GEO DataSets

(Submitter supplied) We used RNA-Seq to compare the transcriptomes of Fe-replete vs. Fe-deficient vs. Fe-limited Chlamydomonas wild-type cells. Our RNA-Seq data revealed 90 and 49 genes to be specifically expressed under hetero-phototrophic and phototrophic conditions, respectively. Around 30 genes represent putative Fe-deficiency targets, independent of the carbon source used. Many of these Fe-specific responses are conserved between Chlamydomonas and land plants. more...

Organism:

Chlamydomonas reinhardtii

Type:

Expression profiling by high throughput sequencing

Platform:

GPL15083

20 Samples

Download data: BOWTIE

(Submitter supplied) Three acyltransferases, DGAT1, DGTT1, and PDAT1, are induced by nitrogen starvation and are likely to have a role in TAG accumulation based on their patterns of expression. Each gene also shows increased mRNA abundance in other TAG-accumulating conditions (-S, -P, -Zn, -Fe). Insertional mutants, pdat1-1 and pdat1-2, accumulate 25% less TAG compared to the parent strain, D66+, which demonstrates the relevance of the trans-acylation pathway in Chlamydomonas. more...

Organism:

Chlamydomonas reinhardtii

Type:

Expression profiling by high throughput sequencing

Platform:

GPL9100

30 Samples

Download data: BOWTIE

(Submitter supplied) We used digital gene expression (NlaIII sequence tags) and RNA-Seq to compare the transcriptomes of Cu-replete vs. Cu–deficient Chlamydomonas wild-type cells to reveal dozens of mRNAs whose abundance is modified. Half of the corresponding genes are targets of CRR1, a master regulator of nutritional copper sensing, and are associated with candidate CRR1 binding sites. The targets include many plastid-localized proteins, like FDX5 encoding a ferredoxin isoform, and CGL78, encoding a protein conserved in the green lineage, indicative of modified plastid metabolism. more...

Organism:

Chlamydomonas reinhardtii

Type:

Expression profiling by high throughput sequencing

Platforms:

GPL9152 GPL9100

34 Samples

Download data: TXT, WIG

(Submitter supplied) To understand the molecular basis underlying increased triacylglycerol accumulation in starchless Chlamydomonas mutants, we undertook comparative time course transcriptomics of sta6 (CC-4348), a cw strain purported to represent the parental STA6 strain (CC-4349), and 3 independent STA6 strains (STA6-C2, STA6-C4 and STA6-C6, generated by complementation of sta6, CC-4565, –4566 and –4567) in the context of nitrogen deprivation. more...

Organism:

Chlamydomonas reinhardtii

Type:

Expression profiling by high throughput sequencing

Platforms:

GPL17828 GPL15083

31 Samples

Download data: TXT

(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) C. reinhardtii cells exposed to abiotic stresses (e.g. iron-, nitrogen-, zinc- or phosphorus-deficiency) accumulate TAGs which are stored in lipid droplets. Here, we report that iron starvation leads to formation of lipids bodies and accumulation of TAGs. This occurs between 12 and 24 h of iron-starvation. C. reinhardtii cells deprived for iron have more saturated FA, due to the loss of functional FA desaturases, which are diiron enzymes. more...

Organism:

Chlamydomonas reinhardtii

Type:

Expression profiling by high throughput sequencing

Platform:

GPL15922

9 Samples

Download data: TXT

(Submitter supplied) The l-galactose (Smirnoff-Wheeler) pathway represents the major route to l-ascorbic acid (vitamin C) biosynthesis in plants. Arabidopsis thaliana VTC2 and its paralogue VTC5 function as GDP-l-galactose phosphorylases converting GDP-l-galactose to l-galactose-1-P, thus catalyzing the first committed step in the biosynthesis of l-ascorbate. Here we report that the l-galactose pathway of ascorbate biosynthesis described in higher plants is conserved in green algae. more...

Organism:

Chlamydomonas reinhardtii

Type:

Expression profiling by high throughput sequencing

Platform:

GPL15083

3 Samples

Download data: BOWTIE

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

Organism:

Chlamydomonas reinhardtii

Type:

Expression profiling by high throughput sequencing

Platforms:

GPL10980 GPL9100

8 Samples

Download data: TXT

(Submitter supplied) Chlamydomonas reinhardtii forms lipid droplets rich in triacylglycerols when nutrient-deprived. To begin studying the mechanisms underlying this process, N-deprivation was used to induce triacylglycerol accumulation and changes in developmental programs such as gametogenesis. Comparative global analysis of transcripts under induced and non-induced conditions was applied as a first approach to study molecular changes that promote or accompany triacylglycerol accumulation in cells encountering a new nutrient environment. more...

Organism:

Chlamydomonas reinhardtii

Type:

Expression profiling by high throughput sequencing

Platform:

GPL10980

2 Samples

Download data: TXT

(Submitter supplied) Chlamydomonas reinhardtii forms lipid droplets rich in triacylglycerols when nutrient-deprived. To begin studying the mechanisms underlying this process, N-deprivation was used to induce triacylglycerol accumulation and changes in developmental programs such as gametogenesis. Comparative global analysis of transcripts under induced and non-induced conditions was applied as a first approach to study molecular changes that promote or accompany triacylglycerol accumulation in cells encountering a new nutrient environment. more...

Organism:

Chlamydomonas reinhardtii

Type:

Expression profiling by high throughput sequencing

Platform:

GPL9100

6 Samples

Download data: TXT

(Submitter supplied) We used Chlamydomonas microarray v2.0 to compare the time course expression profiles of two Chlamydomonas reinhardtii strains: wild-type WT and the high hydrogen producing mutant Stm6Glc4 during sulfur starvation induced hydrogen production. Major cellular reorganizations in photosynthetic apparatus, sulfur and carbon metabolism upon H2 production were confirmed as common to both strains. More importantly, our results pointed out factors which lead to the higher hydrogen production in the mutant including higher light sensitivity and lower competitions with hydrogenase by alternative electron sinks. more...

Organism:

Chlamydomonas reinhardtii

Type:

Expression profiling by array

Platform:

GPL5914

33 Samples

Download data: TXT

(Submitter supplied) The purpose of this experiment was to identify any genes differentially expressed between the Soybean Near Isogenic Lines iron efficient Clark and iron inefficient IsoClark under iron sufficient hydroponic conditions. These genes would represent constituative genetic differences between the NILs. Keywords: Near Isogenic Line Comparison of Unstressed Soybean Plants

Organism:

Glycine max

Type:

Expression profiling by array

Platform:

GPL3015

6 Samples

Download data: TXT

(Submitter supplied) This experiment was designed to identify candidate genes related to iron deficiency chlorosis in soybeans that are differentially expressed between near isogenic lines developed for their differential tolerance to low iron conditons. Keywords: Stress Response Analysis

Organism:

Glycine max

Type:

Expression profiling by array

Platform:

GPL1013

6 Samples

Download data: GPR

(Submitter supplied) Fe deficiency stimulates a coordinated response involving reduction, transport and redistribution of Fe in the roots. The expression of genes regulated by Fe deficiency in the two contrasting Arabidopsis thaliana ecotypes, Tsu-1 and Kas-1, shows that different ecotypes can respond in diverse ways, with different Fe regulated overrepresented categories. We use microarrays to analyze the Fe deficiency responses of contrasting Arabidopsis thaliana ecotypes (Tsu-1 and Kas-1).

Organism:

Arabidopsis thaliana

Type:

Expression profiling by array

Platform:

GPL198

18 Samples

Download data: CEL

(Submitter supplied) When the sta6 (starch-null) strain of the green microalga Chlamydomonas reinhardtii is nitrogen-starved in acetate and then "boosted" after two days with additional acetate, the cells become "obese" after eight days, with triacylglyceride-filled lipid bodies filling their cytoplasm and chloroplasts. To assess the transcriptional correlates of this response, sta6 and the starch-forming cw15 strain were subjected to RNA-Seq analysis during the two days prior and two days post boost, and the data were compared with published reports using other strains and growth conditions. more...

Organism:

Chlamydomonas reinhardtii

Type:

Expression profiling by high throughput sequencing

Platform:

GPL15922

34 Samples

Download data: TXT

(Submitter supplied) The Chlamydomonas reinhardtii transcription factor PSR1 is required for the control of activities involved in scavenging phosphate from the environment during periods of phosphorus limitation. Increased scavenging activity reflects the development of high-affinity phosphate transport and the expression of extracellular phosphatases that can cleave phosphate from organic compounds in the environment. more...

Organism:

Chlamydomonas reinhardtii

Type:

Expression profiling by array

Platform:

GPL3599

45 Samples

Download data

(Submitter supplied) Zinc is an essential nutrient because of its role in catalysis and in stabilizing protein structure, but excess zinc can also be deleterious. Four nutritional zinc states have been identified in the alga Chlamydomonas reinhardtii: zinc toxic, zinc replete, zinc deficient and zinc limited. Growth is inhibited in zinc-limited and zinc toxic cells relative to zinc-replete cells, while zinc-deficiency is visually asymptomatic but distinguished by the accumulation of transcripts encoding ZIP family transporters. more...

Organism:

Chlamydomonas reinhardtii

Type:

Expression profiling by high throughput sequencing

Platform:

GPL9152

1 Sample

Download data: TXT

(Submitter supplied) The transition metal copper (Cu) is an essential element for all living organisms. In plants, Cu plays key roles in electron transport chains of chloroplasts and mitochondria, as well as in cell wall metabolism, ethylene perception, molybdenum cofactor synthesis and oxidative stress protection. Because of its physiological importance, suboptimal concentrations of Cu trigger a re-organization of metabolism to economize on Cu, and pronounced Cu deficiency causes severe growth reduction and defects in male fertility. more...

Organism:

Arabidopsis thaliana

Type:

Expression profiling by high throughput sequencing

Platform:

GPL9302

8 Samples

Download data: TXT

(Submitter supplied) We did single cell RNA sequencing on cultured chlamydomonas cells. We used two strains, one with cell wall, one without cell wall. The cells were cultured under three different conditions, with iron, without iron and without nitrogen.

Organism:

Chlamydomonas reinhardtii

Type:

Expression profiling by high throughput sequencing

Platforms:

GPL29113 GPL25829

9 Samples

Download data: CSV

(Submitter supplied) Essential metals such as iron are required for healthy plant growth. Fe is an important cofactor and catalytic element in many biological processes. Fe and other metals can also be toxic when present in excess. Therefore plants have mechanisms of metal homeostasis which involve coordination of metal ion transporters for uptake, translocation and compartmentalisation. The NAS genes are supposed to play an important role in Fe homeostasis. more...

Organism:

Arabidopsis thaliana

Type:

Expression profiling by array

Platform:

GPL198

24 Samples

Download data: CEL, CHP