Experimental and bioinformatic approaches for analyzing and visualizing cyanobacterial nitrogen and hydrogen metabolism

Many cyanobacteria are capable of utilizing light energy for nitrogen fixation. As a by-product of this nitrogenase mediated catalysis, hydrogen gas is produced. Several approaches to increase hydrogen production from cyanobacteria exist. Usually, these approaches are non-targeted. Here we exemplify...

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Autores principales:	Wünschiers,Röbbe, Axelsson,Rikard, Vellguth,Martin, Lindblad,Peter
Lenguaje:	English
Publicado:	Pontificia Universidad Católica de Valparaíso 2007
Materias:	bioinformatics cyanobacteria DNA-microarrays gene expression metabolic pathways nitrogen availability nitrogen fixation
Acceso en línea:	http://www.scielo.cl/scielo.php?script=sci_arttext&pid=S0717-34582007000400008
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spelling	oai:scielo:S0717-345820070004000082009-01-19Experimental and bioinformatic approaches for analyzing and visualizing cyanobacterial nitrogen and hydrogen metabolismWünschiers,RöbbeAxelsson,RikardVellguth,MartinLindblad,Peter bioinformatics cyanobacteria DNA-microarrays gene expression metabolic pathways nitrogen availability nitrogen fixation Many cyanobacteria are capable of utilizing light energy for nitrogen fixation. As a by-product of this nitrogenase mediated catalysis, hydrogen gas is produced. Several approaches to increase hydrogen production from cyanobacteria exist. Usually, these approaches are non-targeted. Here we exemplify how DNA-microarray based gene-expression analysis and bioinformatic visualization techniques can be used to analyze nitrogen and hydrogen metabolism from the filamentous, heterocyst forming cyanobacterium Nostoc PCC 7120. We analyzed the expression of 1249 genes from major metabolic categories under nitrogen fixing and non-nitrogen fixing growth. Of the selected genes, 494 show a more than 2-fold expression difference in the two conditions analyzed. Under nitrogen-fixing conditions 465 genes, mainly involved in energy metabolism, photosynthesis, respiration and nitrogen-fixation, were found to be stronger expressed, whereas only 29 genes showed a stronger expression under non-nitrogen fixing conditions. To help understanding probe hybridization, all expression data were correlated with potential target secondary structures and probe GC-content. For the first time the expression of high light-induced stress proteins (HLIP-family) is shown to be linked to the nitrogen availability.info:eu-repo/semantics/openAccessPontificia Universidad Católica de ValparaísoElectronic Journal of Biotechnology v.10 n.4 20072007-10-01text/htmlhttp://www.scielo.cl/scielo.php?script=sci_arttext&pid=S0717-34582007000400008en10.4067/S0717-34582007000400008
institution	Scielo Chile
collection	Scielo Chile
language	English
topic	bioinformatics cyanobacteria DNA-microarrays gene expression metabolic pathways nitrogen availability nitrogen fixation
spellingShingle	bioinformatics cyanobacteria DNA-microarrays gene expression metabolic pathways nitrogen availability nitrogen fixation Wünschiers,Röbbe Axelsson,Rikard Vellguth,Martin Lindblad,Peter Experimental and bioinformatic approaches for analyzing and visualizing cyanobacterial nitrogen and hydrogen metabolism
description	Many cyanobacteria are capable of utilizing light energy for nitrogen fixation. As a by-product of this nitrogenase mediated catalysis, hydrogen gas is produced. Several approaches to increase hydrogen production from cyanobacteria exist. Usually, these approaches are non-targeted. Here we exemplify how DNA-microarray based gene-expression analysis and bioinformatic visualization techniques can be used to analyze nitrogen and hydrogen metabolism from the filamentous, heterocyst forming cyanobacterium Nostoc PCC 7120. We analyzed the expression of 1249 genes from major metabolic categories under nitrogen fixing and non-nitrogen fixing growth. Of the selected genes, 494 show a more than 2-fold expression difference in the two conditions analyzed. Under nitrogen-fixing conditions 465 genes, mainly involved in energy metabolism, photosynthesis, respiration and nitrogen-fixation, were found to be stronger expressed, whereas only 29 genes showed a stronger expression under non-nitrogen fixing conditions. To help understanding probe hybridization, all expression data were correlated with potential target secondary structures and probe GC-content. For the first time the expression of high light-induced stress proteins (HLIP-family) is shown to be linked to the nitrogen availability.
author	Wünschiers,Röbbe Axelsson,Rikard Vellguth,Martin Lindblad,Peter
author_facet	Wünschiers,Röbbe Axelsson,Rikard Vellguth,Martin Lindblad,Peter
author_sort	Wünschiers,Röbbe
title	Experimental and bioinformatic approaches for analyzing and visualizing cyanobacterial nitrogen and hydrogen metabolism
title_short	Experimental and bioinformatic approaches for analyzing and visualizing cyanobacterial nitrogen and hydrogen metabolism
title_full	Experimental and bioinformatic approaches for analyzing and visualizing cyanobacterial nitrogen and hydrogen metabolism
title_fullStr	Experimental and bioinformatic approaches for analyzing and visualizing cyanobacterial nitrogen and hydrogen metabolism
title_full_unstemmed	Experimental and bioinformatic approaches for analyzing and visualizing cyanobacterial nitrogen and hydrogen metabolism
title_sort	experimental and bioinformatic approaches for analyzing and visualizing cyanobacterial nitrogen and hydrogen metabolism
publisher	Pontificia Universidad Católica de Valparaíso
publishDate	2007
url	http://www.scielo.cl/scielo.php?script=sci_arttext&pid=S0717-34582007000400008
work_keys_str_mv	AT wunschiersrobbe experimentalandbioinformaticapproachesforanalyzingandvisualizingcyanobacterialnitrogenandhydrogenmetabolism AT axelssonrikard experimentalandbioinformaticapproachesforanalyzingandvisualizingcyanobacterialnitrogenandhydrogenmetabolism AT vellguthmartin experimentalandbioinformaticapproachesforanalyzingandvisualizingcyanobacterialnitrogenandhydrogenmetabolism AT lindbladpeter experimentalandbioinformaticapproachesforanalyzingandvisualizingcyanobacterialnitrogenandhydrogenmetabolism
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Experimental and bioinformatic approaches for analyzing and visualizing cyanobacterial nitrogen and hydrogen metabolism

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