GEO DataSets

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:

Nannochloropsis oceanica

Type:

Expression profiling by high throughput sequencing; Genome binding/occupancy profiling by high throughput sequencing

Platforms:

GPL20272 GPL16324

14 Samples

Download data: BEDGRAPH, TXT

(Submitter supplied) Epigenetic regulation in response to CO2 fluctuation and epigenome-association with phenotypic plasticity of CCM are firstly uncovered in marine microalga Nannochloropsis oceanica IMET1. The result showed that Kbu and H3K9m2 histone modifications were present in N. oceanica IMET1. Moreover, both Kbu and H3K9m2 positively regulated gene expression.

Organism:

Nannochloropsis oceanica

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL20272

8 Samples

Download data: BEDGRAPH, TSV

(Submitter supplied) To be consistent with ChIP-seq data in this study, transcription regulation of CCM was reaccessed. In this experiment, about 800M clean reads were obtained for each sample. Obtained clean reads in each sample were over 84%, which were then mapped to the N. oceanica IMET1 reference genome. Differential expression analysis between low CO2-treated (LC) and control (high CO2; 5% CO2; HC) samples was performed by edgeR. more...

Organism:

Nannochloropsis oceanica

Type:

Expression profiling by high throughput sequencing

Platform:

GPL16324

6 Samples

Download data: TXT

(Submitter supplied) Lysine lactylation (Kla) is a kind of novel post-translational modification (PTM), which participates in gene expression and various metabolic processes. Nannochloropsis, a significant oleaginous microalgae of economic significance, demonstrates a remarkable capacity for triacylglycerol (TAG) production under nitrogen stress. To elucidate the involvement of lactylation in lipid synthesis, we conducted ChIP-seq and mRNA-seq analyses to monitor lactylation modifications and transcriptome alterations in Nannochloropsis oceanica. more...

Organism:

Nannochloropsis oceanica

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL20272

12 Samples

Download data: BEDGRAPH, TSV

(Submitter supplied) Lysine lactylation (Kla) is a kind of novel post-translational modification (PTM), which participates in gene expression and various metabolic processes. Nannochloropsis, a significant oleaginous microalgae of economic significance, demonstrates a remarkable capacity for triacylglycerol (TAG) production under nitrogen stress. To elucidate the involvement of lactylation in lipid synthesis, we conducted ChIP-seq and mRNA-seq analyses to monitor lactylation modifications and transcriptome alterations in Nannochloropsis oceanica. more...

Organism:

Nannochloropsis oceanica

Type:

Expression profiling by high throughput sequencing

Platform:

GPL16324

6 Samples

Download data: TXT

(Submitter supplied) The candidate 6mA methylase and demethylase were knocked out, 6mA distributions were compared with wild-type.

Organism:

Nannochloropsis oceanica

Type:

Methylation profiling by high throughput sequencing

Platform:

GPL32626

15 Samples

Download data: GFF

(Submitter supplied) Transcriptional regulation in response to nitrogen stress for one ant two days, and epigenome-association with phenotypic plasticity of lipid metabolism are uncovered in marine microalga Nannochloropsis oceanica IMET1.

Organism:

Nannochloropsis oceanica

Type:

Expression profiling by high throughput sequencing

Platform:

GPL16324

6 Samples

Download data: XLS

(Submitter supplied) Epigenetic regulation in response to nitrogen stress for one ant two days, and epigenome-association with phenotypic plasticity of lipid metabolism are firstly uncovered in marine microalga Nannochloropsis oceanica IMET1. The result showed that H3K27ac, Kcr, Kbu and H3K36me2 histone modifications were present in N. oceanica IMET1. Moreover, they regulated gene expression.

Organism:

Nannochloropsis oceanica

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL20272

18 Samples

Download data: BEDGRAPH, TSV

(Submitter supplied) Reorganization of 3D chromatin structure in response to nitrogen stress for one ant two days, and epigenome-association with phenotypic plasticity of lipid metabolism are firstly uncovered in marine microalga Nannochloropsis oceanica IMET1.

Organism:

Nannochloropsis oceanica strain IMET1

Type:

Other

Platform:

GPL33034

6 Samples

Download data: TXT

(Submitter supplied) N. oceanica IMET1 was inoculated into modified f/2 liquid medium, which was prepared with 35 g L−1 sea salt, 1 g L−1 NaNO3, 67 mg L−1 NaH2PO4*H2O, 3.65 mg L−1 FeCl3*6H2O, 4.37 mg L−1 Na2EDTA*2H2O, trace metal mix (0.0196 mg L−1 CuSO4*5H2O, 0.0126 mg L−1 NaMoO4*2H2O, 0.044 mg L−1 ZnSO4*7H2O, 0.01 mg L−1 CoCl2, and 0.36 mg L−1 MnCl2*4H2O), and vitamin mix (2.5 µg L−1 VB12, 2.5 µg L−1 biotin, and 0.5 µg L−1 thiamine HCl). more...

Organism:

Nannochloropsis oceanica strain IMET1

Type:

Expression profiling by high throughput sequencing

Platform:

GPL30299

15 Samples

Download data: TXT

(Submitter supplied) We report the transcriptomic dynamics and metabolic adaptation of Nannochloropsis oceanica to blue (410nm) and red (680nm) light by high-throghout Next-generation sequencing (NGS). Preferential excitation of different light spectra induces massive reprogramming of the Nannochloropsis transcriptome.

Organism:

Nannochloropsis oceanica

Type:

Expression profiling by high throughput sequencing

Platform:

GPL16324

15 Samples

Download data: FA, GTF, TXT

(Submitter supplied) Nannochloropsis gaditana cells were cultivated under continuous light as a control condition versus 3 different flashing light conditions (FL5, FL50 and FL500). This study is complementary to Lima et al. (2020) where physiology and photosynthetic capacity were assesed. Here we analyzed the mRNA expression level of key genes related to photoshynthesis, lipid and starch synthesis, and nitrogen assimilation. more...

Organism:

Nannochloropsis gaditana

Type:

Expression profiling by RT-PCR

Platform:

GPL32525

4 Samples

Download data: XLS

(Submitter supplied) We investigated light dependent gene expression changes in the marine ochrophyte Nannochloropsis oceanica CCMP1779. These algae have several putative blue light photoreceptors but appear to lack red light photoreceptors. To study early light signaling in N. oceanica and avoid as much as possible secondary downstream events, we quantified gene expression changes in dark-adapted cells after a short blue or red light pulse. more...

Organism:

Nannochloropsis oceanica

Type:

Expression profiling by high throughput sequencing

Platform:

GPL20272

6 Samples

Download data: CSV

(Submitter supplied) Phytoplankton lipids, such as microalgae lipids, are important compounds of increasing interest in bioenergy, food, pharmacy, aquaculture and ecology for their high molecular diversity. There is a taxonomically diverse lipid response under P stress with unresolved questions related to the diversified mechanism behind the lipid responses. A marine microalgae with high EPA content was isolated, named Nannochloropsis sp. more...

Organism:

Nannochloropsis sp.

Type:

Expression profiling by high throughput sequencing

Platform:

GPL25994

9 Samples

Download data: FASTA, TXT

(Submitter supplied) Oleaginous microalgae are considered a promising platform for the sustainable production of high-value lipids and biofuel feedstocks. However, current lipid yields are too low to allow for an economically feasible production process. Lipid yields could be enhanced by improving microalgal strains through genetic engineering. Strain improvement strategies for the industrially relevant genus Nannochloropsis have met limited success because most genes of this genus lack a functional annotation, hindering our understanding of lipid metabolism and its regulation. more...

Organism:

Nannochloropsis oceanica strain IMET1

Type:

Expression profiling by high throughput sequencing

Platform:

GPL29740

6 Samples

Download data: XLSX

(Submitter supplied) We isolated a Nannochloropsis oceanica LHCR mutant, named hlr1, which exhibits a greater tolerance to high light (HL) stress compared to the wild type.Global gene expression of WT and the hlr1 mutant, as a function of time in dark incubation (DK) and under high irradiance was measured by mRNA-Seq

Organism:

Nannochloropsis oceanica

Type:

Expression profiling by high throughput sequencing

Platform:

GPL20272

10 Samples

Download data: TXT

(Submitter supplied) In Nannochloropsis oceanica IMET1, transcript knockdown of a cytosolic carbonic anhydrase (CA2; g2018) specifically inhibited by HC resulted in ~45%, ~30% and ~40% elevation of photosynthetic oxygen evolution rate, growth rate and biomass accumulation rate under high CO2 (5% ), respectively. This CA2-knockdown mutant is demonated as M2. To probe mechanistic links underlying the mutant (M2; RNAi-knockdown line of carbonic anhydrase (CA2)) phenotypes, temporal transcriptomic profiles are compared between RNAi-knockdown line of carbonic anhydrase (CA2) and WT, at 12 h and 24h under high CO2 (5%).

Organism:

Nannochloropsis oceanica

Type:

Expression profiling by high throughput sequencing

Platform:

GPL16324

12 Samples

Download data: TXT

(Submitter supplied) In our study, we modified the proportion of macroelements in f/2 medium, thus Nannochloropsis. oceanica can produce double total fatty acid (TFA) and septuple triacylglycerol (TAG) under phosphate deprivation (PD) with no significant changes in biomass, and no reduction in photosynthetic capacity during an earlier stage, to discover the molecular mechanisms of lipid product in Nannochloropsis. oceanica. more...

Organism:

Nannochloropsis oceanica

Type:

Expression profiling by high throughput sequencing

Platform:

GPL28483

15 Samples

Download data: TXT

(Submitter supplied) Purpose: The marine microalgae Nannochloropsis oceanica (CCMP1779) is a prolific producer of oil and is considered a viable and sustainable resource for biofuel feedstocks. Nitrogen (N) availability has a strong impact on the physiological status and metabolism of microalgal cells. However the exact nature of this response is poorly understood. To fill this gap we performed transcriptomic profiling combined with cellular and molecular analyses of N. more...

Organism:

Nannochloropsis oceanica

Type:

Expression profiling by high throughput sequencing

Platform:

GPL20272

44 Samples

Download data: FASTA, TXT

(Submitter supplied) Limited systems-level understanding of CO2 concentrating mechanism (CCM) and metabolic adaption in response to different CO2-level in wild oleaginous algae has hindered the development of microalgal feedstock and the knowledge of its role in global warming and oceanic acidification. Nannochloropsis are a group of small unicellular microalgae widely distributed in oceans and fresh water, which implies that it plays a crucial role in biogeochemical cycles impinged on global climate change. more...

Organism:

Nannochloropsis oceanica

Type:

Expression profiling by high throughput sequencing

Platform:

GPL16324

18 Samples

Download data: TXT