GEO DataSets

(Submitter supplied) In the actual context of climate changing environments, photosynthetic organisms need to adapt to more extreme conditions. Microalgae can be excellent organisms to understand molecular mechanisms that activate survival mechanisms under stress. Chlamydomonas reinhardtii signaling mutants are extremely useful to decipher which strategies they use to cope with changeable environments. In this study, we conducted prolonged starvation in wild type and vip1-1 Chlamydomonas cells. more...

Organism:

Chlamydomonas reinhardtii

Type:

Expression profiling by high throughput sequencing

Platform:

GPL25829

12 Samples

Download data: CSV

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

Organism:

Chlamydomonas reinhardtii

Type:

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

Platform:

GPL29113

42 Samples

Download data: BW, NARROWPEAK

(Submitter supplied) In sexual organisms, random meiotic recombination between homologous chromosomes is vital to maximize genetic variation among offspring. The sex-determining region (SDR), however, does not undergo recombination, as required for the maintenance of distinct alleles. The contribution of epigenetic versus genetic mechanisms to suppress recombination in SDRs and how the suppression mechanisms evolve remain poorly understood. more...

Organism:

Chlamydomonas reinhardtii

Type:

Methylation profiling by high throughput sequencing

Platform:

GPL29113

6 Samples

Download data: BW

(Submitter supplied) In sexual organisms, random meiotic recombination between homologous chromosomes is vital to maximize genetic variation among offspring. The sex-determining region (SDR), however, does not undergo recombination, as required for the maintenance of distinct alleles. The contribution of epigenetic versus genetic mechanisms to suppress recombination in SDRs and how the suppression mechanisms evolve remain poorly understood. more...

Organism:

Chlamydomonas reinhardtii

Type:

Expression profiling by high throughput sequencing

Platform:

GPL29113

8 Samples

Download data: TXT

(Submitter supplied) In sexual organisms, random meiotic recombination between homologous chromosomes is vital to maximize genetic variation among offspring. The sex-determining region (SDR), however, does not undergo recombination, as required for the maintenance of distinct alleles. The contribution of epigenetic versus genetic mechanisms to suppress recombination in SDRs and how the suppression mechanisms evolve remain poorly understood. more...

Organism:

Chlamydomonas reinhardtii

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL29113

28 Samples

Download data: BW, NARROWPEAK

(Submitter supplied) Low iron (Fe) bioavailability can limit the biosynthesis of Fe-containing proteins, which are especially abundant in photosynthetic organisms, thus negatively affecting global primary productivity. Understanding cellular coping mechanisms under Fe limitation is therefore of great interest. We surveyed the temporal responses of Chlamydomonas (Chlamydomonas reinhardtii) cells transitioning from an Fe-rich to an Fe-free medium to document their short- and long-term adjustments. more...

Organism:

Chlamydomonas reinhardtii

Type:

Expression profiling by high throughput sequencing

Platform:

GPL15922

18 Samples

Download data: TSV

(Submitter supplied) Maintenance of water homeostasis is a fundamental cellular process required by all living organisms. Here, we use the single-celled green alga Chlamydomonas reinhardtii to establish a foundational understanding of osmotic-stress signaling pathways through transcriptomics, phosphoproteomics, and functional genomics approaches. Comparison of pathways identified through these analyses with yeast and Arabidopsis allowed us to infer their evolutionary conservation and divergence across these lineages. more...

Organism:

Chlamydomonas reinhardtii

Type:

Expression profiling by high throughput sequencing

Platform:

GPL34271

45 Samples

Download data: TXT

(Submitter supplied) Comparative analysis of nascent transcription among plant species

Organism:

Chlamydomonas reinhardtii; Zea mays; Arabidopsis thaliana; Physcomitrium patens; Hordeum vulgare; Drosophila melanogaster; Selaginella moellendorffii; Carica papaya

Type:

Expression profiling by high throughput sequencing; Other; Non-coding RNA profiling by high throughput sequencing

17 related Platforms

68 Samples

Download data: BED, TXT, XLSX

(Submitter supplied) To investigate the gene regulatory effect of the phototropin receptor PHOT, RNAseq data of the corresponding knock-out mutant was compared to wt data grown in high and low light.

Organism:

Chlamydomonas reinhardtii

Type:

Expression profiling by high throughput sequencing

Platform:

GPL26362

12 Samples

Download data: TSV

(Submitter supplied) To investigate how acetate and high light stress affect gene expression in Chlamydomonas reinhardtii, RNAseq data from a timeline of cultures subjected to high light and different carbon sources was analyzed.

Organism:

Chlamydomonas reinhardtii

Type:

Expression profiling by high throughput sequencing

Platform:

GPL26362

42 Samples

Download data: TSV

(Submitter supplied) The overall transcriptome changes were discriminated by the radiation dose rather than the radiation type and manifested mainly by DNA damage response (DDR) genes. Transcription levels of major DDR genes were found to increase in a dose-dependent manner but were rarely affected by the radiation type.

Organism:

Chlamydomonas reinhardtii

Type:

Expression profiling by high throughput sequencing

Platform:

GPL29113

5 Samples

Download data: TXT

(Submitter supplied) Different high temperatures adversely affect crop and algal yields with various responses in photosynthetic cells. The list of genes required for thermotolerance remains elusive. Additionally, it is unclear how carbon source availability affects heat responses in plants and algae. We utilized the insertional, indexed, genome-saturating mutant library of the unicellular, eukaryotic green alga Chlamydomonas reinhardtii to perform genome-wide, quantitative, pooled screens under moderate (35oC) or acute (40oC) high temperatures with or without organic carbon sources. more...

Organism:

Chlamydomonas reinhardtii

Type:

Other

Platform:

GPL25829

26 Samples

Download data: CSV

(Submitter supplied) The detection of low-abundance DNA N6-methyladenine (DNA-m6A) remains challenging, limiting our understanding of this novel base in eukaryotes. To address this, we introduce an approach for systematically validating the selectivity and sensitivity of antibody-based DNA-m6A methods, revealing most commercial antibodies as poorly selective towards DNA-m6A. Finally, we validate selective anti-DNA-m6A antibodies with sensitivity <2 ppm, and expose distinct pathways mediating endogenous DNA-m6A in C. more...

Organism:

Chlamydomonas reinhardtii; Arabidopsis thaliana; Drosophila melanogaster

Type:

Methylation profiling by high throughput sequencing

Platforms:

GPL21306 GPL21785 GPL26362

22 Samples

Download data: NARROWPEAK

(Submitter supplied) DNA modification has been characterized as a critical epigenetic regulator in gene expression. N6-deoxyadenosine methylation (6mA) is the most widespread type in prokaryotes and some unicellular eukaryotes. Nevertheless, the lack of a precise and comprehensive mapping method greatly hinders studying the presence and biological significance of 6mA in mammals. Here, we develop a new method MM-seq (Modification-induced Mismatch Sequencing) for genome-wide 6mA mapping in single-base resolution. more...

Organism:

Homo sapiens; Mus musculus; Escherichia coli; Chlamydomonas reinhardtii

Type:

Other

4 related Platforms

16 Samples

Download data: TXT

(Submitter supplied) Protein synthesis is essential for cilium assembly, but little is known about translational reprogramming that occurs during ciliogenesis. Using ribosome footprinting, we perform global translatome profiling on Chlamydomonas during flagellar regeneration.

Organism:

Chlamydomonas reinhardtii; Caenorhabditis elegans

Type:

Expression profiling by high throughput sequencing; Other

Platforms:

GPL15922 GPL13657

28 Samples

Download data: BW, TXT

(Submitter supplied) Liquid cultures of the unicellular green alga, Chlamydomonas reinhardtii were grown in media with 6 uM Mn (control) or 1000 uM Mn (experimental), and analyzed by RNA-Seq to identify genes that are differentially expressed in response to excess Mn.

Organism:

Chlamydomonas reinhardtii

Type:

Expression profiling by high throughput sequencing

Platform:

GPL15922

6 Samples

Download data: TSV

(Submitter supplied) The transcriptome of a Chlamydomonas mutant, cht7, was compared with those of the two control strains. The CHT7 protein has been shown to play a role in regulating the transition into and out of a nitrogen-induced cell-cycle resting state, quiescence. To further clarify the role of CHT7 in cell cyle regulation, we performed RNA-seq to investigate the transcriptomic dynamics of photoautotrophically grown, synchronized cells of cht7 and the two controls at different stages of the cell cycle.

Organism:

Chlamydomonas reinhardtii

Type:

Expression profiling by high throughput sequencing

Platform:

GPL26362

81 Samples

Download data: CSV, SF

(Submitter supplied) It is highly necessary to understand the molecular mechanism underlying the salt stress response in green algae, which may contribute to finding the evolutionary cues of abiotic stress response in plants.In the present study, we examined the gene expression pattern in Chlamydomonas reinhardtii GY-D55 cells at different time points, from early stage (2-24 h) to late stage (up to 96 h).

Organism:

Chlamydomonas reinhardtii

Type:

Expression profiling by high throughput sequencing

Platform:

GPL29113

27 Samples

Download data: TXT

(Submitter supplied) Different intensities of high temperatures affect the growth of photosynthetic cells in nature. To elucidate the underlying mechanisms, we cultivated the unicellular green alga Chlamydomonas reinhardtii under highly controlled photobioreactor conditions and revealed systems-wide shared and unique responses to 24-hour moderate (35oC) and acute (40oC) high temperatures and subsequent recovery at 25oC. more...

Organism:

Chlamydomonas reinhardtii

Type:

Expression profiling by high throughput sequencing

Platform:

GPL29113

90 Samples

Download data: TXT

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

Organism:

Chlamydomonas reinhardtii

Type:

Expression profiling by high throughput sequencing

Platform:

GPL23650

4 Samples

Download data: FPKM_TRACKING