Lipidomics of host–pathogen interactions

Wenk, Markus R.

doi:10.1016/j.febslet.2006.07.007

Cited by 68 publications

(56 citation statements)

References 141 publications

(142 reference statements)

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“…In addition to the above-mentioned example of peroxisomal lipid metabolism with enrichment signal to short-wave radiation flux in summer, the pathway of metabolism of lipids and lipoproteins also shows significant eQTLs enrichment to the environmental factor of bacteria diversity with ERs of 1.80, 3.17, and 3.87. These observations are consistent with the fact that lipid metabolism plays a wide variety of roles in numerous signaling and regulatory process and host–pathogen interactions (Wenk 2006; van der Meer-Janssen et al 2010). Our analysis also highlights top candidate genes in these two pathways for future detailed examination.…”

Section: Resultssupporting

confidence: 88%

Human Expression QTLs Are Enriched in Signals of Environmental Adaptation

Lü

Raj

et al. 2013

Genome Biology and Evolution

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Expression quantitative trait loci (eQTLs) have been found to be enriched in trait-associated single-nucleotide polymorphisms (SNPs). However, whether eQTLs are adaptive to different environmental factors and its relative evolutionary significance compared with nonsynonymous SNPs (NS SNPs) are still elusive. Compiling environmental correlation data from three studies for more than 500,000 SNPs and 42 environmental factors, including climate, subsistence, pathogens, and dietary patterns, we performed a systematic examination of the adaptive patterns of eQTLs to local environment. Compared with intergenic SNPs, eQTLs are significantly enriched in the lower tail of a transformed rank statistic in the environmental correlation analysis, indicating possible adaptation of eQTLs to the majority of 42 environmental factors. The mean enrichment of eQTLs across 42 environmental factors is as great as, if not greater than, that of NS SNPs. The enrichment of eQTLs, although significant across all levels of recombination rate, is inversely correlated with recombination rate, suggesting the presence of selective sweep or background selection. Further pathway enrichment analysis identified a number of pathways with possible environmental adaption from eQTLs. These pathways are mostly related with immune function and metabolism. Our results indicate that eQTLs might have played an important role in recent and ongoing human adaptation and are of special importance for some environmental factors and biological pathways.

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Section: Resultssupporting

confidence: 88%

Human Expression QTLs Are Enriched in Signals of Environmental Adaptation

Lü

Raj

et al. 2013

Genome Biology and Evolution

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“…Thus, the downregulation of lipid metabolism could be specific to early infection stages or to wild potato colonization. In this sense, lipid metabolism has been reported to play an important role during plant-host interactions by modulating defense responses in plants and pathogen infection (Casadevall and Pirofski, 2001; Wenk, 2006). Cofactor metabolism was also repressed including the folate synthesis gene pabB (Table 3), already known to be down-regulated in planta (Shinohara et al, 2005), the cobalamin biosynthesis genes and adenilate cyclase.…”

Section: Discussionmentioning

confidence: 99%

Transcriptomes of Ralstonia solanacearum during Root Colonization of Solanum commersonii

et al. 2017

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Bacterial wilt of potatoes—also called brown rot—is a devastating disease caused by the vascular pathogen Ralstonia solanacearum that leads to significant yield loss. As in other plant-pathogen interactions, the first contacts established between the bacterium and the plant largely condition the disease outcome. Here, we studied the transcriptome of R. solanacearum UY031 early after infection in two accessions of the wild potato Solanum commersonii showing contrasting resistance to bacterial wilt. Total RNAs obtained from asymptomatic infected roots were deep sequenced and for 4,609 out of the 4,778 annotated genes in strain UY031 were recovered. Only 2 genes were differentially-expressed between the resistant and the susceptible plant accessions, suggesting that the bacterial component plays a minor role in the establishment of disease. On the contrary, 422 genes were differentially expressed (DE) in planta compared to growth on a synthetic rich medium. Only 73 of these genes had been previously identified as DE in a transcriptome of R. solanacearum extracted from infected tomato xylem vessels. Virulence determinants such as the Type Three Secretion System (T3SS) and its effector proteins, motility structures, and reactive oxygen species (ROS) detoxifying enzymes were induced during infection of S. commersonii. On the contrary, metabolic activities were mostly repressed during early root colonization, with the notable exception of nitrogen metabolism, sulfate reduction and phosphate uptake. Several of the R. solanacearum genes identified as significantly up-regulated during infection had not been previously described as virulence factors. This is the first report describing the R. solanacearum transcriptome directly obtained from infected tissue and also the first to analyze bacterial gene expression in the roots, where plant infection takes place. We also demonstrate that the bacterial transcriptome in planta can be studied when pathogen numbers are low by sequencing transcripts from infected tissue avoiding prokaryotic RNA enrichment.

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“…Genes coding for glycerophosphoryl diester phosphodiesterase (gdpD) and cardiolipin synthase (cls) have been implicated in daptomycin resistance [3, 5, 6]. Besides playing a role in antibiotic resistance, lipid metabolism is involved in biomembrane synthesis and energy homeostasis during pathogen replication and persistence [7]. Homeostasis of membrane lipids is essential to bacterial viability [8–10].…”

Section: Introductionmentioning

confidence: 99%

Comprehensive analysis of phospholipids and glycolipids in the opportunistic pathogen Enterococcus faecalis

et al. 2017

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Enterococcus faecalis is a Gram-positive, opportunistic, pathogenic bacterium that causes a significant number of antibiotic-resistant infections in hospitalized patients. The development of antibiotic resistance in hospital-associated pathogens is a formidable public health threat. In E. faecalis and other Gram-positive pathogens, correlations exist between lipid composition and antibiotic resistance. Resistance to the last-resort antibiotic daptomycin is accompanied by a decrease in phosphatidylglycerol (PG) levels, whereas multiple peptide resistance factor (MprF) converts anionic PG into cationic lysyl-PG via a trans-esterification reaction, providing resistance to cationic antimicrobial peptides. Unlike previous studies that relied on thin layer chromatography and spectrophotometry, we have performed liquid chromatography-tandem mass spectrometry (LC-MS/MS) directly on lipids extracted from E. faecalis, and quantified the phospholipids through multiple reaction monitoring (MRM). In the daptomycin-sensitive E. faecalis strain OG1RF, we have identified 17 PGs, 8 lysyl-PGs (LPGs), 23 cardiolipins (CL), 3 glycerophospho-diglucosyl-diacylglycerols (GPDGDAG), 5 diglucosyl-diacylglycerols (DGDAG), 3 diacylglycerols (DAGs), and 4 triacylglycerols (TAGs). We have quantified PG and shown that PG levels vary during growth of E. faecalis in vitro. We also show that two daptomycin-resistant (DapR) strains of E. faecalis have substantially lower levels of PG and LPG levels. Since LPG levels in these strains are lower, daptomycin resistance is likely due to the reduction in PG. This lipidome map is the first comprehensive analysis of membrane phospholipids and glycolipids in the important human pathogen E. faecalis, for which antimicrobial resistance and altered lipid homeostasis have been intimately linked.

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Lipidomics of host–pathogen interactions

Cited by 68 publications

References 141 publications

Human Expression QTLs Are Enriched in Signals of Environmental Adaptation

Human Expression QTLs Are Enriched in Signals of Environmental Adaptation

Transcriptomes of Ralstonia solanacearum during Root Colonization of Solanum commersonii

Comprehensive analysis of phospholipids and glycolipids in the opportunistic pathogen Enterococcus faecalis

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