A shotgun lipidomics study of a putative lysophosphatidic acid acyl transferase (PlsC) in Sinorhizobium meliloti

Basconcillo, Libia Saborido; Zaheer, Rahat; Finan, Turlough M.; McCarry, Brian E.

doi:10.1016/j.jchromb.2009.05.014

Cited by 27 publications

(2 citation statements)

References 48 publications

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“…We therefore approximated the S. meliloti gross biomass composition using that of R. sphaeroides . Nevertheless, the specific composition of DNA, RNA, protein and lipids was adjusted based on the S. meliloti GC content 13 , codon usage 59 and lipid composition 60 61 62 63 . Furthermore, succinoglycan was included in the biomass at 5% of the dry weight, which was estimated based on the literature 64 65 66 .…”

Section: Methodsmentioning

confidence: 99%

Metabolic modelling reveals the specialization of secondary replicons for niche adaptation in Sinorhizobium meliloti

et al. 2016

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The genome of about 10% of bacterial species is divided among two or more large chromosome-sized replicons. The contribution of each replicon to the microbial life cycle (for example, environmental adaptations and/or niche switching) remains unclear. Here we report a genome-scale metabolic model of the legume symbiont Sinorhizobium meliloti that is integrated with carbon utilization data for 1,500 genes with 192 carbon substrates. Growth of S. meliloti is modelled in three ecological niches (bulk soil, rhizosphere and nodule) with a focus on the role of each of its three replicons. We observe clear metabolic differences during growth in the tested ecological niches and an overall reprogramming following niche switching. In silico examination of the inferred fitness of gene deletion mutants suggests that secondary replicons evolved to fulfil a specialized function, particularly host-associated niche adaptation. Thus, genes on secondary replicons might potentially be manipulated to promote or suppress host interactions for biotechnological purposes.

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Section: Methodsmentioning

confidence: 99%

Metabolic modelling reveals the specialization of secondary replicons for niche adaptation in Sinorhizobium meliloti

et al. 2016

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“…These classes include monomethyl PE, dimethyl PE, sulfoquinovosyldiacylglycerol, ornithine‐containing lipid, and diacylglyceryl‐( N , N , N ‐trimethyl)‐homoserines in addition to PC, PE, and PG. The mutants deficient in the PhoB regulator protein were analyzed (Basconcillo et al, 2009a) and the lipid levels in wild type and in a putative lysophosphatidic acyl transferase ( plsC ) knockout mutant were investigated (Basconcillo et al, 2009b).…”

Section: Mass Spectrometry‐based Approaches For Lipidomic Analysismentioning

confidence: 99%

Multi‐dimensional mass spectrometry‐based shotgun lipidomics and novel strategies for lipidomic analyses

Han

Yang

Gross

2011

Mass Spectrometry Reviews

488

471

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Since our last comprehensive review on multi-dimensional mass spectrometry-based shotgun lipidomics (Mass Spectrom. Rev. 24 (2005), 367), many new developments in the field of lipidomics have occurred. These developments include new strategies and refinements for shotgun lipidomic approaches that use direct infusion, including novel fragmentation strategies, identification of multiple new informative dimensions for mass spectrometric interrogation, and the development of new bioinformatic approaches for enhanced identification and quantitation of the individual molecular constituents that comprise each cell’s lipidome. Concurrently, advances in liquid chromatography-based platforms and novel strategies for quantitative matrix-assisted laser desorption/ionization mass spectrometry for lipidomic analyses have been developed. Through the synergistic use of this repertoire of new mass spectrometric approaches, the power and scope of lipidomics has been greatly expanded to accelerate progress toward the comprehensive understanding of the pleiotropic roles of lipids in biological systems.

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Recent advances of chromatography and mass spectrometry in lipidomics

Zhou

Nie

et al. 2010

Anal Bioanal Chem

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Lipidomics, as a novel branch of metabolomics, which is aimed at comprehensive analysis of lipids and their biological roles with respect to health and diseases, has attracted increased attention from biological and analytical scientists. As a result of the complexity and diversity of lipids, accurate identification and efficient separation are required for lipidomics analysis. Mass spectrometry (MS) and chromatography have been extensively developed in the past few decades and hold a distinguished position in qualification and separation science. They are powerful and indispensable tools for lipidomics. Herein, we present the recent advancement of MS, chromatography, and their hyphenation technologies in lipidomics.

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A shotgun lipidomics study of a putative lysophosphatidic acid acyl transferase (PlsC) in Sinorhizobium meliloti

Cited by 27 publications

References 48 publications

Metabolic modelling reveals the specialization of secondary replicons for niche adaptation in Sinorhizobium meliloti

Metabolic modelling reveals the specialization of secondary replicons for niche adaptation in Sinorhizobium meliloti

Multi‐dimensional mass spectrometry‐based shotgun lipidomics and novel strategies for lipidomic analyses

Recent advances of chromatography and mass spectrometry in lipidomics

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