Annotation Of Metagenome-Assembled Genomes Retrieved From Amazon River Basin Metagenomes
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<strong>Annotation of metagenome-assembled genomes retrieved from Amazon river basin metagenomes</strong> RELEASE MAG-2018/01<br> -------------------------------------- 1. INTRODUCTION Here is deposited the genes and proteins annotation from metagenome-assembled genomes (MAGs) retrieved from Amazon river basin metaganomes (SRP044326, PRJEB25171 and SRP039390) were deposited under European Nucleotide Archive - ENA project PRJEB25176. Briefly, metagenomes were coassembled in groups by geographical location with Megahit v.1.0 and the contigs were used to a reads mapping and binning with BWA-MEM (version 0.7.12-r1039), SamTools (version 1.3.1) and Metabat (v2.12.1). MAGs with overall quality greater than 50, calculated with CheckM (version 1.0.11), were selected for refining precedures. Contigs outliers were eliminated by using RefineM (version 0.0.23). Finished MAGs were then annotated by Prokka (version 1.11) pipeline, and with the other most completes databases up to date (KEGG, UniProtKB, dbCAN, PFAM, eggNOG and COG). 2. LOCATION MAGs sequences are available under ENA project PRJEB25176. ENA_accession Isolate<br> -------------------- --------------<br> ERZ494218 AM_0118<br> ERZ494219 AM_0219<br> ERZ494220 AM_0226<br> ERZ494221 AM_0228<br> ERZ494222 AM_0233<br> ERZ494223 AM_0240<br> ERZ494224 AM_0244<br> ERZ494225 AM_0256<br> ERZ494226 AM_0268<br> ERZ494227 AM_0275<br> ERZ494228 AM_0466<br> ERZ494229 AM_0507<br> ERZ494230 AM_0510<br> ERZ494231 AM_0519<br> ERZ494232 AM_0528<br> ERZ494233 AM_0546<br> ERZ494234 AM_0608<br> ERZ494235 AM_0615<br> ERZ494236 AM_0616<br> ERZ494237 AM_0619<br> ERZ494238 AM_0621<br> ERZ494239 AM_0630<br> ERZ494240 AM_0643<br> ERZ494241 AM_0729<br> ERZ494242 AM_0764<br> ERZ494243 AM_0832<br> ERZ494244 AM_0849<br> ERZ494245 AM_0854<br> ERZ494246 AM_0876<br> ERZ494247 AM_0902<br> ERZ494248 AM_0936<br> ERZ494249 AM_1003<br> ERZ494250 AM_1104<br> ERZ494251 AM_1111<br> ERZ494252 AM_1205<br> ERZ494253 AM_1312<br> ERZ494254 AM_1409<br> ERZ494255 AM_1503<br> ERZ494256 AM_1603<br> ERZ494257 AM_1606<br> ERZ494258 AM_1801<br> ERZ494259 AM_1811<br> ERZ494260 AM_2104<br> ERZ494261 AM_2116<br> ERZ494262 AM_2124<br> ERZ494263 AM_2202<br> ERZ494264 AM_2207<br> ERZ494265 AM_2208<br> ERZ494266 AM_2324<br> ERZ494267 AM_2502<br> ERZ494268 AM_2804<br> 3. ACKNOWLEDGEMENTS<br> This work is a joint effort of Laboratory of molecular biology from Federal<br> University of São Carlos, São Paulo, Brazil (LBM/UFSCAR) and Protists group<br> of Institut del Ciencias del Mar, Barcelone, Spain (ICM). We are grateful to<br> Conselho Nacional de Desenvolvimento Científico e Tecnológico (CNPq), as well as, the spanish funding organ Consejo Superior de Investigaciones Científicas (CSIC). This study was financed in part by the Coordenação de Aperfeiçoamento de Pessoal de Nível Superior - Brasil (CAPES) - Finance Code 001. 4. CONTACT INFORMATION Current curators: - Célio Dias Santos Júnior (celio.diasjunior@gmail.com)<br> - Flavio Henrique-Silva (dfhs@ufscar.br)<br> - Ramiro R. Logares (ramiro.logares@icm.csic.es)<br> 5. COPYRIGHT NOTICE Amazon River Basin Metagenome-Assembled Genomes Annotation - AM/MAGs<br> Copyright (C) 2018 The AMnrGC consortium. This database is provided “as is” and without any warranty of any kind,<br> of openly available. You can redistribute and/or modify it<br> as you wish, under the terms of Creative Commons CC BY 4.0: https://creativecommons.org/licenses/by/4.0/ ___________________<br> Barcelone, Feb/2018
<strong>亚马逊河流域宏基因组组装基因组（metagenome-assembled genomes, MAGs）注释信息</strong> 版本发布：MAG-2018/01 -------------------------------------- 1. 引言 本数据集收录了从亚马逊河流域宏基因组（对应SRA登录号SRP044326、PRJEB25171及SRP039390）中提取的宏基因组组装基因组（MAGs）的基因与蛋白质注释信息，相关原始宏基因组数据已提交至欧洲核苷酸档案馆（European Nucleotide Archive, ENA）项目PRJEB25176下。简言之，研究团队按地理位置对宏基因组进行分组共组装，所用工具为Megahit v.1.0；随后利用BWA-MEM（版本0.7.12-r1039）、SamTools（版本1.3.1）及Metabat（v2.12.1）进行reads比对与分箱操作。通过CheckM（版本1.0.11）评估基因组完整性，筛选出整体质量评分大于50的MAGs进行后续优化流程；使用RefineM（版本0.0.23）剔除异常重叠群（contigs）。最终完成的MAGs通过Prokka（版本1.11）流程进行注释，并结合当前主流的完整功能数据库：KEGG、UniProtKB、dbCAN、PFAM、eggNOG及COG进行补充注释。 2. 数据获取 所有MAGs序列均可通过ENA项目PRJEB25176获取。 ENA登录号 分离株编号 -------------------- -------------- ERZ494218 AM_0118 ERZ494219 AM_0219 ERZ494220 AM_0226 ERZ494221 AM_0228 ERZ494222 AM_0233 ERZ494223 AM_0240 ERZ494224 AM_0244 ERZ494225 AM_0256 ERZ494226 AM_0268 ERZ494227 AM_0275 ERZ494228 AM_0466 ERZ494229 AM_0507 ERZ494230 AM_0510 ERZ494231 AM_0519 ERZ494232 AM_0528 ERZ494233 AM_0546 ERZ494234 AM_0608 ERZ494235 AM_0615 ERZ494236 AM_0616 ERZ494237 AM_0619 ERZ494238 AM_0621 ERZ494239 AM_0630 ERZ494240 AM_0643 ERZ494241 AM_0729 ERZ494242 AM_0764 ERZ494243 AM_0832 ERZ494244 AM_0849 ERZ494245 AM_0854 ERZ494246 AM_0876 ERZ494247 AM_0902 ERZ494248 AM_0936 ERZ494249 AM_1003 ERZ494250 AM_1104 ERZ494251 AM_1111 ERZ494252 AM_1205 ERZ494253 AM_1312 ERZ494254 AM_1409 ERZ494255 AM_1503 ERZ494256 AM_1603 ERZ494257 AM_1606 ERZ494258 AM_1801 ERZ494259 AM_1811 ERZ494260 AM_2104 ERZ494261 AM_2116 ERZ494262 AM_2124 ERZ494263 AM_2202 ERZ494264 AM_2207 ERZ494265 AM_2208 ERZ494266 AM_2324 ERZ494267 AM_2502 ERZ494268 AM_2804 3. 致谢 本研究由巴西圣保罗州圣卡洛斯联邦大学分子生物学实验室（LBM/UFSCAR）与西班牙巴塞罗那海洋科学研究所原生生物研究组（ICM）合作完成。感谢巴西国家科学技术发展委员会（Conselho Nacional de Desenvolvimento Científico e Tecnológico, CNPq）以及西班牙国家研究委员会（Consejo Superior de Investigaciones Científicas, CSIC）的经费支持。本研究部分经费由巴西高等教育人员素质提升协调局（Coordenação de Aperfeiçoamento de Pessoal de Nível Superior, CAPES）资助，资助编号001。 4. 联系方式 现任数据管理员： - 塞利奥·迪亚斯·桑托斯·儒尼奥尔（celio.diasjunior@gmail.com） - 弗拉维奥·恩里克-席尔瓦（dfhs@ufscar.br） - 拉米罗·R·洛加雷斯（ramiro.logares@icm.csic.es） 5. 版权声明 亚马逊河流域宏基因组组装基因组注释数据集（AM/MAGs）版权所有©2018 AMnrGC联盟。 本数据库按“现状”提供，不附带任何形式的明示或默示担保，且公开可获取。您可根据知识共享署名4.0协议（Creative Commons CC BY 4.0）自由重新分发或修改本数据集，协议链接：https://creativecommons.org/licenses/by/4.0/ ___________________ 巴塞罗那，2018年2月
