Dataset Information

Membrane proteins of Planctopirus limnophila

ABSTRACT: Bacteria of the phylum Planctomycetes have been postulated to be the ‘missing link’ between prokaryotes and eukaryotes. Although phylogenetically the Planctomycetes were grouped into Gram-negative bacteria, it has been reported that they have no outer membrane. Here we present 1D-gel-LC/MS/MS based proteomics data of Planctopirus limnophila membraneswhich in combination with super resolution light microscopy, cryo electron tomography and bioinformatics suggest an altered Gram-negative cell plan for Planctopirus limnophila.

INSTRUMENT(S): LTQ Orbitrap Velos

ORGANISM(S): Planctopirus Limnophila Dsm 3776

SUBMITTER: Martin Kucklick

LAB HEAD: Susanne Engelmann

PROVIDER: PXD005738 | Pride | 2017-04-18

REPOSITORIES: Pride

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Publications

Determining the bacterial cell biology of Planctomycetes.

Boedeker Christian C Schüler Margarete M Reintjes Greta G Jeske Olga O van Teeseling Muriel C F MC Jogler Mareike M Rast Patrick P Borchert Daniela D Devos Damien P DP Kucklick Martin M Schaffer Miroslava M Kolter Roberto R van Niftrik Laura L Engelmann Susanne S Amann Rudolf R Rohde Manfred M Engelhardt Harald H Jogler Christian C

Nature communications 20170410

Bacteria of the phylum Planctomycetes have been previously reported to possess several features that are typical of eukaryotes, such as cytosolic compartmentalization and endocytosis-like macromolecule uptake. However, recent evidence points towards a Gram-negative cell plan for Planctomycetes, although in-depth experimental analysis has been hampered by insufficient genetic tools. Here we develop methods for expression of fluorescent proteins and for gene deletion in a model planctomycete, Plan ...[more]

PMID: 28393831

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Project description:On going efforts are directed at understanding the mutualism between the gut microbiota and the host in breast-fed versus formula-fed infants. Due to the lack of tissue biopsies, no investigators have performed a global transcriptional (gene expression) analysis of the developing human intestine in healthy infants. As a result, the crosstalk between the microbiome and the host transcriptome in the developing mucosal-commensal environment has not been determined. In this study, we examined the host intestinal mRNA gene expression and microbial DNA profiles in full term 3 month-old infants exclusively formula fed (FF) (n=6) or breast fed (BF) (n=6) from birth to 3 months. Host mRNA microarray measurements were performed using isolated intact sloughed epithelial cells in stool samples collected at 3 months. Microbial composition from the same stool samples was assessed by metagenomic pyrosequencing. Both the host mRNA expression and bacterial microbiome phylogenetic profiles provided strong feature sets that clearly classified the two groups of babies (FF and BF). To determine the relationship between host epithelial cell gene expression and the bacterial colony profiles, the host transcriptome and functionally profiled microbiome data were analyzed in a multivariate manner. From a functional perspective, analysis of the gut microbiota's metagenome revealed that characteristics associated with virulence differed between the FF and BF babies. Using canonical correlation analysis, evidence of multivariate structure relating eleven host immunity / mucosal defense-related genes and microbiome virulence characteristics was observed. These results, for the first time, provide insight into the integrated responses of the host and microbiome to dietary substrates in the early neonatal period. Our data suggest that systems biology and computational modeling approaches that integrate “-omic” information from the host and the microbiome can identify important mechanistic pathways of intestinal development affecting the gut microbiome in the first few months of life. KEYWORDS: infant, breast-feeding, infant formula, exfoliated cells, transcriptome, metagenome, multivariate analysis, canonical correlation analysis 12 samples, 2 groups

Dataset Information

Membrane proteins of Planctopirus limnophila

Publications

Determining the bacterial cell biology of Planctomycetes.

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