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148 results for “Chlamydomonas”
Time course global expression profiles of Chlamydomonas reinhardtii during photo-biological hydrogen production
GEO Series GSE30252. Chlamydomonas reinhardtii. 33 samples. Type: Expression profiling by array.
Single-Cell RNA Sequencing of Batch Chlamydomonas Cultures Reveals their Heterogeneity and Place Along the Diurnal Cycle
GEO Series GSE157580. Chlamydomonas reinhardtii. 9 samples. Type: Expression profiling by high throughput sequencing.
Time-course transcriptome analyses identify salt stress responding mechanisms in Chlamydomonas reinhardtii strain GY-D55
GEO Series GSE191218. Chlamydomonas reinhardtii. 27 samples. Type: Expression profiling by high throughput sequencing.
RNAseq Analysis of Transcriptomic Response to Zn Resupply in Chlamydomonas reinhardtii
GEO Series GSE58786. Chlamydomonas reinhardtii. 8 samples. Type: Expression profiling by high throughput sequencing.
Change in gene expression in Chlamydomonas reinhardtii upon heat shock and feeding with hemin and Mg-protoporphyrin
GEO Series GSE20861. Chlamydomonas reinhardtii. 40 samples. Type: Expression profiling by array.
Chlamydomonas diurnal transcriptome
GEO Series GSE71469. Chlamydomonas reinhardtii. 56 samples. Type: Expression profiling by high throughput sequencing.
Data from: An indexed, mapped mutant library enables reverse genetics studies of biological processes in Chlamydomonas reinhardtii
The green alga Chlamydomonas reinhardtii is a leading single-celled model for dissecting biological processes in photosynthetic eukaryotes. However, its usefulness has been limited by difficulties in obtaining mutants in genes of interest. To allow generation of large numbers of mapped mutants, we developed high-throughput methods which: (1) Enable easy propagation on agar and cryogenic maintenance of tens of thousands of C. reinhardtii strains; (2) Identify mutant insertion sites and physical coordinates in such collections; (3) Validate the insertion sites in pools of mutants by obtaining >500 bp of flanking genomic sequences. We used these approaches to construct a stably maintained library of 1,935 mapped mutants, representing disruptions in 1,562 genes. We further characterized randomly selected mutants, and found that 33 out of 44 insertion sites (75%) could be confirmed by PCR, and 17 out of 23 mutants (74%) contained a single insertion. To demonstrate the power of this library for elucidating biological processes, we analyzed the lipid content of mutants disrupted in genes encoding proteins of the algal lipid droplet proteome. This study revealed a central role of the long-chain acyl-CoA synthetase LCS2 in the production of triacylglycerol from de novo synthesized fatty acids.
Oil extraction report from Chlamydomonas reinhardtii engineered to produce ketocarotenoids
<p>Report of oil extraction efficiency on <em>Chlamydomonas reinhardtii</em> strain engineered to produce ketocarotenoids and astaxanthin.</p> <p> </p> <p><strong>Oil report on lab scale:</strong></p> <p>Oil extraction was performed as described in Perozeni et al. Plant Biotechnology Journal 2020, starting from different volumes of saturated culture (300, 600, 900, and 1800 ml). The cells were pelleted and dissolved in 25 ml of sunflower oil. The extraction was thus performed on wet biomass. After centrifugation, the oil extract was diluted in oil and the absorption spectrum was used to determine the ketocarotenoid concentration as described in Perozeni et al. Plant Biotechnology Journal 2020.</p> <p> </p> <p>The spectra recorded are in the sheet “Raw”. In the sheets “Quantification” there are the results of the ketocarotenoids quantification and the extraction efficiency. In the sheet "summary" the overall results in terms of starting material, final oil volume, ketocarotenoid concentration and extraction efficiency are presented.</p> <p>Samples:</p> <p>1x: extraction starting from 300ml of C. reinhardtii EN1 strain saturated culture, oil extract diluted 1:10 before measuring the absorption spectrum.</p> <p>2x: extraction starting from 600ml of C. reinhardtii EN1 strain saturated culture, oil extract diluted 1:100 before measuring the absorption spectrum.</p> <p>3x: extraction starting from 900ml of C. reinhardtii EN1 strain saturated culture, oil extract diluted 1:100 before measuring the absorption spectrum.</p> <p>6x: extraction starting from 1800ml of C. reinhardtii EN1 strain saturated culture, oil extract diluted 1:1000 before measuring the absorption spectrum.</p> <p>6x 3<sup>rd</sup> cycle: extraction starting from 5400ml of C. reinhardtii EN1 strain saturated culture in three extraction steps recycling in each step the oil used for extraction to increase ketocarotenoid concentration, oil extract diluted 1:1000 before measuring the absorption spectrum.</p> <p>6x 4<sup>th</sup> cycle: extraction starting from 7200ml of C. reinhardtii EN1 strain saturated culture in three extraction steps recycling in each step the oil used for extraction to increase ketocarotenoid concentration, oil extract diluted 1:1000 before measuring the absorption spectrum.</p> <p>6x 5<sup>th</sup> cycle: extraction starting from 9000ml of C. reinhardtii EN1 strain saturated culture in three extraction steps recycling in each step the oil used for extraction to increase ketocarotenoid concentration, oil extract diluted 1:1000 before measuring the absorption spectrum.</p> <p>6x 6<sup>th</sup> cycle: extraction starting from 10800ml of C. reinhardtii EN1 strain saturated culture in three extraction steps recycling in each step the oil used for extraction to increase ketocarotenoid concentration, oil extract diluted 1:1000 before measuring the absorption spectrum.</p> <p> </p> <p> </p> <p><strong>Oil extraction report on large scale:</strong></p> <p>Oil extraction was performed according to the procedure developed for lab scale starting from 200 gr of total dry biomass (corresponding to a volume of 250L of a saturated cell culture). The overall biomass was extracted in three independent extractions (Extraction 1, 2, and 3), recycling the oil extract for up to 4th cycle, keeping the same ratio of oil/biomass adopted in the lab scale experiment. In the case of Extraction 1 the extraction was performed on wet biomass, while Extraction 2 and 3 were performed on dry biomass. After Extractions 1 and 2, the final pellet obtained was further extracted in oil (samples “ 2nd extraction 1” and “2nd extraction 2”). The spectra recorded are in the sheet “Raw”. In the sheet “Quantification” there are the results of the ketocarotenoids quantification considering the dilution (in oil) applied to the oil extracts. </p> <p>In the sheet “extraction eff." the finalresults in terms of starting material, final oil volume, ketocarotenoid concentration and extraction efficiency are presented. The overall extraction efficiency obtained considering all the extraction performed and the total oil extracts obtained is also reported </p> <p> </p>
Expression vectors from "Description of a novel extremophile green algae, Chlamydomonas pacifica, and its potential as a biotechnology host."
<h2>Cytosolic vectors for Chlamydomonas reinhardtii</h2> <h3>pAH04 mCherry (5536 bp) <a href="https://www.zotero.org/google-docs/?nUyV9D">(Molino et al., 2018)</a></h3> <ul> <li> <p>AmpR (Ampicillin Resistance):</p> </li> </ul> <p>Positioned at approximately 4000 bp, this gene confers resistance to ampicillin, enabling bacterial selection.</p> <ul> <li> <p>Amp Promoter:</p> </li> </ul> <p>Regulates the expression of the AmpR gene, facilitating its transcription and subsequent resistance to ampicillin.</p> <ul> <li> <p>f1 ori:</p> </li> </ul> <p>Positioned near 5000 bp, this origin of replication (ori) facilitates plasmid replication in bacterial cells, ensuring propagation of the plasmid in E. coli.</p> <ul> <li> <p>PAR1 - HSP70 Promoter + RBCS2 Promoter:</p> </li> </ul> <p>A dual-promoter system that combines the heat-shock protein 70 (HSP70) and ribulose bisphosphate carboxylase small subunit 2 (RBCS2) promoters, providing strong and constitutive expression of downstream genes in Chlamydomonas.</p> <ul> <li> <p>mCherry:</p> </li> </ul> <p>Encodes the mCherry fluorescent protein, a red fluorescent marker commonly used for visualizing gene expression in vivo.</p> <ul> <li> <p>Ble (Bleomycin Resistance):</p> </li> </ul> <p>Provides resistance to bleomycin</p> <ul> <li> <p>Intron and UTRs (rbcS2):</p> </li> </ul> <p>Includes untranslated regions (UTRs) and introns from the rbcS2 gene, enhancing gene expression stability and processing in Chlamydomonas reinhardtii.</p> <ul> <li> <p>XbaI (93 bp) and KpnI (2750 bp):</p> </li> </ul> <p>These are key restriction enzyme sites used for cloning and linearization of the plasmid.</p> <p> </p> <h2>Secretion vectors for <em>Chlamydomonas pacifica</em></h2> <h3>pJPSHx1_PHL7 (5879 bp) <a href="https://www.zotero.org/google-docs/?mCtacP">(Molino, Oliver, et al., 2024)</a></h3> <ul> <li> <p>AmpR (Ampicillin Resistance):</p> </li> </ul> <p>Enables bacterial selection by conferring resistance to ampicillin.</p> <ul> <li> <p>Amp Promoter:</p> </li> </ul> <p>Drives the transcription of the AmpR gene, allowing for the maintenance of plasmids in ampicillin-containing media.</p> <ul> <li> <p>P_TUBA2 Promoter:</p> </li> </ul> <p>Promoter from the tubulin alpha-2 gene from C. pacifica that controls expression of downstream genes, including PHL7, in eukaryotic cells.</p> <ul> <li> <p>T_TUBA2</p> </li> </ul> <p>Terminator region of tubulin alpha-2 gene from C. pacifica</p> <ul> <li> <p>PHL7:</p> </li> </ul> <p>Encodes the PHL7 enzyme, a plastic-degrading enzyme, important for applications in biodegradation and recycling.</p> <ul> <li> <p>F2A Peptide:</p> </li> </ul> <p>A viral peptide sequence that allows for the co-expression and separation of proteins from a single mRNA transcript.</p> <ul> <li> <p>SP7 (Signal Peptide 7):</p> </li> </ul> <p>Directs the PHL7 protein to the secretory pathway for export from the cell.</p> <ul> <li> <p>Step Hygro aph7'' (Hygromycin Resistance):</p> </li> </ul> <p>Provides resistance to hygromycin, facilitating selection of transformed eukaryotic cells.</p> <ul> <li> <p>XbaI (56 bp) and KpnI (3056 bp):</p> </li> </ul> <p>These are key restriction enzyme sites used for cloning and linearization of the plasmid.</p> <p> </p> <p> </p> <p> </p>
Transcriptome profiling of the Chlamydomonas reinhardtii phot mutant
GEO Series GSE227473. Chlamydomonas reinhardtii. 12 samples. Type: Expression profiling by high throughput sequencing.
The biosynthesis of nitrous oxide in the green algae Chlamydomonas reinhardtii
GEO Series GSE90609. Chlamydomonas reinhardtii. 18 samples. Type: Expression profiling by high throughput sequencing.
High-throughput sequencing of small RNAs in Chlamydomonas reinhardtii
GEO Series GSE32457. Chlamydomonas reinhardtii. 3 samples. Type: Non-coding RNA profiling by high throughput sequencing.
Cell Cycle by Light Intensity in Chlamydomonas reinhardtii
GEO Series GSE275433. Chlamydomonas reinhardtii. 45 samples. Type: Expression profiling by high throughput sequencing.
Data from: An indexed, mapped mutant library enables reverse genetics studies of biological processes in Chlamydomonas reinhardtii
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Zinc deficiency impacts CO2 assimilation and disrupts copper homeostasis in Chlamydomonas reinhardtii
GEO Series GSE41096. Chlamydomonas reinhardtii. 1 samples. Type: Expression profiling by high throughput sequencing.
The Path to Triacylglyceride Obesity in the sta6 Strain of Chlamydomonas reinhardtii
GEO Series GSE55253. Chlamydomonas reinhardtii. 34 samples. Type: Expression profiling by high throughput sequencing.
Global transcriptome analysis of heterodimeric homeobox-driven zygote developmental program in Chlamydomonas reinhardtii
GEO Series GSE91400. Chlamydomonas reinhardtii. 8 samples. Type: Expression profiling by high throughput sequencing.
Global Changes in Chlamydomonas Gene Expression Regulated by Carbon Dioxide and CIA5/CCM1
GEO Series GSE33927. Chlamydomonas reinhardtii. 6 samples. Type: Expression profiling by high throughput sequencing.
Sulfur Starvation in Chlamydomonas
GEO Series GSE3015. Chlamydomonas reinhardtii. 22 samples. Type: Expression profiling by array.
Endogenous small RNAs from Chlamydomonas reinhardtii strain J3(mt-) vegetative cells
GEO Series GSE7575. Chlamydomonas reinhardtii. 1 samples. Type: Non-coding RNA profiling by high throughput sequencing.
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