Introduction

This repository contains discussion, analysis pipelines, files and scripts used in the preprint https://biorxiv.org/cgi/content/short/2021.12.21.473593v1

"Integrated metabolomic, molecular networking and genome mining analyses uncover novel angucyclines from Streptomyces sp. RO-S4 isolated from Bejaia Bay, Algeria"

later published in Frontiers in Microbiology, Systems Microbiology : https://www.frontiersin.org/articles/10.3389/fmicb.2022.906161/full

Throughout this documentation the names in the final publication are diffeent than those used in the analysis. Rather than exchange all names we provide the correspondence between names that are:

RO-S4 is equivalent to S4
CTG2_00170 is equivalent to S4_00485 and LRR0_00485
CTG2_00177 is equivalent to S4_00492 and LRR0_00492
Since we do not keep the original paths in this distribution we add links to files necessary to reproduce our analysis whenever needed
We used different conda enviroments containing different packages so we will list the content of these environments. We also provide the system profile at some of the steps of the analysis

Contents

• RO-S4 assembly where the assembly of Strain S4 is presented
• Cluster 2 Antismash and other discussion related to Anugucyline BGCs
• Phylogenetic analyses Phylogenetic analyses of FAD dependent oxidases
• Genome Submission SRA and genome submission
• TYGS results