Kamchatka Zavarzin Spring Metagenome Analysis Notebook
This is the Ipython / Jupyter notebook associated with the analysis of metagenomic data from Zavarzin Spring. 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 sequenci...
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Online Access: | https://dx.doi.org/10.6084/m9.figshare.6873743 https://figshare.com/articles/Kamchatka_Zavarzin_Spring_Metagenome_Analysis_Notebook/6873743 |
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ftdatacite:10.6084/m9.figshare.6873743 2023-05-15T16:58:46+02:00 Kamchatka Zavarzin Spring Metagenome Analysis Notebook Ettinger, Cassandra 2018 https://dx.doi.org/10.6084/m9.figshare.6873743 https://figshare.com/articles/Kamchatka_Zavarzin_Spring_Metagenome_Analysis_Notebook/6873743 unknown figshare Creative Commons Attribution 4.0 International https://creativecommons.org/licenses/by/4.0/legalcode cc-by-4.0 CC-BY 60503 Microbial Genetics FOS Biological sciences Software SoftwareSourceCode article 2018 ftdatacite https://doi.org/10.6084/m9.figshare.6873743 2021-11-05T12:55:41Z This is the Ipython / Jupyter notebook associated with the analysis of metagenomic data from Zavarzin Spring. 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). Article in Journal/Newspaper Kamchatka DataCite Metadata Store (German National Library of Science and Technology) Burgess ENVELOPE(76.128,76.128,-69.415,-69.415) |
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DataCite Metadata Store (German National Library of Science and Technology) |
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language |
unknown |
topic |
60503 Microbial Genetics FOS Biological sciences |
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60503 Microbial Genetics FOS Biological sciences Ettinger, Cassandra Kamchatka Zavarzin Spring Metagenome Analysis Notebook |
topic_facet |
60503 Microbial Genetics FOS Biological sciences |
description |
This is the Ipython / Jupyter notebook associated with the analysis of metagenomic data from Zavarzin Spring. 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). |
format |
Article in Journal/Newspaper |
author |
Ettinger, Cassandra |
author_facet |
Ettinger, Cassandra |
author_sort |
Ettinger, Cassandra |
title |
Kamchatka Zavarzin Spring Metagenome Analysis Notebook |
title_short |
Kamchatka Zavarzin Spring Metagenome Analysis Notebook |
title_full |
Kamchatka Zavarzin Spring Metagenome Analysis Notebook |
title_fullStr |
Kamchatka Zavarzin Spring Metagenome Analysis Notebook |
title_full_unstemmed |
Kamchatka Zavarzin Spring Metagenome Analysis Notebook |
title_sort |
kamchatka zavarzin spring metagenome analysis notebook |
publisher |
figshare |
publishDate |
2018 |
url |
https://dx.doi.org/10.6084/m9.figshare.6873743 https://figshare.com/articles/Kamchatka_Zavarzin_Spring_Metagenome_Analysis_Notebook/6873743 |
long_lat |
ENVELOPE(76.128,76.128,-69.415,-69.415) |
geographic |
Burgess |
geographic_facet |
Burgess |
genre |
Kamchatka |
genre_facet |
Kamchatka |
op_rights |
Creative Commons Attribution 4.0 International https://creativecommons.org/licenses/by/4.0/legalcode cc-by-4.0 |
op_rightsnorm |
CC-BY |
op_doi |
https://doi.org/10.6084/m9.figshare.6873743 |
_version_ |
1766050865621237760 |