Kamchatka Arkashin Schurf Metagenome Analysis Notebook

2018-07-28T23:25:10Z (GMT) by Laetitia Wilkins

This is the Ipython / Jupyter notebook associated with the analysis of metagenomic data from Arkashin Schurf.


In this study we focused on two hydrothermal pools, Arkashin Shurf and Zavarzin Spring, in Uzon Caldera, Kamchatka, Russia that were previously characterized using 16S ribosomal RNA sequencing and geochemical analysis undertaken in Burgess et al. 2012 (DOI: 10.1007/s00248-011-9979-4). First we produced metagenome-assembled genomes (MAGs) and then we characterized and compared them between the two pools. Raw metagenomic reads were deposited on NCBI’s GenBank under BioProject ID PRJNA419931 and BioSample IDs SAMN08105301 and SAMN08105287; i.e., SRA IDs SRS2733204 (SRX3442520) and SRS2733205 (SRX3442521). Draft MAG’s were deposited in GenBank under accession numbers SAMN08107294 - SAMN08107329 (BioProject ID PRJNA419931). Fasta files for all binned MAGs and the associated anvi'o files used to generate them were deposited on UC Davis DASH (DOI: 10.25338/B8N01R).