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Items: 1 to 20 of 692

1.

Metabolic and transcriptional response to the induction of a heterologous poly-3-hydroxybutyrate pathway in Phaeodactylum tricornutum

(Submitter supplied) The marine diatom Phaeodactylum tricornutum is an emerging host for metabolic engineering, but little is known about how introduced pathways are integrated into the existing metabolic framework of the host and how this influences trans- and native-gene expression. In this study we used episomal vectors to express the heterologous poly-3-hydroxybutyrate (PHB) pathway in diatoms, which produces precursors for polymeric bioplastics from acetyl coenzyme-A (AcCoA). more...
Organism:
Phaeodactylum tricornutum CCAP 1055/1
Type:
Expression profiling by high throughput sequencing
Platform:
GPL33107
24 Samples
Download data: XLSX
Series
Accession:
GSE224880
ID:
200224880
2.

Anylasis of the diatom Phaeodactylum tricornutum under 64-75-5,Tetracycline hydrochloride stress

(Submitter supplied) Anylasis of the diatom Phaeodactylum tricornutum under 64-75-5,Tetracycline hydrochloride stress
Organism:
Phaeodactylum tricornutum
Type:
Expression profiling by high throughput sequencing
Platform:
GPL19904
6 Samples
Download data: TXT
Series
Accession:
GSE218473
ID:
200218473
3.

Evolutionary and functional analysis of DNA methyltransferases in micro-eukaryotes: Insights from the model diatom Phaeodactylum tricornutum

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.
Organism:
Phaeodactylum tricornutum
Type:
Methylation profiling by high throughput sequencing; Expression profiling by high throughput sequencing
Platform:
GPL30913
9 Samples
Download data: BW, TSV
Series
Accession:
GSE186857
ID:
200186857
4.

Evolutionary and functional analysis of DNA methyltransferases in micro-eukaryotes: Insights from the model diatom Phaeodactylum tricornutum [RNA-seq]

(Submitter supplied) Loss of DNA methylation is traditionally associated with transcriptional up-regulation of transposable elements. Here we describe for the first time expression changes upon loss of DNA methylation in diatoms using Phaeodactylum tricornutum as a model species. The loss of DNA methylation was obtained by generation of DNMT5 KOs, a divergent DNMT with SNF-like domains. Expression analysis confirm the loss of DNA methylation is associated with de-repression of transposable elements in Phaeodactylum tricornutum with indirect effects on protein coding genes.
Organism:
Phaeodactylum tricornutum
Type:
Expression profiling by high throughput sequencing
Platform:
GPL30913
6 Samples
Download data: TSV
Series
Accession:
GSE186856
ID:
200186856
5.

Evolutionary and functional analysis of DNA methyltransferases in micro-eukaryotes: Insights from the model diatom Phaeodactylum tricornutum [Bisulfite-Seq]

(Submitter supplied) DNA methylation has been associated with transcriptional repression of transposable elements. Here we describe the first DNA methylation deficient cell line of a diatom by generating DNMT5:KOs in Phaeodactylum tricornutum. These data show the extend of the loss of DNA methylation in DNMT5:KOs compared to the reference strain. All DNA methylation is lost in DNMT5:KOs.
Organism:
Phaeodactylum tricornutum
Type:
Methylation profiling by high throughput sequencing
Platform:
GPL30913
3 Samples
Download data: BW
Series
Accession:
GSE186855
ID:
200186855
6.

Analysis of the α-1,3 fucosyltransferase gene funtion in diatom Phaeodactylum tricornutum

(Submitter supplied) Anylasis of the α-1,3 fucosyltransferase gene function in diatom Phaeodactylum tricornutum
Organism:
Phaeodactylum tricornutum
Type:
Expression profiling by high throughput sequencing
Platform:
GPL19904
9 Samples
Download data: TXT
Series
Accession:
GSE214570
ID:
200214570
7.

Regulatory mechanism of diurnal fluctuated laminarin in diatom Phaeodactylum tricornutum

(Submitter supplied) Diatoms played an essential role in marine primary productivity. Polysaccharide chrysolaminarin and neutral lipid, mainly TAG, were necessary carbon fixation in diatom Phaeodactylum tricornutum. Our study speculated on the metabolism pathway of chrysolaminarin, fatty acid, fatty acid β-oxidation and TAG. Transcriptional levels coordinated with carbon fixation metabolism pathway were conjoint analysis in this study. 
Organism:
Phaeodactylum tricornutum
Type:
Expression profiling by high throughput sequencing
Platform:
GPL19904
21 Samples
Download data: TXT
Series
Accession:
GSE210141
ID:
200210141
8.

Tunicamycin-induced Endoplasmic Reticulum-Quality Control Pathway and Endoplasmic Reticulum-Associated Degradation Mechanism in the diatom Phaeodactylum tricornutum

(Submitter supplied) Tunicamycin inhibits the first step of protein N-glycosylation modification. However, the physiological, transcriptomic, and N-glycomic effects of tunicamycin on important marine diatom Phaeodactylum tricornutum are still unknown. In this study, comprehensive approaches were used to study the effects. The results showed that cell growth and photosynthesis were significantly inhibited in P. tricornutum under the tunicamycin stress. more...
Organism:
Phaeodactylum tricornutum
Type:
Expression profiling by high throughput sequencing
Platform:
GPL19904
6 Samples
Download data: TXT
Series
Accession:
GSE209809
ID:
200209809
9.

Quantitative Analysis of Phaeodactylum tricornutum transcriptomes

(Submitter supplied) Purpose: Using RNAseq to profile transcriptomes to compare wildtype and PtTryp2 knockout lines across different nutrient conditions, aim to further explore the molecular function of PtTryp2 in regulating cell growth and responses to N- and P-stress. Methods: Libraries for RNAseq were created from 1µg of mRNA from each culture. The resulting libraries were loaded into the patterned nanoarray, and single-end 50 bp reads were generated on BGIseq500 platform (BGI-Shenzhen, China), with a data output of about 22 M total clean reads for each library. more...
Organism:
Phaeodactylum tricornutum
Type:
Expression profiling by high throughput sequencing
Platform:
GPL32251
18 Samples
Download data: RESULTS
Series
Accession:
GSE202896
ID:
200202896
10.

Thermal transcriptome

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.
Organism:
Phaeodactylum tricornutum; Synechocystis sp. PCC 6803
Type:
Expression profiling by high throughput sequencing
Platforms:
GPL24784 GPL28944
188 Samples
Download data: TXT
Series
Accession:
GSE186039
ID:
200186039
11.

Thermal transcriptome of Phaeodactylum tricornutum in steady-state growth

(Submitter supplied) Here we use a transcriptomic approach to investigate the molecular underpinnings of thermal acclimation in the model diatom species Phaeodactylum tricornutum by comparing the differential gene expression in cultures acclimated to sub-optimal, optimal, and supra-optimal temperatures (10, 20 and 26.5 °C, respectively).
Organism:
Phaeodactylum tricornutum
Type:
Expression profiling by high throughput sequencing
Platform:
GPL24784
12 Samples
Download data: TXT
Series
Accession:
GSE186035
ID:
200186035
12.

Thermal transcriptome of Phaeodactylum tricornutum in response to gradual heat stress

(Submitter supplied) Here we use a transcriptomic approach to investigate the molecular underpinnings of thermal stress in the model diatom species Phaeodactylum tricornutum. We expose cultures to high temperature (optimal +8°C) and follow changes in gene expression through time (over a 12 hour period) in comparison to optimal conditions (20 °C).
Organism:
Phaeodactylum tricornutum
Type:
Expression profiling by high throughput sequencing
Platform:
GPL24784
104 Samples
Download data: TXT
Series
Accession:
GSE186033
ID:
200186033
13.

Toxicity and mechanisms of atrazine to the photosynthetic physiology and central carbon metabolism of Phaeodactylum tricornutum, at environmental dose

(Submitter supplied) Atrazine is one of the most commonly used herbicide and has been frequently detected in estuarine and offshore waters worldwide. As a photosystem Ⅱ inhibitor, atrazine may inhibit phytoplankton from fixating of CO2 and alter its carbon metabolism, which will undoubtedly have negative effect on the primary productivity and carbon sequestration capacity of coastal waters. However, the existing reports mainly focused on agriculture and freshwater ecosystems and are mostly toxicity test with high-dose of atrazine, which have little concern about the negative effects of atrazine on the carbon metabolism of phytoplankton and can’t reflect the actual toxic situation in offshore water. more...
Organism:
Phaeodactylum tricornutum
Type:
Expression profiling by high throughput sequencing
Platform:
GPL24784
18 Samples
Download data: TXT
Series
Accession:
GSE112478
ID:
200112478
14.

The aureochrome photoreceptor PtAUREO1a is a highly effective blue light switch in diatoms

(Submitter supplied) Aureochromes represent a unique type of blue-light photoreceptors that possess a blue-light sensing flavin-binding LOV-domain and a DNA-binding bZIP domain. Therefore, in contrast to other photoreceptors, aureochromes are considered as light-driven transcription factors. As a member of the essential group of marine primary producers, the pennate diatom Phaeodactylum tricornutum possesses four aureochromes (PtAUREO1a, 1b, 1c, 2). more...
Organism:
Phaeodactylum tricornutum
Type:
Expression profiling by high throughput sequencing
Platforms:
GPL17128 GPL29196
30 Samples
Download data: XLSX
Series
Accession:
GSE158698
ID:
200158698
15.

Early dynamics of photosynthetic Lhcf2 and Lhcf15 transcription and mRNA stabilities in response to herbivory-related decadienal in Phaeodactylum tricornutum

(Submitter supplied) During grazing, damaged cells of various diatom species release oxylipins whose functions include signaling to nearby undamaged cells. Our study focused on the effects of the oxylipin 2-trans, 4-trans-decadienal (DD) during the light cycle on photosynthetic light harvesting complex (LHC) mRNA regulation in Phaeodactylum tricornutum. RNAseq data revealed extensive suppression of LHC mRNAs measured at 3 h while a smaller set of LHC mRNAs were up-regulated. more...
Organism:
Phaeodactylum tricornutum
Type:
Expression profiling by high throughput sequencing
Platform:
GPL17128
8 Samples
Download data: TSV
Series
Accession:
GSE142157
ID:
200142157
16.

Mapping of H3K4me3 in the model diatom Phaeodactylum tricornutum

(Submitter supplied) Chromatin organization in Phaeodactylum tricornutum
Organism:
Phaeodactylum tricornutum
Type:
Genome binding/occupancy profiling by high throughput sequencing
Platform:
GPL19904
3 Samples
Download data: TXT
Series
Accession:
GSE139676
ID:
200139676
17.

The retrograde signals responsible for photoacclimation in the marine diatom Phaeodactylum tricornutum

(Submitter supplied) Photoacclimation of unicellular algae allows for reversible changes in the number and/or effective absorption cross section of photosynthetic units on time scales of hours to days in response to changes in irradiance. The process involves an enigmatic signaling pathway from the plastid to the nucleus.Our results reveal, for the first time, a fundamental pathway of retrograde signal transduction in a eukaryotic photosynthetic alga.
Organism:
Phaeodactylum tricornutum
Type:
Expression profiling by high throughput sequencing
Platform:
GPL18499
6 Samples
Download data: TXT
Series
Accession:
GSE133301
ID:
200133301
18.

bHLH-PAS protein RITMO1 regulates diel biological rhythms in the marine diatom Phaeodactylum tricornutum

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.
Organism:
Phaeodactylum tricornutum
Type:
Expression profiling by array
Platform:
GPL24762
106 Samples
Download data
Series
Accession:
GSE112268
ID:
200112268
19.

bHLH-PAS protein RITMO1 regulates diel biological rhythms in the marine diatom Phaeodactylum tricornutum

(Submitter supplied) Periodic light–dark cycles govern the timing of basic biological processes in organisms inhabiting land as well as the sea, where life evolved. Although prominent marine phytoplanktonic organisms such as diatoms show robust diel rhythms, the mechanisms regulating these processes are still obscure. By characterizing a Phaeodactylum tricornutum bHLH-PAS nuclear protein, hereby named RITMO1, we shed light on the regulation of the daily life of diatoms. more...
Organism:
Phaeodactylum tricornutum
Type:
Expression profiling by array
Platform:
GPL24762
53 Samples
Download data: XLSX
Series
Accession:
GSE112267
ID:
200112267
20.

bHLH-PAS protein RITMO1 regulates diel biological rhythms in the marine diatom Phaeodactylum tricornutum

(Submitter supplied) Periodic light–dark cycles govern the timing of basic biological processes in organisms inhabiting land as well as the sea, where life evolved. Although prominent marine phytoplanktonic organisms such as diatoms show robust diel rhythms, the mechanisms regulating these processes are still obscure. By characterizing a Phaeodactylum tricornutum bHLH-PAS nuclear protein, hereby named RITMO1, we shed light on the regulation of the daily life of diatoms. more...
Organism:
Phaeodactylum tricornutum
Type:
Expression profiling by array
Platform:
GPL24762
53 Samples
Download data: XLSX
Series
Accession:
GSE112266
ID:
200112266
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