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PHA microbial community

ABSTRACT: Microbial communities of polyhydroxyalkanoate (PHA)-based biodegradable composites plastisphere and of surrounding environmental matrix: a comparison between marine (seabed) and coastal sediments (dune sand) over a long-time scale

PROVIDER: PRJEB39187 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	ERR4314180_1.fastq.gz	Fastqsanger.gz
	ERR4314180_2.fastq.gz	Fastqsanger.gz
	ERR4314190_1.fastq.gz	Fastqsanger.gz
	ERR4314190_2.fastq.gz	Fastqsanger.gz
	ERR4314200_1.fastq.gz	Fastqsanger.gz

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Direct PHA accumulation

Project description:Enhanced polyhydroxyalkanoate (PHA) production by a combined growth and storage response in waste activated sludge

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Comprehensive proteomics analysis of polyhydroxyalkanoate (PHA) biology in Pseudomonas putida KT2440: the outer membrane lipoprotein OprL is a newly identified phasin Dataset 3

Project description:Pseudomonas putida KT2440 is an important bioplastic-producing industrial microorganism capable of synthesizing the polymeric carbon-rich storage material, polyhydroxyalkanoate (PHA). PHA is sequestered in discrete PHA granules, or carbonosomes, and accumulates under conditions of stress, for example low levels of available nitrogen. The pha locus responsible for PHA metabolism encodes both anabolic and catabolic enzymes, a transcription factor, and carbonosome-localized proteins termed phasins. The functions of phasins are incompletely understood but genetic disruption of their function causes PHA-related phenotypes. To improve our understanding of these proteins, we investigated the PHA pathways of P.putida KT2440 using three types of experiment. First, we profiled cells grown in nitrogen-limited and nitrogen-excess media using global expression proteomics, identifying sets of proteins found to co-ordinately increase or decrease within clustered pathway. Next, we analysed the protein composition of isolated carbonosomes, identifying two new putative components. We carried out physical interaction screens focused on PHA-related proteins, generating a protein-protein network comprising 434 connected proteins. Finally, we confirmed that the outer membrane protein OprL (the Pal component of the Pal-Tol system) localizes to the carbonosome and shows a PHA-related phenotype, and therefore is a novel phasin. The combined datasets represent a valuable overview of the protein components of the PHA system in P.putida highlighting the complex nature of regulatory interactions responsive to nutrient stress.

2024-06-16 | PXD045993 | Pride

CDK inhibitors PHA-848125 and PHA-690509 profiling on A2780

Project description:The effects of the CDK inhibitors PHA-848125 and PHA-690509 on the A2780 cell line were analysed by gene expression profiling.

2010-07-14 | GSE18486 | GEO

PHA-4 organogenesis

Project description:The pha-4 locus encodes a forkhead box A (FoxA/HNF3) transcription factor homolog that specifies organ identity for Caenorhabditis elegans pharyngeal cells. We used microarrays to identify pharyngeal genes and analyzed those genes to determine which were direct PHA-4 targets. Our data suggest that PHA-4 directly activates most or all pharyngeal genes. Furthermore, the relative affinity of PHA-4 for different TRTTKRY (R = A/G, K = T/G, Y = T/C) elements modulates the onset of gene expression, providing a mechanism to activate pharyngeal genes at different developmental stages. We suggest that direct transcriptional regulation of entire gene networks may be a common feature of organ identity genes. A genotyping experiment design type classifies an individual or group of individuals on the basis of alleles, haplotypes, SNP's. Keywords: genotyping_design

2005-11-26 | GSE3681 | GEO

CDK inhibitors PHA-848125 and PHA-690509 profiling on A2780

Project description:The effects of the CDK inhibitors PHA-848125 and PHA-690509 on the A2780 cell line were analysed by gene expression profiling. The A2780 cell line was treated with PHA-848125 (CDk-125) or PHA-690509 (CDk-509) for 6 hours at a dose equal to 5 times the IC50. Untreated A2780 cells were used as a control. Three replicates per treatment.

2010-07-14 | E-GEOD-18486 | biostudies-arrayexpress

RNA-seq analysis of recombinant Synechocystis sp. 6803 provides important insights for understanding polyhydroxyalkanoate production in cyanobacteria under photoautotrophic conditions

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RNA-seq analysis of recombinant Synechocystis sp. 6803 provides important insights for understanding polyhydroxyalkanoate production in cyanobacteria under photoautotrophic conditions

Project description:The direct photosynthetic production of polyhydroxyalkanoate in cyanobacteria was improved by increasing carbon flux to biosynthetic pathway and introducing enzyme with higher activity. To understand the global transcriptional changes under photoautotrophic PHA biosynthesis conditions, RNA-seq analysis was performed. Transcriptomes of recombinant Synechocystis sp. with different PHA-producing potential (three strains, two biological replicates for each strain) were analyzed.

2013-12-01 | E-GEOD-50688 | biostudies-arrayexpress

PHA-4 organogenesis

2005-11-25 | E-GEOD-3681 | biostudies-arrayexpress

PHA experiments

Project description:PHA production in sea-ice bacterial strains Halomonas and Paracoccus

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CDK inhibitor PHA-793887 profiling on A2780

Project description:The effects of the CDK inhibitor PHA-793887 on the A2780 human adenocarcinoma ovary cell line were analysed by gene expression profiling.

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