UPLIFT Plastic Upcycling project

This repository will collect the datasets, public deliverables and published articles of the UPLIFT project, funded European Union’s Horizon 2020 research and innovation programme under grant agreement Nº 953073

E.denticulatum Quant Method Validation

Raw and processed MaxQaunt data (tryptic, semi-tryptic, and unspecific) from three replicates of E. coli whole cell lysates. The data is used to validate the methodological approach for length-normalized, relative protein quantification applied in the study of protein extracts from E. denticulatum (10.17632/y4kmnb3tvx.2)

Impact of substrate moisture content on growth and performance of black soldier fly larvae

Experimental data and data analyses growth, respiration and performance of black soldier fly larvae grown at different substrate moisture content

CodfishHydrolysatesMS

MS raw data, MaxQuant output files, and Table S4 for the manuscript "Biofunctionality of enzymatically derived peptides from codfish (Gadus morhua) frame; Bulk in vitro properties, quantitative proteomics, and bioinformatic prediction

Methonotrophic Biomass Quant BUP

Raw LC-MS/MS data and MaxQuant output files (txt folder) from quantitative bottom-up proteomics analysis of the fermeted biomass from methanotrophic bacteria described in the manuscript "Emulsifier peptides derived from seaweed, methanotrophic bacteria, and potato proteins identified by quantitative proteomics and bioinformatics". The biomass was pre-fractionated by SDS-PAGE and subsequently in-gel digested as described in M&M. The remaining two raw data files can be found in "Gregersen, Simon (2021), “Methonotrophic Biomass Quant BUP part2”, Mendeley Data, V1", doi: 10.17632/76v7mnmyr3.

Methonotrophic Biomass Quant BUP part2

Raw LC-MS/MS data and MaxQuant output files (txt folder) from quantitative bottom-up proteomics analysis of the fermeted biomass from methanotrophic bacteria described in the manuscript "Emulsifier peptides derived from seaweed, methanotrophic bacteria, and potato proteins identified by quantitative proteomics and bioinformatics". The biomass was pre-fractionated by SDS-PAGE and subsequently in-gel digested as described in M&M. This is the second part of the dataset for the manuscript. The former set can be found in "Gregersen, Simon (2021), “Methonotrophic Biomass Quant BUP”, Mendeley Data, V1", doi: 10.17632/g45gbw5r7n.

E.denticulatum quant BUP

MaxQuant output files (txt folder) from quantitative bottom-up proteomics analysis of two pilot-scale hot-water extracts from E. denticulatum, described in the manuscript "Proteomic characterization of pilot scale hot-water extracts from the industrial carrageenan red seaweed Eucheuma denticulatum" Extract A is labelled "A-013-05e" and Extract B "A-022-05e". Data is organized as exploratory phase (unspecific analysis with 1%, 5%, and 10% FDR as well as semi-specific analysis with 1% and 5% FDR) and as final phase (for tryptic and semi-specific analysis with optimized search parameters). Raw MS data are available upon request. Repository also contains the reference protein database (in .fasta format) as well as qRNAseq data

Figure 2 from: Cannon P, Buddie A, Bridge P, de Neergaard E, Lübeck M, Askar M (2012) Lectera, a new genus of the Plectosphaerellaceae for the legume pathogen Volutella colletotrichoides. MycoKeys 3: 23-36. https://doi.org/10.3897/mycokeys.3.3065

Figure 2 - Lectera species. A–L Lectera colletotrichoides A–C IMI 166394 D–F, IMI 265740 G–I IMI 303685 J–L IMI 368065 M–O Lectera longa (IMI 181698) A, D, G, J, M colonies on PCA agar after 7 d B, E, H, K, N colonies on PDA agar after 7 d C, F, I, L, O: conidia mounted in lactic acid: bar = 10 µm

Figure 3 from: Cannon P, Buddie A, Bridge P, de Neergaard E, Lübeck M, Askar M (2012) Lectera, a new genus of the Plectosphaerellaceae for the legume pathogen Volutella colletotrichoides. MycoKeys 3: 23-36. https://doi.org/10.3897/mycokeys.3.3065

Figure 3 - ML tree of GAPDH sequences, of a subset of the strains used for the ITS sequence set

Figure 1 from: Cannon P, Buddie A, Bridge P, de Neergaard E, Lübeck M, Askar M (2012) Lectera, a new genus of the Plectosphaerellaceae for the legume pathogen Volutella colletotrichoides. MycoKeys 3: 23-36. https://doi.org/10.3897/mycokeys.3.3065

Figure 1 - ML ITS phyogram showing the phylogenetic position of Lectera species