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Characterization and Engineering of Streptomyces griseofuscus DSM 40191 as a Potential Host for Heterologous Expression of Biosynthetic Gene Clusters

dataset

posted on 2021-07-26, 12:22 authored by Omkar Satyavan MohiteOmkar Satyavan Mohite, Tetiana GrenTetiana Gren, Tilmann WeberTilmann Weber

Supporting dataset for

Tetiana Gren^a, Christopher M. Whitford^a, Omkar S. Mohite^a, Tue S. Jørgensen^a, Eftychia E. Kontou^a, Julie B. Nielsen^a, Sang Yup Lee^a,b, Tilmann Weber^a#

a) The Novo Nordisk Foundation Center for Biosustainability, Technical University of Denmark, Denmark

b) Metabolic and Biomolecular Engineering National Research Laboratory, Department of Chemical and Biomolecular Engineering, Center for Systems and Synthetic Biotechnology, Institute for the BioCentury, Korea Advanced Institute of Science and Technology, Republic of Korea

Supplementary Data 1. Genome comparison data

Excel tables with gene annotations from NCBI GenBank and KEGG subsystems. Gene presence-absence table for genes across the pangenome of S. griseofuscus, S. coelicolor, S. venezuelae. The KEGG subsystem gene and reaction counts per organism.

Supplementary Data 2. Phenotype microarray data analysis with DuctApe

Excel tables with raw kinetic growth data across plates PM1 to PM4 with 2 replicates for S. griseofuscus, S. coelicolor, S. venezuelae. Biolog activity index (0 to 9) across 384 nutrients in each strain and comparison of number of active nutrients across the three strains.

Supplementary Data 3. Genotype phenotype mapping using the KEGG pathways

Excel tables with matrix of BioLog activity index across different KEGG nutrients mapped on to the KEGG pathways. Combined matrix with mean activity differences across three strains.

Supplementary Data 4. Genome scale metabolic models

The SMBL formatted genome-scale metabolic models of the three Streptomyces strains used in the study

Supplementary Data 5. Comparison of genome scale model based growth predictions and BioLog data

Excel table with list of reactions considered in the three genome scale models and comparison of in-silico growth prediction on different nutrients against BioLog data.

Supplementry Data 6. BGC comparison across Streptomyces using BiG-SCAPE

Information on BGCs detected in S. griseofuscus and information on the public genomes selected along with the BGCs selected for comparison. Similarity network data used for generation of Fig. 3 with information on nodes and edges.