Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Cell-specific gene expression in Anabaena variabilis grown phototrophically, mixotrophically, and heterotrophically

ABSTRACT: For the filamentous cyanobacterium Anabaena variabilis to grow without combined nitrogen, certain cells differentiate into heterocysts that fix N2, while vegetative cells perform photosynthesis. Much remains unknown on how heterocysts differ from vegetative cells in terms of carbon and energy metabolisms. Microarrays were used to investigate gene transcription patterns in vegetative cells, heterocysts, and filaments of N2-fixing phototrophic, mixotrophic, and heterotrophic cultures.

ORGANISM(S): Trichormus variabilis ATCC 29413

PROVIDER: GSE46076 | GEO | 2013/11/01

SECONDARY ACCESSION(S): PRJNA197205

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
		Other

Items per page:

1 - 1 of 1

Similar Datasets

Cell-specific gene expression in Anabaena variabilis grown phototrophically, mixotrophically, and heterotrophically

Project description:For the filamentous cyanobacterium Anabaena variabilis to grow without combined nitrogen, certain cells differentiate into heterocysts that fix N2, while vegetative cells perform photosynthesis. Much remains unknown on how heterocysts differ from vegetative cells in terms of carbon and energy metabolisms. Microarrays were used to investigate gene transcription patterns in vegetative cells, heterocysts, and filaments of N2-fixing phototrophic, mixotrophic, and heterotrophic cultures. Hybridizations used NimbleGen expression array chips (Product no. A4385-00-01, platform accession no GPL15883) designed against the 5,657 ORFs encoded in the A. variabilis genome (GenBank accession no. CP000117). Each ORF was represented by seventeen 60-mer oligonucleotides. Each oligonucleotide was present in four internal replicates. The twenty-seven microarray data files were normalized against each other. Expression array data were analyzed using ArrayStar 3.0 (DNASTAR, Madison, WI).

2013-11-01 | E-GEOD-46076 | biostudies-arrayexpress

Transcriptional Regulation of Anabaena 7120 response to Nitrogen Deprivation

2011-06-22 | GSE26633 | GEO

Transcriptional Regulation of Anabaena 7120 response to Nitrogen Deprivation

Project description:Here, we report the transcriptome of Anabaena sp. strain 7120, a cyanobacterium that forms specialized nitrogen-fixing cells called heterocysts. Our data suggests that cyanobacteria frequently have more complex transcripts than thought, with large 5' UTRs, numerous antisense transcripts, and multiple transcriptional start sites or processing sites. Four samples of total filament RNA were sequenced with Illumina 40bp reads using directional RNA sequencing (see the Illumina small RNA prep protocol). The samples are 0hr (vegetative cells grown in the presence of ammonia) and 6hr, 12hr, and 21hr cells (after nitrogen step down).

2011-06-22 | E-GEOD-26633 | biostudies-arrayexpress

Unbalancing FurB (Zur)-mediated homeostasis in Anabaena sp. PCC7120: Consequences on heterocyst development and biofilm formation

Project description:Here, we report the comparison of transcriptomes of Anabaena sp. PCC7120 and the FurB(Zur) deletion derivative strain (MN38). Anabaena sp PCC7120 is a cyanobacterium that differentiates specialized nitrogen-fixing cells called heterocysts and that is capable of forming biofilms. Our data showed that the deletion of FurB negativily affected the heterocyst development and the biofilm formation. In addition, the RNA-seq data together with gel retardation assays unveiled that FurB is directly involved in the regulation of several genes related to heterocyst development and biofilm formation and other novel functions different from the ones related to the canonical Zur regulon.

2023-09-14 | E-MTAB-12347 | biostudies-arrayexpress

RNA-seq of Nostoc sp. PCC 7120 (Anabaena sp. PCC 7120) wild-type strain compared to a FurC-overexpressing derivative strain grown in BG11 and after 48 hours of nitrogen-step down.

Project description:Here, we report the comparison of transcriptomes of Anabaena sp. PCC7120 and a FurC-overexpressing derivative strain grown under standard conditions (BG11) and after 48 hours of nitrogen step-down (BG110). Anabaena sp PCC7120 is a cyanobacterium that differentiates specialized nitrogen-fixing cells called heterocysts. Our data suggests that FurC directly controls the regulation of heterocyst differentiation and nitrogen fixation in this cyanobacterium. In addition, we found that FurC is also clearly involved in the regulation of several genes belonging to different functional categories, such as iron metabolism, photosynthesis and regulatory functions.

2020-04-28 | E-MTAB-8996 | biostudies-arrayexpress

Transcriptome analysis of a N. punctiforme sigG mutant

2015-09-01 | GSE61442 | GEO

4-plex iTRAQ comparative proteomics Anabaena circinalis

Project description:A comparative proteomics study to investigate a saxitoxin producing and non-toxic strains of Anabaena circinalis. Anabaena circinalis is a freshwater and bloom-forming cyanbacterium

2014-03-11 | PXD000206 | Pride

Anabaena PCC7120 infection with Cyanophage A1

Project description:In order to examine the response of Anabaena sp. PCC 7120 to an infection of the Cyanophage A1, we have used customized microarrays to identify genes potentially up- or downregulated by the infection. For this we compared cell culture before and after infection.

2023-11-01 | GSE183630 | GEO

Transcriptome analysis of a N. punctiforme sigG mutant

Project description:Nostoc punctiforme is a filamentous cyanobacterium capable if differentiating normal vegetative cells into nitrogen fixing heterocysts and spore-like akinetes. Here the effects of a sigma factor (sigG) mutation on the transcriptome was analyzed under 1) normal vegetative growth, and 2) following akinete induction. A zwf strain grown with fructose differentiates into akinetes following transfer to darkness. A DNA microarray was used to compare gene expression from the zwf strain to a zwf sigG double mutant two days following akinte induction by darkness. Gene expression in a zwf mutant strain was compared to a zwf sigG double mutant strain under normal vegetative growth and at two days following akinete induction. Each experiment used three array slides with two biological replicates. A dye swap was used for one biological replicate.

2015-09-01 | E-GEOD-61442 | biostudies-arrayexpress

Deletion and Complementation of Alr3614 in Anabaena PCC7120

Project description:To examine Alr3614 influence on the expression of Anabaena sp. PCC 7120, we have used customized microarrays to identify genes potentially regulated by this short DNA-binding protein. We compared the expression of an Alr3614-deletion strain with an Alr3614-complementation strain.

2022-05-12 | GSE183629 | GEO

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

Tweets

OmicsDI Databases

PRIDE
PeptideAtlas
MassIVE
JPOST Repository
Physiome Model Repository

EGA
EVA
ENA
LINCS
PAXDB
Cell Collective

MetaboLights
Metabolomics Workbench
MetabolomeExpress
GNPS
BioModels
FAIRDOMHub

ArrayExpress
dbGaP
ExpressionAtlas
GEO
NODE

Information

Databases
Help
API
Contact us
Code on GitHub
Terms of use
Submit Data