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RNAseq analysis of the N. punctiforme transcriptome during hormogonium development

ABSTRACT: Change in gene expression for wild-type Nostoc punctiforme ATCC 29133 over the time course of hormogonium development

ORGANISM(S): Nostoc punctiforme PCC 73102

PROVIDER: GSE94020 | GEO | 2017/01/25

SECONDARY ACCESSION(S): PRJNA363067

REPOSITORIES: GEO

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RNAseq analysis of the N. punctiforme transcriptome during hormogonium development in wild type, and three sigma-factor deletion strains

Project description:Change in gene expression for wild-type Nostoc punctiforme ATCC 29133, or three derivative strains with sigma factors deleted, over the time course of hormogonium development

2019-01-12 | GSE124969 | GEO

Comparative transcriptomics of wild-type (Nostoc punctiforme ATCC 29133) and hmpD-deletion strains (UCD 543) of Nostoc punctiforme ATCC 29133

Project description:Change in gene expression for a wild-type (Nostoc punctiforme ATCC 29133) and hmpD-deletion strain (UCD 543) of Nostoc punctiforme ATCC 29133 over the time course of hormogonium development This study is further descirbed in Risser, D.D. and Meeks, J.C. 2013. Comparative transcriptomics with a motility deficient mutant leads to identification of a novel polysaccharide secretion system in Nostoc punctiforme. Molecular Microbiology

2013-01-01 | GSE42859 | GEO

Comparative transcriptomics of wild-type (Nostoc punctiforme ATCC 29133) and hmpD-deletion strains (UCD 543) of Nostoc punctiforme ATCC 29133

2013-01-01 | E-GEOD-42859 | biostudies-arrayexpress

Comparative transcriptomics of wild-type (UCD 153) and patN-deletion strains (UCD 524) of Nostoc punctiforme ATCC 29133

Project description:Heterocysts, cells specialized for nitrogen fixation in certain filamentous cyanobacteria, appear singly in a nonrandom spacing pattern along the chain of vegetative cells. A two-stage, biased initiation and competitive resolution model has been proposed to explain the establishment of this spacing pattern. There is substantial evidence that competitive resolution of a subset of cells initiating differentiation occurs by interactions between a self enhancing activator, HetR, and a diffusible inhibitor PatS-5 (RGSGR). Results presented here show that the absence of a unique membrane protein, PatN, in Nostoc punctiforme strain ATCC 29133 leads to a threefold increase in heterocyst frequency and a fourfold decrease in the vegetative cell interval between heterocysts. A PatN-GFP translational fusion shows a pattern of biased inheritance in daughter vegetative cells of ammonium-grown cultures. Inactivation of another heterocyst patterning gene, patA, is epistatic to inactivation of patN, and transcription of patA increases in a patN- deletion strain, implying that patN may function by modulating levels of patA. The presence of PatN is hypothesized to decrease the competency of a vegetative cell to initiate heterocyst differentiation, and the cellular concentration of PatN is dependent on cell division that results in cells transiently depleted of PatN. We suggest that biased inheritance of cell-fate determinants is a phylogenetic domain- spanning paradigm in the development of biological patterns. Change in gene expression for a wild-type (UCD 153) and patN-deletion strain, (UCD 524) of Nostoc punctiforme ATCC 29133 over the time course of heterocyst developments. Total RNA from 3 biological replicates at each time point from 0 to 120 hours after removal of combined nitrogen (Nitrogen step-down) was converted to cDNA, dye-labled and hybridized to nimblegen 12x135k array slides.

2012-10-01 | E-GEOD-40250 | biostudies-arrayexpress

Nostoc punctiforme PCC 73102

Project description:Comparative transcriptomics of wild-type (Nostoc punctiforme ATCC 29133) and hmpD-deletion strains (UCD 543) of Nostoc punctiforme ATCC 29133

| PRJNA183670 | ENA

HILIC high resolution separation for iTRAQ high throughput proteomics

Project description:HILIC runs (separate LC-MS) of mixed proteome from closely related cyanobacterium Nostoc punctiforme ATCC 29133 and Nostoc sp. PCC 7120. Quantitative comparisons across species can only be made using orthologous peptides. All other peptides are used to assess biological variation and MS/MS co-elution study.

2011-03-18 | PRD000374 | Pride

Transcriptome analysis of a N. punctiforme sigG mutant

2015-09-01 | GSE61442 | GEO

GNPS Nostoc punctiforme ATCC 29133

Project description:Nostoc punctiforme ATCC 29133 was grown on BG11 and BG110 agar plates respectively. Colonies and surrounding agar were extracted and subjected to UPLC-MS analysis.

2014-10-07 | MSV000078891 | GNPS

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

Early events of the symbiotic interaction between Oryza sativa and Nostoc punctiforme revealed by a quantitative proteomic approach.

Project description:Plant-cyanobacteria symbiosis is considered one of the pivotal events in the history of life. In this symbiosis, the cyanobacterium provides to the plant fixed nitrogen compounds and plant hormones and, in return, the plant provides to the cyanobacterium fixed carbon. Despite the large knowledge in the physiology and ecology of plant-cyanobacteria symbioses, little is known about the molecular mechanisms involved in the crosstalk between partners. It has been shown recently that Nostoc punctiforme is able to stablish an endophytic symbiosis with Oryza sativa. This finding opens a door to explore this symbiotic interaction as a sustainable alternative to nitrogen fertilization of paddy fields. However, molecular mechanisms behind Oryza-Nostoc endosymbiosis are still not clarified. To gain further insights, an LC-MS/MS based label-free quantitative technique was used to evaluate the differential proteomics under N. punctiforme treatment vs. control plants at 1 day and 7 days. Differential expression profiling reveals a significant number of proteins to be down-regulated or missing in both partners, while others were more abundant or only expressed when both partners were in contact. In N. punctiforme, the differential protein expression was primarily connected to primary metabolism, signal transduction and perception, transport of substances and photosynthesis. In O. sativa, the differential protein expression was connected to a wide range of biological functions regulating carbon and nitrogen metabolism and response to biotic and abiotic stresses.

2023-03-10 | PXD022229 | Pride

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