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Title: Metagenomes and metatranscriptomes from boreal potential and actual acid sulfate soil materials

Abstract

Natural sulfide rich deposits are common in coastal areas worldwide, including along the Baltic Sea coast. When artificial drainage exposes these deposits to atmospheric oxygen, iron sulfide minerals in the soils are rapidly oxidized. This process turns the potential acid sulfate soils into actual acid sulfate soils and mobilizes large quantities of acidity and leachable toxic metals that cause severe environmental problems. It is known that acidophilic microorganisms living in acid sulfate soils catalyze iron sulfide mineral oxidation. However, only a few studies regarding these communities have been published. In this study, we sampled the oxidized actual acid sulfate soil, the transition zone where oxidation is actively taking place, and the deepest un-oxidized potential acid sulfate soil. Nucleic acids were extracted and 16S rRNA gene amplicons, metagenomes, and metatranscriptomes generated to gain a detailed insight into the communities and their activities. The project will be of great use to microbiologists, environmental biologists, geochemists, and geologists as there is hydrological and geochemical monitoring from the site stretching back for many years.

Authors:
ORCiD logo [1];  [2];  [2];  [2]; ORCiD logo [3];  [3];  [3];  [3]; ORCiD logo [3];  [3];  [3]; ORCiD logo [3];  [3];  [3];  [3];  [3]; ORCiD logo [3];  [3];  [3]; ORCiD logo [3] more »;  [2];  [1]; ORCiD logo [2] « less
  1. Novia Univ. of Applied Sciences, Vaasa (Finland). Research and Development
  2. Linnaeus Univ., Kalmar (Sweden). Centre for Ecology and Evolution in Microbial Model Systems (EEMiS)
  3. Dept. of Energy Joint Genome Inst., Walnut Creek, CA (United States)
Publication Date:
Research Org.:
Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States)
Sponsoring Org.:
USDOE Office of Science (SC), Biological and Environmental Research (BER) (SC-23)
OSTI Identifier:
1572858
Grant/Contract Number:  
AC02-05CH11231
Resource Type:
Accepted Manuscript
Journal Name:
Scientific Data
Additional Journal Information:
Journal Volume: 6; Journal Issue: 1; Journal ID: ISSN 2052-4463
Publisher:
Nature Publishing Group
Country of Publication:
United States
Language:
English
Subject:
54 ENVIRONMENTAL SCIENCES

Citation Formats

Högfors-Rönnholm, Eva, Lopez-Fernandez, Margarita, Christel, Stephan, Brambilla, Diego, Huntemann, Marcel, Clum, Alicia, Foster, Brian, Foster, Bryce, Roux, Simon, Palaniappan, Krishnaveni, Varghese, Neha, Mukherjee, Supratim, Reddy, T. B. K., Daum, Chris, Copeland, Alex, Chen, I-Min A., Ivanova, Natalia N., Kyrpides, Nikos C., Harmon-Smith, Miranda, Eloe-Fadrosh, Emiley A., Lundin, Daniel, Engblom, Sten, and Dopson, Mark. Metagenomes and metatranscriptomes from boreal potential and actual acid sulfate soil materials. United States: N. p., 2019. Web. doi:10.1038/s41597-019-0222-3.
Högfors-Rönnholm, Eva, Lopez-Fernandez, Margarita, Christel, Stephan, Brambilla, Diego, Huntemann, Marcel, Clum, Alicia, Foster, Brian, Foster, Bryce, Roux, Simon, Palaniappan, Krishnaveni, Varghese, Neha, Mukherjee, Supratim, Reddy, T. B. K., Daum, Chris, Copeland, Alex, Chen, I-Min A., Ivanova, Natalia N., Kyrpides, Nikos C., Harmon-Smith, Miranda, Eloe-Fadrosh, Emiley A., Lundin, Daniel, Engblom, Sten, & Dopson, Mark. Metagenomes and metatranscriptomes from boreal potential and actual acid sulfate soil materials. United States. doi:10.1038/s41597-019-0222-3.
Högfors-Rönnholm, Eva, Lopez-Fernandez, Margarita, Christel, Stephan, Brambilla, Diego, Huntemann, Marcel, Clum, Alicia, Foster, Brian, Foster, Bryce, Roux, Simon, Palaniappan, Krishnaveni, Varghese, Neha, Mukherjee, Supratim, Reddy, T. B. K., Daum, Chris, Copeland, Alex, Chen, I-Min A., Ivanova, Natalia N., Kyrpides, Nikos C., Harmon-Smith, Miranda, Eloe-Fadrosh, Emiley A., Lundin, Daniel, Engblom, Sten, and Dopson, Mark. Wed . "Metagenomes and metatranscriptomes from boreal potential and actual acid sulfate soil materials". United States. doi:10.1038/s41597-019-0222-3. https://www.osti.gov/servlets/purl/1572858.
@article{osti_1572858,
title = {Metagenomes and metatranscriptomes from boreal potential and actual acid sulfate soil materials},
author = {Högfors-Rönnholm, Eva and Lopez-Fernandez, Margarita and Christel, Stephan and Brambilla, Diego and Huntemann, Marcel and Clum, Alicia and Foster, Brian and Foster, Bryce and Roux, Simon and Palaniappan, Krishnaveni and Varghese, Neha and Mukherjee, Supratim and Reddy, T. B. K. and Daum, Chris and Copeland, Alex and Chen, I-Min A. and Ivanova, Natalia N. and Kyrpides, Nikos C. and Harmon-Smith, Miranda and Eloe-Fadrosh, Emiley A. and Lundin, Daniel and Engblom, Sten and Dopson, Mark},
abstractNote = {Natural sulfide rich deposits are common in coastal areas worldwide, including along the Baltic Sea coast. When artificial drainage exposes these deposits to atmospheric oxygen, iron sulfide minerals in the soils are rapidly oxidized. This process turns the potential acid sulfate soils into actual acid sulfate soils and mobilizes large quantities of acidity and leachable toxic metals that cause severe environmental problems. It is known that acidophilic microorganisms living in acid sulfate soils catalyze iron sulfide mineral oxidation. However, only a few studies regarding these communities have been published. In this study, we sampled the oxidized actual acid sulfate soil, the transition zone where oxidation is actively taking place, and the deepest un-oxidized potential acid sulfate soil. Nucleic acids were extracted and 16S rRNA gene amplicons, metagenomes, and metatranscriptomes generated to gain a detailed insight into the communities and their activities. The project will be of great use to microbiologists, environmental biologists, geochemists, and geologists as there is hydrological and geochemical monitoring from the site stretching back for many years.},
doi = {10.1038/s41597-019-0222-3},
journal = {Scientific Data},
number = 1,
volume = 6,
place = {United States},
year = {2019},
month = {10}
}

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