism and remains an open question until now. more...

Organism:

Elaeis guineensis

Type:

Expression profiling by high throughput sequencing

Platform:

GPL30887

6 Samples

Download data: CSV

(Submitter supplied) Identification of differentially expressed genes from RNA-seq data of non-embryogenic and embryogenic ortets. Selected ortets were previously cloned, thereby somatic embryogenesis rates are known for these ortets. Ortets fitting the study criteria were supplied by two agencies, namely L1 and L2. Principal Component Analysis indicated that variance between agencies were higher than the variance between embryogenesis groups within the agency. more...

Organism:

Elaeis guineensis

Type:

Expression profiling by high throughput sequencing

Platform:

GPL28030

58 Samples

Download data: TXT

(Submitter supplied) To determine the mechanisms of fleshy fruit abscission of the monocot oil palm (Elaeis guineensis Jacq.) compared with other abscission systems, we performed multi-scale comparative transcriptome analyses on fruit targeting the developing primary AZ and adjacent tissues. Combining between-tissue developmental comparisons with exogenous ethylene treatments, and naturally occurring abscission in the field, RNAseq analysis revealed a robust core set of 168 genes with differentially regulated expression, spatially associated with the ripe fruit AZ, and temporally restricted to the abscission timing. more...

Organism:

Elaeis guineensis

Type:

Expression profiling by high throughput sequencing

Platforms:

GPL29704 GPL28030

15 Samples

Download data: XLSX

(Submitter supplied) Leaf tissue was sampled from normal and mantled clonal palms producing normal and mantled fruits respectively. ChIP-Seq libraries for histone modifications H3K4me3 and H3K27me3 were generated and sequenced on Illumina platform. Genomic regions associated with specific histone marks were identified.

Organism:

Elaeis guineensis

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL28030

38 Samples

Download data: XLS

(Submitter supplied) In monocots other than the cereals maize and rice, the repertoire and diversity of microRNAs (miRNAs) and the populations of phased, secondary, small interfering RNAs (phasiRNAs) are poorly characterized. To remedy this, we sequenced small RNAs (sRNAs) from vegetative and dissected inflorescence tissue in 28 phylogenetically diverse monocots and from several early-diverging angiosperm lineages, as well as publicly available data from 10 additional monocot species. more...

Organism:

Acorus calamus; Setaria viridis; Canna indica; Anomochloa marantoidea; Kniphofia uvaria; Phalaenopsis equestris; Sagittaria montevidensis; Freycinetia cumingiana; Liriope muscari; Musa acuminata var. zebrina; Musa ABB Group; Musa acuminata AAA Group; Sorghum bicolor; Zea mays; Cyperus alternifolius; Zostera marina; Streptochaeta angustifolia; Elaeis guineensis; Nymphaea colorata; Echinodorus uruguayensis; Raddia brasiliensis; Prosthechea radiata; Colocasia esculenta; Lemna gibba; Oryza glaberrima; Ananas comosus; Cocos nucifera; Phyllostachys edulis; Phoenix dactylifera; Hemerocallis lilioasphodelus; Pharus parvifolius; Tradescantia fluminensis; Goudaea ospinae

Type:

Non-coding RNA profiling by high throughput sequencing

34 related Platforms

195 Samples

Download data: TXT

(Submitter supplied) Leaf tissue was sampled from clonal palms producing normal and mantled fruits. RNAseq libraries were generated and sequenced on Illumina platform. Differential expression analysis was carried out between the normal and mantled groups of palms.

Organism:

Elaeis guineensis

Type:

Expression profiling by high throughput sequencing

Platform:

GPL28030

10 Samples

Download data: TXT

(Submitter supplied) Identification of differentially expressed genes from RNA-seq of normal and mantled male floral organs (staminodia) obtained from laser capture microdissection. Differential expression analysis was also conducted on normal and mantled female floral organs (carpel) using the same approach.

Organism:

Elaeis guineensis

Type:

Expression profiling by high throughput sequencing

Platform:

GPL25148

12 Samples

Download data: TXT

(Submitter supplied) The oil palm fruit abnormality, mantled, is a somaclonal variant arising from tissue culture that drastically reduces yield, and has largely halted efforts to clone elite hybrids for breeding and oil production. Widely regarded as epigenetic, mantling had defied explanation, and has become an icon of unsustainability in environmentally sensitive tropical plantation crops. We identified the MANTLED gene using Epigenome Wide Association analysis of genetically identical palms from multiple clonal lineages. more...

Organism:

Elaeis guineensis

Type:

Methylation profiling by genome tiling array

Platform:

GPL20159

98 Samples

Download data: PAIR, TXT

(Submitter supplied) EG5 Build RefSeq:GCF_000442705.1 Note: Original array design was based on the early P1 build and remapped to EG5 for analysis. Genome coordinates in platform table reflect remapping to EG5. Protocol: The microarray design was based on the E. guineensis genome (Singh, 2013, Oil palm genome sequence reveals divergence of interfertile species in Old and New worlds. Nature 500, 335-339) and contains over 1 million 60 base probes. more...

Organism:

Elaeis guineensis

1 Series

98 Samples

Download data: NDF, POS, XLSX