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Microbial stratification in low pH oxic and suboxic macroscopic growths along an acid mine drainage

Méndez-García, Celia, Mesa, Victoria, Sprenger, Richard R, Richter, Michael, Diez, María Suárez, Solano, Jennifer, Bargiela, Rafael, Golyshina, Olga V, Manteca, Ángel, Ramos, Juan Luis, Gallego, José R, Llorente, Irene, Martins dos Santos, Vitor A P, Jensen, Ole N, Peláez, Ana I, Sánchez, Jesús, Ferrer, Manuel·2014·The ISME Journal
DOI 10.1038/ismej.2013.242PMC PMC4030236
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Abstract

Macroscopic growths at geographically separated acid mine drainages (AMDs) exhibit distinct populations. Yet, local heterogeneities are poorly understood. To gain novel mechanistic insights into this, we used OMICs tools to profile microbial populations coexisting in a single pyrite gallery AMD (pH ∼2) in three distinct compartments: two from a stratified streamer (uppermost oxic and lowermost anoxic sediment-attached strata) and one from a submerged anoxic non-stratified mat biofilm. The communities colonising pyrite and those in the mature formations appear to be populated by the greatest diversity of bacteria and archaea (including ‘ARMAN’ (archaeal Richmond Mine acidophilic nano-organisms)-related), as compared with the known AMD, with ∼44.9% unclassified sequences. We propose that the thick polymeric matrix may provide a safety shield against the prevailing extreme condition and also a massive carbon source, enabling non-typical acidophiles to develop more easily. Only 1 of 39 species were shared, suggesting a high metabolic heterogeneity in local microenvironments, defined by the O2 concentration, spatial location and biofilm architecture. The suboxic mats, compositionally most similar to each other, are more diverse and active for S, CO2, CH4, fatty acid and lipopolysaccharide metabolism. The oxic stratum of the streamer, displaying a higher diversity of the so-called ‘ARMAN’-related Euryarchaeota, shows a higher expression level of proteins involved in signal transduction, cell growth and N, H2, Fe, aromatic amino acids, sphingolipid and peptidoglycan metabolism. Our study is the first to highlight profound taxonomic and functional shifts in single AMD formations, as well as new microbial species and the importance of H2 in acidic suboxic macroscopic growths.

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Figure 1 Gallery scheme, showing the location of the main macroscopic growths (env1 microenvironment, where B1A and B1B develop, and env2, where B2 upwellings appear) found along the Los Rueldos AMD system. Main geochemical characteristics of the drainage are shown; metal and sulphate concentrations are represented in mg l−1. Corresponding DO profiles to each microenvironment are displayed. Photographs illustrating the general aspect of the main microbial formations within the Los Rueldos AMD are included for further clarification. The reappearance of the B1 morphology at the end of the gallery is illustrated. The discontinuous line on the top represents the gallery ceiling with the presence of stalactites.
Figure 1 Gallery scheme, showing the location of the main macroscopic growths (env1 microenvironment, where B1A and B1B develop, and env2, where B2 upwellings appear) found along the Los Rueldos AMD system. Main geochemical characteristics of the drainage are shown; metal and sulphate concentrations are represented in mg l−1. Corresponding DO profiles to each microenvironment are displayed. Photographs illustrating the general aspect of the main microbial formations within the Los Rueldos AMD are included for further clarification. The reappearance of the B1 morphology at the end of the gallery is illustrated. The discontinuous line on the top represents the gallery ceiling with the presence of stalactites.CC BY-NC-ND · PubMed Central
Figure 2 Maximum-likelihood phylogenies for the bacterial 16S rRNA full-length sequence amplicons retrieved from the constructed gene clone libraries. Scale bars represent changes per site or the ( × 100) % difference in nucleotide sequences. The main phylogenetic clusters are highlighted in grey. Bootstrap values are labelled at their corresponding nodes with circles: >85%, closed circles; >50%, open circles. The contribution of each OPU to the library is represented in the accompanying graphs. Representative sequences for each sample are differentiated by a colour code: B1A, red; B1B, blue; B2, green.
Figure 2 Maximum-likelihood phylogenies for the bacterial 16S rRNA full-length sequence amplicons retrieved from the constructed gene clone libraries. Scale bars represent changes per site or the ( × 100) % difference in nucleotide sequences. The main phylogenetic clusters are highlighted in grey. Bootstrap values are labelled at their corresponding nodes with circles: >85%, closed circles; >50%, open circles. The contribution of each OPU to the library is represented in the accompanying graphs. Representative sequences for each sample are differentiated by a colour code: B1A, red; B1B, blue; B2, green.CC BY-NC-ND · PubMed Central
Figure 3 Venn diagram showing the common and distinct distribution of the number of (a) bacterial, archaeal, ‘ARMAN'-related and total OPU-based species (in this order from the left to the right), (b) potential protein-coding genes as assigned to pyrosequences, (c) proteins being expressed as found in the metaproteomes and (d) metabolic reactions associated to proteins being expressed.
Figure 3 Venn diagram showing the common and distinct distribution of the number of (a) bacterial, archaeal, ‘ARMAN'-related and total OPU-based species (in this order from the left to the right), (b) potential protein-coding genes as assigned to pyrosequences, (c) proteins being expressed as found in the metaproteomes and (d) metabolic reactions associated to proteins being expressed.CC BY-NC-ND · PubMed Central
Figure 4 Maximum-likelihood phylogenies for the archaeal 16S rRNA full-length sequence amplicons retrieved from the constructed gene clone libraries. Scale bars represent changes per site or the ( × 100) % difference in nucleotide sequences. The main phylogenetic clusters are highlighted in grey. Bootstrap values are indicated at the corresponding nodes with circles: >85%, closed circles; >50%, open circles. The contribution of each OPU to the library is represented in the accompanying graphs. Representative sequences for each sample are differentiated by a colour code: B1A, red; B1B, blue; B2, green.
Figure 4 Maximum-likelihood phylogenies for the archaeal 16S rRNA full-length sequence amplicons retrieved from the constructed gene clone libraries. Scale bars represent changes per site or the ( × 100) % difference in nucleotide sequences. The main phylogenetic clusters are highlighted in grey. Bootstrap values are indicated at the corresponding nodes with circles: >85%, closed circles; >50%, open circles. The contribution of each OPU to the library is represented in the accompanying graphs. Representative sequences for each sample are differentiated by a colour code: B1A, red; B1B, blue; B2, green.CC BY-NC-ND · PubMed Central
Figure 5 The main differences at the level of microbial diversity between the Los Rueldos macroscopic growths and similar macroscopic structures previously reported from other AMD sites. (a) Mynydd Parys mine streamer (Hallberg et al., 2006). (b) Tinto River macroscopic floating filaments (López-Archilla et al., 2004). (c) Los Rueldos mine streamer/mats (this study). (d) Iron Mountain mine acidic biofilm (Tyson et al., 2004).
Figure 5 The main differences at the level of microbial diversity between the Los Rueldos macroscopic growths and similar macroscopic structures previously reported from other AMD sites. (a) Mynydd Parys mine streamer (Hallberg et al., 2006). (b) Tinto River macroscopic floating filaments (López-Archilla et al., 2004). (c) Los Rueldos mine streamer/mats (this study). (d) Iron Mountain mine acidic biofilm (Tyson et al., 2004).CC BY-NC-ND · PubMed Central
Figure 6 KEGG profiling analysis of the Los Rueldos and Richmond (AMD.R) AMD community genomes. Hierarchical clustering and heatmap colours are based on functional compositions of KEGGs as determined by the relative percentages of KEGG Orthology (KO) identifiers assigned to particular KEGG categories. The colour scale quantifies the relative percentages from one sample to the other, and goes from red (highly abundant) to black (abundant) to light green (low abundant).
Figure 6 KEGG profiling analysis of the Los Rueldos and Richmond (AMD.R) AMD community genomes. Hierarchical clustering and heatmap colours are based on functional compositions of KEGGs as determined by the relative percentages of KEGG Orthology (KO) identifiers assigned to particular KEGG categories. The colour scale quantifies the relative percentages from one sample to the other, and goes from red (highly abundant) to black (abundant) to light green (low abundant).CC BY-NC-ND · PubMed Central
Figure 7 Heat map and clustering of predicted genes encoding enzymes for the sulphur, nitrogen, CO2, H2 and iron metabolism in the Los Rueldos AMD macroscopic growths. The heatmap colours represent the relative percentages of distinct presumptive reactions assigned to particular enzymes within each sample. Hierarchical clustering based on relative percentage of predicted pooled genes encoding proteins involved in specifically transformations is shown. Note: a total of 438 (or 0.76%) of the total ORF fragments (B1A: 185; B1B: 145 and B2: 108) were identified as showing close sequence similarity to genes that encode enzymes known to be involved in the turnover of S, N, CO2, H2 and Fe and, accordingly, presumable functionalities were established and accounted in this figure. Colour scale as in Figure 6.
Figure 7 Heat map and clustering of predicted genes encoding enzymes for the sulphur, nitrogen, CO2, H2 and iron metabolism in the Los Rueldos AMD macroscopic growths. The heatmap colours represent the relative percentages of distinct presumptive reactions assigned to particular enzymes within each sample. Hierarchical clustering based on relative percentage of predicted pooled genes encoding proteins involved in specifically transformations is shown. Note: a total of 438 (or 0.76%) of the total ORF fragments (B1A: 185; B1B: 145 and B2: 108) were identified as showing close sequence similarity to genes that encode enzymes known to be involved in the turnover of S, N, CO2, H2 and Fe and, accordingly, presumable functionalities were established and accounted in this figure. Colour scale as in Figure 6.CC BY-NC-ND · PubMed Central
Figure 8 Scheme illustrating the presumably predominant metabolisms in the Los Rueldos microenvironments. Hypothetical initial steps of colonisation are indicated for the establishment of the B1 streamer as well as main metabolic transformations that give origin to auto- and heterotrophic metabolisms. AMD flow is indicated by the arrows at the right side of each.
Figure 8 Scheme illustrating the presumably predominant metabolisms in the Los Rueldos microenvironments. Hypothetical initial steps of colonisation are indicated for the establishment of the B1 streamer as well as main metabolic transformations that give origin to auto- and heterotrophic metabolisms. AMD flow is indicated by the arrows at the right side of each.CC BY-NC-ND · PubMed Central

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Research works printed but not linked: 58

  1. Aguilera, 2006, Eukaryotic community distribution and its relationship to water physicochemical parameters in an extreme acidic environment, Rio Tinto (southwestern Spain), Appl Environ Microbiol, 72, 5325, 10.1128/AEM.00513-06 · DOI
  2. Amaral-Zettler, 2011, Microbial community structure across the tree of life in the extreme Río Tinto, ISME J, 5, 42, 10.1038/ismej.2010.101 · DOI
  3. Amils, 2011, From río tinto to Mars: the terrestrial and extraterrestrial ecology of acidophiles, Adv Appl Microbiol, 77, 41, 10.1016/B978-0-12-387044-5.00002-9 · DOI
  4. Baker, 2003, Microbial communities in acid mine drainage, FEMS Microbiol Ecol, 44, 139, 10.1016/S0168-6496(03)00028-X · DOI
  5. Baker, 2010, Enigmatic, ultrasmall, uncultivated Archaea, Proc Natl Acad Sci USA, 107, 8806, 10.1073/pnas.0914470107 · DOI
  6. Baker, 2009, Insights into the diversity of eukaryotes in acid mine drainage biofilm communities, Appl Environ Microbiol, 75, 2192, 10.1128/AEM.02500-08 · DOI
  7. Baker, 2006, Lineages of acidophilic archaea revealed by community genomic analysis, Science, 314, 1933, 10.1126/science.1132690 · DOI
  8. Baker-Austin, 2010, Biofilm development in the extremely acidophilic archaeon ‘Ferroplasma acidarmanus’ Fer1, Extremophiles, 14, 485, 10.1007/s00792-010-0328-1 · DOI
  9. Belnap, 2011, Quantitative proteomic analyses of the response of acidophilic microbial communities to different pH conditions, ISME J, 5, 1152, 10.1038/ismej.2010.200 · DOI
  10. Belnap, 2010, Cultivation and quantitative proteomic analyses of acidophilic microbial communities, ISME J, 4, 520, 10.1038/ismej.2009.139 · DOI
  11. Bertin, 2011, Metabolic diversity among main microorganisms inside an arsenic-rich ecosystem revealed by meta- and proteo-genomics, ISME J, 5, 1735, 10.1038/ismej.2011.51 · DOI
  12. Bohorquez, 2012, In-depth characterization via complementing culture-independent approaches of the microbial community in an acidic hot spring of the Colombian Andes, Microb Ecol, 63, 103, 10.1007/s00248-011-9943-3 · DOI
  13. Bond, 2000, Comparison of acid mine drainage microbial communities in physically and geochemically distinct ecosystems, Appl Environ Microbiol, 66, 4962, 10.1128/AEM.66.11.4962-4971.2000 · DOI
  14. Bond, 2000, Phylogeny of microorganisms populating a thick, subaerial, predominantly lithotrophic biofilm at an extreme acid mine drainage site, Appl Environ Microbiol, 66, 3842, 10.1128/AEM.66.9.3842-3849.2000 · DOI
  15. Comolli, 2009, Three-dimensional analysis of the structure and ecology of a novel, ultra-small archaeon, ISME J, 3, 159, 10.1038/ismej.2008.99 · DOI
  16. Denef, 2010, Proteogenomic basis for ecological divergence of closely related bacteria in natural acidophilic microbial communities, Proc Natl Acad Sci USA, 107, 2383, 10.1073/pnas.0907041107 · DOI
  17. Dojka, 2000, Expanding the known diversity and environmental distribution of an uncultured phylogenetic division of bacteria, Appl Environ Microbiol, 66, 1617, 10.1128/AEM.66.4.1617-1621.2000 · DOI
  18. García-Moyano, 2007, Prokaryotic community composition and ecology of floating macroscopic filaments from an extreme acidic environment, Rio Tinto (SW, Spain), Syst Appl Microbiol, 30, 601, 10.1016/j.syapm.2007.08.002 · DOI
  19. Golyshina, 2011, Environmental, biogeographic, and biochemical patterns of archaea of the family Ferroplasmaceae, Appl Environ Microbiol, 77, 5071, 10.1128/AEM.00726-11 · DOI
  20. González-Toril, 2011, Geomicrobiology of La Zarza-Perrunal acid mine effluent (Iberian Pyritic Belt, Spain), Appl Environ Microbiol, 77, 2685, 10.1128/AEM.02459-10 · DOI
  21. Hallberg, 2010, New perspectives in acid mine drainage microbiology, Hydrometallurgy, 104, 448, 10.1016/j.hydromet.2009.12.013 · DOI
  22. Hallberg, 2006, Macroscopic streamer growths in acidic, metal-rich mine waters in north wales consist of novel and remarkably simple bacterial communities, Appl Environ Microbiol, 72, 2022, 10.1128/AEM.72.3.2022-2030.2006 · DOI
  23. He, 2008, Microbial diversity in acid mineral bioleaching systems of Dongxiang copper mine and Yinshan lead-zinc mine, Extremophiles, 12, 225, 10.1007/s00792-007-0130-x · DOI
  24. Hedlund, 2011, Phylum XXII. Lentisphaerae, Bergey’s Manual Syst Bacteriol, 4, 785
  25. Hernández, 2013, Functional consequences of microbial shifts in the human gastrointestinal tract linked to antibiotic treatment and obesity, Gut Microbes, 4, 306, 10.4161/gmic.25321 · DOI
  26. Iino, 2013, Candidatus Methanogranum caenicola: a novel methanogen from the anaerobic digested sludge, and proposal of Methanomassiliicoccaceae fam. Nov. and Methanomassiliicoccales ord. nov., for a methanogenic lineage of the class Thermoplasmata, Microbes Environ, 28, 244, 10.1264/jsme2.ME12189 · DOI
  27. Johnson, 2012, Geomicrobiology of extremely acidic subsurface environments, FEMS Microbiol Ecol, 81, 2, 10.1111/j.1574-6941.2011.01293.x · DOI
  28. Jones, 2012, Community genomic analysis of an extremely acidophilic sulfur-oxidizing biofilm, ISME J, 6, 158, 10.1038/ismej.2011.75 · DOI
  29. Juottonen, 2008, Seasonality of rDNA- and rRNA-derived archaeal communities and methanogenic potential in a boreal mire, ISME J, 2, 1157, 10.1038/ismej.2008.66 · DOI
  30. Kimura, 2005, Microbial community in a geothermal aquifer associated with the subsurface of the Great Artesian Basin, Australia, Extremophiles, 9, 407, 10.1007/s00792-005-0454-3 · DOI
  31. Kuang, 2013, Contemporary environmental variation determines microbial diversity patterns in acid mine drainage, ISME J, 7, 1038, 10.1038/ismej.2012.139 · DOI
  32. Liljeqvist, 2013, Gene identification and substrate regulation provide insights into sulfur accumulation during bioleaching with the psychrotolerant acidophile Acidithiobacillus ferrivorans, Appl Environ Microbiol, 79, 951, 10.1128/AEM.02989-12 · DOI
  33. Liljeqvist, 2011, Draft genome of the psychrotolerant acidophile Acidithiobacillus ferrivorans SS3, J Bacteriol, 193, 4304, 10.1128/JB.05373-11 · DOI
  34. López-Archilla, 2004, Macrofilamentous microbial communities in the metal-rich and acidic River Tinto, Spain, FEMS Microbiol Lett, 235, 221, 10.1111/j.1574-6968.2004.tb09592.x · DOI
  35. López-López, 2010, Extremely halophilic microbial communities in anaerobic sediments from a solar saltern, Environ Microbiol Rep, 2, 258, 10.1111/j.1758-2229.2009.00108.x · DOI
  36. Loredo, 2005, Release of toxic metals and metalloids from Los Rueldos mercury mine (Asturias, Spain), Sci Total Environ, 340, 247, 10.1016/j.scitotenv.2004.08.019 · DOI
  37. Macalady, 2007, Extremely acidic, pendulous cave wall biofilms from the Frasassi cave system, Italy, Environ Microbiol, 9, 1402, 10.1111/j.1462-2920.2007.01256.x · DOI
  38. Moreno-Paz, 2010, Environmental transcriptome analysis reveals physiological differences between biofilm and planktonic modes of life of the iron oxidizing bacteria Leptospirillum spp. in their natural microbial community, BMC Genom, 11, 404, 10.1186/1471-2164-11-404 · DOI
  39. Mueller, 2011, Proteome changes in the initial bacterial colonist during ecological succession in an acid mine drainage biofilm community, Environ Microbiol, 13, 2279, 10.1111/j.1462-2920.2011.02486.x · DOI
  40. Muller, 2010, eggNOG v2.0: extending the evolutionary genealogy of genes with enhanced non-supervised orthologous groups, species and functional annotations, Nucleic Acids Res, 38, D190, 10.1093/nar/gkp951 · DOI
  41. Nancucheo, 2010, Production of glycolic acid by chemolithotrophic iron- and sulfur-oxidizing bacteria and its role in delineating and sustaining acidophilic sulfide mineral-oxidizing consortia, Appl Environ Microbiol, 76, 461, 10.1128/AEM.01832-09 · DOI
  42. Paul, 2012, ‘Methanoplasmatales,’ Thermoplasmatales-related archaea in termite guts and other environments, are the seventh order of methanogens, Appl Environ Microbiol, 78, 8245, 10.1128/AEM.02193-12 · DOI · Paper page
  43. Pruesse, 2012, SINA: accurate high-throughput multiple sequence alignment of ribosomal RNA genes, Bioinformatics, 28, 1823, 10.1093/bioinformatics/bts252 · DOI
  44. Quatrini, 2009, Extending the models for iron and sulfur oxidation in the extreme acidophile Acidithiobacillus ferrooxidans, BMC Genom, 10, 394, 10.1186/1471-2164-10-394 · DOI
  45. Ram, 2005, Community proteomics of a natural microbial biofilm, Science, 308, 1915, 10.1126/science.1109070 · DOI
  46. Rawlings, 2002, Heavy metal mining using microbes, Annu Rev Microbiol, 56, 65, 10.1146/annurev.micro.56.012302.161052 · DOI
  47. Rowe, 2007, Microbial communities and geochemical dynamics in an extremely acidic, metal-rich stream at an abandoned sulfide mine (Huelva, Spain) underpinned by two functional primary production systems, Environ Microbiol, 9, 1761, 10.1111/j.1462-2920.2007.01294.x · DOI
  48. Sakai, 2012, Methanolinea mesophila sp. nov., a hydrogenotrophic methanogen isolated from rice field soil, and proposal of the archaeal family Methanoregulaceae fam. nov. within the order Methanomicrobiales, Int J Syst Evol Microbiol, 62, 1389, 10.1099/ijs.0.035048-0 · DOI
  49. Sánchez-Andrea, 2011, Microbial diversity in anaerobic sediments at Río Tinto, a naturally acidic environment with a high heavy metal content, Appl Environ Microbiol, 77, 6085, 10.1128/AEM.00654-11 · DOI
  50. Sunna, 2003, A gene encoding a novel extremely thermostable 1,4-beta-xylanase isolated directly from an environmental DNA sample, Extremophiles, 7, 63, 10.1007/s00792-002-0296-1 · DOI
  51. Tyson, 2005, Genome-directed isolation of the key nitrogen fixer Leptospirillum ferrodiazotrophum sp. nov. from an acidophilic microbial community, Appl Environ Microbiol, 71, 6319, 10.1128/AEM.71.10.6319-6324.2005 · DOI
  52. Valdés, 2008, Acidithiobacillus ferrooxidans metabolism: from genome sequence to industrial applications, BMC Genom, 9, 597, 10.1186/1471-2164-9-597 · DOI
  53. Wilmes, 2009, Natural acidophilic biofilm communities reflect distinct organismal and functional organization, ISME J, 3, 266, 10.1038/ismej.2008.90 · DOI
  54. Yarza, 2008, The All-Species Living Tree Project: a 16S rDNA-based phylogenetic tree of all sequenced type strains, Syst Appl Microbiol, 31, 241, 10.1016/j.syapm.2008.07.001 · DOI
  55. Yin, 2008, Bacterial diversity based on 16S rRNA and gyrB genes at Yinshan mine, China, Syst Appl Microbiol, 31, 302, 10.1016/j.syapm.2008.05.003 · DOI
  56. Zhou, 2003, Bacterial phylogenetic diversity and a novel candidate division of two humid region, sandy surface soils, Soil Biol Biochem, 35, 915, 10.1016/S0038-0717(03)00124-X · DOI
  57. Ziegler, 2009, Matrix composition and community structure analysis of a novel bacterial pyrite leaching community, Environ Microbiol, 11, 2329, 10.1111/j.1462-2920.2009.01959.x · DOI
  58. Ziegler, 2013, Oxygen-dependent niche formation of a pyrite-dependent acidophilic consortium built by archaea and bacteria, ISME J, 7, 1725, 10.1038/ismej.2013.64 · DOI

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Metadata

Authors
Méndez-García, C., Mesa, V., Sprenger, R. R., Richter, M., Diez, M. S., Solano, J., Bargiela, R., Golyshina, O. V., Manteca, Á., Ramos, J. L., Gallego, J. R., Llorente, I., Martins dos Santos, V. A. P., Jensen, O. N., Peláez, A. I., Sánchez, J., & Ferrer, M.
Affiliations
  • Departamento de Biología Funcional—IUBA, Universidad de Oviedo , Oviedo, Spain
  • Department of Biochemistry and Molecular Biology, University of Southern Denmark , Odense, Denmark
  • Ribocon GmbH , Bremen, Germany
  • Chair of Systems and Synthetic Biology, Wageningen University , Wageningen, The Netherlands
  • Department of Bioremediation, Bio-Iliberis R&D , Granada, Spain
  • Department of Applied Biocatalysis, Consejo Superior de Investigaciones Científicas (CSIC), Institute of Catalysis , Madrid, Spain
  • School of Biological Sciences, Bangor University , Gwynedd, UK
  • Consejo Superior de Investigaciones Científicas (CSIC), Estación Experimental del Zaidín , Granada, Spain
  • Departamento de Explotación y Prospección de Minas—IUBA, Universidad de Oviedo , Oviedo, Spain
  • Centro Nacional de Investigaciones Metalúrgicas, CSIC , Madrid, Spain
Venue
The ISME Journal
Publisher
Oxford University Press (OUP)
Published
2014-01-16
Volume
8
Issue
6
Pages
1259-1274
ISSN
  • 1751-7362
  • 1751-7370
DOI
10.1038/ismej.2013.242
PMC
PMC4030236
Cited by
101
References
1
Language
en
Licence
creativecommons.org/licenses/by-nc-nd/3.0/ (vor, 3660 d)

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Méndez-García, C., Mesa, V., Sprenger, R. R., Richter, M., Diez, M. S., Solano, J., Bargiela, R., Golyshina, O. V., Manteca, Á., Ramos, J. L., Gallego, J. R., Llorente, I., Martins dos Santos, V. A. P., Jensen, O. N., Peláez, A. I., Sánchez, J., & Ferrer, M. (2014). Microbial stratification in low pH oxic and suboxic macroscopic growths along an acid mine drainage. The ISME Journal. https://doi.org/10.1038/ismej.2013.242