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GNPS - SILAC experiments with Streptomyces and Pseudomonas species

ABSTRACT: GNPS SILAC experiments of fives species with different mixtures of labelled amino acids. Data acquired on Q-Exactive with lockmass mz 622 / 922. In positive ion mode.

INSTRUMENT(S): Q-Exactive

ORGANISM(S): Pseudomonas Sp. Wcs312 Pseudomonas Synxantha 32 Pseudomonas Fluorescens Bw11p2 Streptomyces Roseosporus Nrrl 15998 (ncbitaxon:457431) Streptomyces Albus J1074 (ncbitaxon:457425)

SUBMITTER: Pieter Dorrestein

PROVIDER: MSV000081116 | GNPS | Mon May 29 00:22:00 BST 2017

REPOSITORIES: GNPS

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Project description:Relentless mining operations have destroyed our environment significantly. Soil inhabiting microbes play a significant role in ecological restoration of these areas. Microbial weathering processes like chemical dissolution of rocks significantly promotes the soil properties and enhances the rock to soil ratio respectively. Earlier studies have reported that bacteria exhibit efficient rock-dissolution abilities by releasing organic acids and other chemical elements from the silicate rocks. However, rock-dissolving mechanisms of the bacterium remain to be unclear till date. Thus, we have performed rock-dissolution experiments followed by genome and transcriptome sequencing of novel Pseudomonas sp.NLX-4 strain to explore the efficiency of microbe-mediated habitat restoration and its molecular mechanisms underlying this biological process. Results obtained from initial rock dissolution experiments revealed that Pseudomonas sp. NLX-4 strain efficiently accelerates the dissolution of silicate rocks by secreting amino acids, exopolysaccharides, and organic acids with elevated concentrations of potassium, silicon and aluminium elements. The rock dissolution experiments of NLX-4 strain exhibited an initial increase in particle diameter variation values between 0-15 days and decline after 15 days-time respectively. The 6,771,445-base pair NLX-4 genome exhibited 63.21 GC percentage respectively with a total of 6041 protein coding genes. Genome wide annotations of NLX-4 strain exhibits 5045-COG, 3996-GO, 5342-InterPro, 4386-KEGG proteins respectively Transcriptome analysis of NLX-4 cultured with/without silicate rocks resulted in 539 (288-up and 251-down) differentially expressed genes (DEGs). Fifteen DEGs encoding for siderophore transport, EPS and amino acids synthesis, organic acids metabolism, and bacterial resistance to adverse environmental conditions were highly up-regulated by cultured with silicate rocks. This study has not only provided a new strategy for the ecological restoration of rock mining areas, but also enriched the applicable bacterial and genetic resources.

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GNPS - SILAC experiments with Streptomyces and Pseudomonas species

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