Project description:Proteome and secretome of the extremotolerant rock black fungus Knufia chersonesos and its nonmelanized spontaneous mutant were analyzed following the fungus growth under LSSMG in rotating bioreactors (High Aspect Ratio Vessels; HARV). Tandem Mass Tags (TMS)-based quantitative shotgun proteomics was applied to compare gravity to microgravity conditions as well as to elucidate differences in the response between wild type and mutant strain.
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.
Project description:The extremotolerant rock-associated black fungus Knufia chersonesos and its nonmelanized spontaneous mutant were selected for a proteomic-based screening towards polyesterases. A non-labeling shotgun analysis of the secretome was performed to compare control and treatment condition (PBAT added to the cultivation media) as well as Wt and Mut.
2020-06-24 | PXD014026 | Pride
Project description:Genomic Insights into Convergent Evolution of Rock-inhabiting Fungi
Project description:We report the transcriptomic comparisions between key processes required for various stages of fungal carnivory in nematode-trapping fungus Arthrobotrys oligospora when induced with nematodes. The reference assembly used for remapping is A. oligospora TWF154 (GenBank assembly accession: GCA_004768765.1)
Project description:To investigate mechanisms of metal tolerance in the gill, gut, kidney and liver of brown trout inhabiting the river Hayle (highly metal contaminated) compared with a control population from the river Teign. mRNA samples were sequenced (Illumina GAII) from a pooled embryonic sample and 12 multiplexed samples of different tissues from the the Hayle and Teign populations (pooled from 5 and 10 individuals respectively) and used to generate a transcriptome assembly. Expression profiling was then conducted for the gill, gut, kidney and liver samples. Expression profiling results are presented in this Series.
