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Khomyakova MA, Merkel AY, Novikov AA, Slobodkin AI. Peloplasma aerotolerans gen. nov., sp. nov., a Novel Anaerobic Free-Living Mollicute Isolated from a Terrestrial Mud Volcano. Life (Basel) 2024; 14:563. [PMID: 38792585 PMCID: PMC11122141 DOI: 10.3390/life14050563] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/27/2024] [Revised: 04/24/2024] [Accepted: 04/25/2024] [Indexed: 05/26/2024] Open
Abstract
A novel aerotolerant anaerobic bacterium (strain M4AhT) was isolated from a terrestrial mud volcano (Taman Peninsula, Russia). Cells were small, cell-wall-less, non-motile cocci, 0.32-0.65 μm in diameter. The isolate was a mesophilic, neutrophilic chemoorganoheterotroph, growing on carbohydrates (D-glucose, D-trehalose, D-ribose, D-mannose, D-xylose, D-maltose, D-lactose, D-cellobiose, D-galactose, D-fructose, and D-sucrose), proteinaceous compounds (yeast extract, tryptone), and pyruvate. Strain M4AhT tolerated 2% oxygen in the gas phase, was catalase-positive, and showed sustainable growth under microaerobic conditions. The dominant cellular fatty acids of strain M4AhT were C16:0 and C18:0. The G+C content of the genomic DNA was 32.42%. The closest phylogenetic relative of strain M4AhT was Mariniplasma anaerobium from the family Acholeplasmataceae (order Acholeplasmatales, class Mollicutes). Based on the polyphasic characterization of the isolate, strain M4AhT is considered to represent a novel species of a new genus, for which the name Peloplasma aerotolerans gen. nov., sp. nov. is proposed. The type strain of Peloplasma aerotolerans is M4AhT (=DSM 112561T = VKM B-3485T = UQM 41475T). This is the first representative of the order Acholeplasmatales, isolated from a mud volcano.
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Affiliation(s)
- Maria A. Khomyakova
- Winogradsky Institute of Microbiology, Research Center of Biotechnology of the Russian Academy of Sciences, Leninskiy Prospect, 33, bld. 2, 119071 Moscow, Russia
| | - Alexander Y. Merkel
- Winogradsky Institute of Microbiology, Research Center of Biotechnology of the Russian Academy of Sciences, Leninskiy Prospect, 33, bld. 2, 119071 Moscow, Russia
| | - Andrei A. Novikov
- Department of Physical and Colloid Chemistry, Gubkin University, Leninskiy Prospect, 65/1, 119991 Moscow, Russia
| | - Alexander I. Slobodkin
- Winogradsky Institute of Microbiology, Research Center of Biotechnology of the Russian Academy of Sciences, Leninskiy Prospect, 33, bld. 2, 119071 Moscow, Russia
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2
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Wang M, Wang H, Wang P, Fu HH, Li CY, Qin QL, Liang Y, Wang M, Chen XL, Zhang YZ, Zhang W. TCA cycle enhancement and uptake of monomeric substrates support growth of marine Roseobacter at low temperature. Commun Biol 2022; 5:705. [PMID: 35835984 PMCID: PMC9283371 DOI: 10.1038/s42003-022-03631-2] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/15/2021] [Accepted: 06/24/2022] [Indexed: 11/29/2022] Open
Abstract
Members of the marine Roseobacter group are ubiquitous in global oceans, but their cold-adaptive strategies have barely been studied. Here, as represented by Loktanella salsilacus strains enriched in polar regions, we firstly characterized the metabolic features of a cold-adapted Roseobacter by multi-omics, enzyme activities, and carbon utilization procedures. Unlike in most cold-adapted microorganisms, the TCA cycle is enhanced by accumulating more enzyme molecules, whereas genes for thiosulfate oxidation, sulfate reduction, nitrate reduction, and urea metabolism are all expressed at lower abundance when L. salsilacus was growing at 5 °C in comparison with higher temperatures. Moreover, a carbon-source competition experiment has evidenced the preferential use of glucose rather than sucrose at low temperature. This selective utilization is likely to be controlled by the carbon source uptake and transformation steps, which also reflects an economic calculation balancing energy production and functional plasticity. These findings provide a mechanistic understanding of how a Roseobacter member and possibly others as well counteract polar constraints. The metabolic adaptation of Loktanella salsilacus strains to cold involves an increase of enzymes involved in the TCA cycle and preferential use of glucose rather than sucrose at low temperature, providing insights into how Roseobacter adapts in polar regions.
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Affiliation(s)
- Meng Wang
- College of Marine Life Sciences, Ocean University of China, Qingdao, 266003, China.,Frontiers Science Center for Deep Ocean Multispheres and Earth System, Ocean University of China, Qingdao, 266003, China.,State Key Laboratory of Microbial Technology, Marine Biotechnology Research Center, Shandong University, Qingdao, 266237, China
| | - Huan Wang
- College of Marine Life Sciences, Ocean University of China, Qingdao, 266003, China
| | - Peng Wang
- College of Marine Life Sciences, Ocean University of China, Qingdao, 266003, China
| | - Hui-Hui Fu
- College of Marine Life Sciences, Ocean University of China, Qingdao, 266003, China
| | - Chun-Yang Li
- College of Marine Life Sciences, Ocean University of China, Qingdao, 266003, China
| | - Qi-Long Qin
- College of Marine Life Sciences, Ocean University of China, Qingdao, 266003, China.,State Key Laboratory of Microbial Technology, Marine Biotechnology Research Center, Shandong University, Qingdao, 266237, China
| | - Yantao Liang
- College of Marine Life Sciences, Ocean University of China, Qingdao, 266003, China
| | - Min Wang
- College of Marine Life Sciences, Ocean University of China, Qingdao, 266003, China
| | - Xiu-Lan Chen
- State Key Laboratory of Microbial Technology, Marine Biotechnology Research Center, Shandong University, Qingdao, 266237, China.,Laboratory for Marine Biology and Biotechnology, Pilot National Laboratory for Marine Science and Technology, Qingdao, 266373, China
| | - Yu-Zhong Zhang
- College of Marine Life Sciences, Ocean University of China, Qingdao, 266003, China. .,Frontiers Science Center for Deep Ocean Multispheres and Earth System, Ocean University of China, Qingdao, 266003, China. .,State Key Laboratory of Microbial Technology, Marine Biotechnology Research Center, Shandong University, Qingdao, 266237, China. .,Laboratory for Marine Biology and Biotechnology, Pilot National Laboratory for Marine Science and Technology, Qingdao, 266373, China.
| | - Weipeng Zhang
- College of Marine Life Sciences, Ocean University of China, Qingdao, 266003, China.
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Watanabe M, Kojima H, Okano K, Fukui M. Mariniplasma anaerobium gen. nov., sp. nov., a novel anaerobic marine mollicute, and proposal of three novel genera to reclassify members of Acholeplasma clusters II-IV. Int J Syst Evol Microbiol 2021; 71. [PMID: 34874244 DOI: 10.1099/ijsem.0.005138] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
A novel strictly anaerobic chemoorganotrophic bacterium, designated Mahy22T, was isolated from sulfidic bottom water of a shallow brackish meromictic lake in Japan. Cells of the strain were Gram-stain-negative, non-motile and coccoid in shape with diameters of about 600-800 nm. The temperature range for growth was 15-37 °C, with optimum growth at 30-32 °C. The pH range for growth was pH 6.2-8.9, with optimum growth at pH 7.2-7.4. The strain grew with NaCl concentrations of 5% or below (optimum, 2-3%). Growth of the strain was enhanced by the addition of thiosulfate. The major cellular fatty acids were C16:0 and anteiso-C15:0. Respiratory quinones were not detected. The complete genome sequence of strain Mahy22T possessed a 1 885 846 bp circular chromosome and a 12 782 bp circular genetic element. The G+C content of the genome sequence was 30.1 mol%. Phylogenetic analysis based on the 16S rRNA gene revealed that the novel strain belonged to the family Acholeplasmataceae, class Mollicutes. The closest relative of strain Mahy22T with a validly published name was Acholeplasma palmae J233T with a 16S rRNA gene sequence similarity of 90.5%. Based on the results of polyphasic analysis, the name Mariniplasma anaerobium gen. nov., sp. nov. is proposed to accommodate strain Mahy22T, along with reclassification of some Acholeplasma species into Alteracholeplasma gen. nov., Haploplasma gen. nov. and Paracholeplasma gen. nov.
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Affiliation(s)
- Miho Watanabe
- Institute of Low Temperature Science, Hokkaido University, Kita-19, Nishi-8, Kita-ku, Sapporo 060-0819, Japan.,Department of Biological Environment, Akita Prefectural University, Shimoshinjyo-Nakano, Akita 010-0195, Japan
| | - Hisaya Kojima
- Institute of Low Temperature Science, Hokkaido University, Kita-19, Nishi-8, Kita-ku, Sapporo 060-0819, Japan
| | - Kunihiro Okano
- Department of Biological Environment, Akita Prefectural University, Shimoshinjyo-Nakano, Akita 010-0195, Japan
| | - Manabu Fukui
- Institute of Low Temperature Science, Hokkaido University, Kita-19, Nishi-8, Kita-ku, Sapporo 060-0819, Japan
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Abstract
A unique environment at Borup Fiord Pass is characterized by a sulfur-enriched glacial ecosystem in the low-temperature Canadian High Arctic. BFP represents one of the best terrestrial analog sites for studying icy, sulfur-rich worlds outside our own, such as Europa and Mars. The site also allows investigation of sulfur-based microbial metabolisms in cold environments here on Earth. Here, we report whole-genome sequencing data that suggest that sulfur cycling metabolisms at BFP are more widely used across bacterial taxa than predicted. From our analyses, the metabolic capability of sulfur oxidation among multiple community members appears likely due to functional redundancy present in their genomes. Functional redundancy, with respect to sulfur-oxidation at the BFP sulfur-ice environment, may indicate that this dynamic ecosystem hosts microorganisms that are able to use multiple sulfur electron donors alongside other metabolic pathways, including those for carbon and nitrogen. Biological sulfur cycling in polar, low-temperature ecosystems is an understudied phenomenon in part due to difficulty of access and the dynamic nature of glacial environments. One such environment where sulfur cycling is known to play an important role in microbial metabolisms is located at Borup Fiord Pass (BFP) in the Canadian High Arctic. Here, transient springs emerge from ice near the terminus of a glacier, creating a large area of proglacial aufeis (spring-derived ice) that is often covered in bright yellow/white sulfur, sulfate, and carbonate mineral precipitates accompanied by a strong odor of hydrogen sulfide. Metagenomic sequencing of samples from multiple sites and of various sample types across the BFP glacial system produced 31 metagenome-assembled genomes (MAGs) that were queried for sulfur, nitrogen, and carbon cycling/metabolism genes. An abundance of sulfur cycling genes was widespread across the isolated MAGs and sample metagenomes taxonomically associated with the bacterial classes Alphaproteobacteria and Gammaproteobacteria and Campylobacteria (formerly the Epsilonproteobacteria). This corroborates previous research from BFP implicating Campylobacteria as the primary class responsible for sulfur oxidation; however, data reported here suggested putative sulfur oxidation by organisms in both the alphaproteobacterial and gammaproteobacterial classes that was not predicted by previous work. These findings indicate that in low-temperature, sulfur-based environments, functional redundancy may be a key mechanism that microorganisms use to enable coexistence whenever energy is limited and/or focused by redox chemistry. IMPORTANCE A unique environment at Borup Fiord Pass is characterized by a sulfur-enriched glacial ecosystem in the low-temperature Canadian High Arctic. BFP represents one of the best terrestrial analog sites for studying icy, sulfur-rich worlds outside our own, such as Europa and Mars. The site also allows investigation of sulfur-based microbial metabolisms in cold environments here on Earth. Here, we report whole-genome sequencing data that suggest that sulfur cycling metabolisms at BFP are more widely used across bacterial taxa than predicted. From our analyses, the metabolic capability of sulfur oxidation among multiple community members appears likely due to functional redundancy present in their genomes. Functional redundancy, with respect to sulfur-oxidation at the BFP sulfur-ice environment, may indicate that this dynamic ecosystem hosts microorganisms that are able to use multiple sulfur electron donors alongside other metabolic pathways, including those for carbon and nitrogen.
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5
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Wu J, Jiang X, Jin Z, Yang S, Zhang J. The performance and microbial community in a slightly alkaline biotrickling filter for the removal of high concentration H 2S from biogas. CHEMOSPHERE 2020; 249:126127. [PMID: 32074498 DOI: 10.1016/j.chemosphere.2020.126127] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/01/2019] [Revised: 01/18/2020] [Accepted: 02/04/2020] [Indexed: 06/10/2023]
Abstract
In this study, high concentration of H2S (i.e., 5000 ppmv) in biogas was effectively removed by a slightly alkaline biotricking filter (BTF) with Polypropylene rings as packing material and oxygen from air as the electron acceptor. The results showed that when the inlet loading of H2S increased from 101.7 to 422.0 g/m3/h, the removal efficiency of H2S decreased from 100.0% to 91.4%, and the maximum elimination capacity (EC) was 386.0 ± 10.5 gH2S/m3/h when empty bed retention time (EBRT) was 1.0 min. The slightly alkaline condition could increase the mass transfer of H2S from gas to liquid phase and avoid the toxic effect of high concentration of H2S, resulting in high removal performance of H2S in the system. With the increase of H2S inlet loading, the ratio of SO42- in bio-desulfurization products gradually decreased, while that of S0 increased. At 101.7-210.7 gH2S/m3/h of inlet loading, SO42- was the dominant product with the ratio of above 50.00%, while S0 became the dominant product with 62.96% at 422.0 gH2S/m3/h of inlet loading. The 16S rDNA sequencing results showed that the dominant genus in the BTF was sulfide-oxidizing bacteria (SOB), with the abundance of SOB decreased with the increase of inlet loading. The dominant genus were Pseudomonas, Halothiobacillus and Sulfurimonas in the BTF at 101.7, 139.8 and 210.7 gH2S/m3/h of inlet loading, respectively. The SOB Sulfurimonas might play an important role for bio-desulfurization of high concentration of H2S in a slightly alkaline BTF under high inlet loading of H2S.
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Affiliation(s)
- Jianping Wu
- College of Architecture and Environment, Sichuan University, Chengdu, 610065, People's Republic of China
| | - Xia Jiang
- College of Architecture and Environment, Sichuan University, Chengdu, 610065, People's Republic of China; National Engineering Research Center for Flue Gas Desulfurization, Chengdu, 610065, People's Republic of China.
| | - Ziheng Jin
- College of Architecture and Environment, Sichuan University, Chengdu, 610065, People's Republic of China
| | - Senlin Yang
- College of Architecture and Environment, Sichuan University, Chengdu, 610065, People's Republic of China
| | - Jin Zhang
- Sichuan Science City Tianren Environmental Protection Co., Ltd, Mianyang, 621000, People's Republic of China
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Wang S, Jiang L, Liu X, Yang S, Shao Z. Sulfurimonas xiamenensis sp. nov. and Sulfurimonas lithotrophica sp. nov., hydrogen- and sulfur-oxidizing chemolithoautotrophs within the Epsilonproteobacteria isolated from coastal sediments, and an emended description of the genus Sulfurimonas. Int J Syst Evol Microbiol 2020; 70:2657-2663. [DOI: 10.1099/ijsem.0.004087] [Citation(s) in RCA: 16] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
Strains 1-1NT and GYSZ_1T were isolated from marine sediments collected from the coast of Xiamen, PR China. Cells of the two strains were Gram-stain-negative, rod-shaped or slightly curved. Strain 1-1NT was non-motile, whereas strain GYSZ_1T was motile by means of one polar flagellum. The temperature, pH and salinity concentration ranges for growth of 1-1NT were 10–45 °C (optimum 30 °C), pH 5.5–8.0 (optimum 7.0) and 0–90 g l−1 NaCl (optimum 50 g l−1), while the growth of GYSZ_1T occurred at 4–45 °C (optimum 33 °C), pH 5.0–8.5 (optimum 6.5) and 5–90 g l−1 NaCl (optimum 20 g l−1). The two novel isolates were obligate chemolithoautotrophs capable of growth using hydrogen, thiosulfate, sulfide or elemental sulfur as the sole energy source, and nitrate, elemental sulfur or molecular oxygen as an electron acceptor. The major fatty acids of 1-1NT were C16 : 1ω7c, C16 : 0, C18 : 1ω7c and C18 : 0, while the predominant fatty acids of strain GYSZ_1T were C16 : 1ω7c, C16 : 0, C18 : 1ω7c and C14 : 0 3-OH. The DNA G+C contents of 1-1NT and GYSZ_1T were 34.5 mol% and 33.2 mol%, respectively. Phylogenetic analysis based on 16S rRNA gene sequences indicated that 1-1NT and GYSZ_1T represented members of the genus
Sulfurimonas
, with the highest sequence similarities to
Sulfurimonas crateris
SN118T (97.4 %) and
Sulfurimonas denitrificans
DSM 1251T (94.7 %), respectively. However, 1-1NT and GYSZ_1T shared 95.5 % similarity of 16S rRNA gene sequences, representing different species of the genus
Sulfurimonas
. On the basis of the physiological properties and the results of phylogenetic analyses, including average nucleotide identity and in silico DNA–DNA hybridization values, strains 1-1NT and GYSZ_1T represent two novel species within the genus
Sulfurimonas
, for which the names Sulfurimonas xiamenensis sp. nov. and Sulfurimonas lithotrophica sp. nov. are proposed, with the type strains 1-1NT (=MCCC 1A14514T=KCTC 15851T) and GYSZ_1T (=MCCC 1A14739T=KCTC 15853T), respectively. Our results also justify an emended description of the genus
Sulfurimonas
.
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Affiliation(s)
- Shasha Wang
- Department of Bioengineering and Biotechnology, College of Chemical Engineering, Huaqiao University, Xiamen 361021, PR China
- Fujian Key Laboratory of Marine Genetic Resources, Third Institute of Oceanography, Ministry of Natural Resources of PR China, Xiamen 361005, PR China
- Key Laboratory of Marine Genetic Resources, Third Institute of Oceanography, Ministry of Natural Resources of PR China, Xiamen 361005, PR China
- State Key Laboratory Breeding Base of Marine Genetic Resources, Third Institute of Oceanography, Ministry of Natural Resources of PR China, Xiamen 361005, PR China
| | - Lijing Jiang
- Fujian Key Laboratory of Marine Genetic Resources, Third Institute of Oceanography, Ministry of Natural Resources of PR China, Xiamen 361005, PR China
- Key Laboratory of Marine Genetic Resources, Third Institute of Oceanography, Ministry of Natural Resources of PR China, Xiamen 361005, PR China
- State Key Laboratory Breeding Base of Marine Genetic Resources, Third Institute of Oceanography, Ministry of Natural Resources of PR China, Xiamen 361005, PR China
| | - Xuewen Liu
- Fujian Key Laboratory of Marine Genetic Resources, Third Institute of Oceanography, Ministry of Natural Resources of PR China, Xiamen 361005, PR China
- State Key Laboratory Breeding Base of Marine Genetic Resources, Third Institute of Oceanography, Ministry of Natural Resources of PR China, Xiamen 361005, PR China
- Key Laboratory of Marine Genetic Resources, Third Institute of Oceanography, Ministry of Natural Resources of PR China, Xiamen 361005, PR China
| | - Suping Yang
- Department of Bioengineering and Biotechnology, College of Chemical Engineering, Huaqiao University, Xiamen 361021, PR China
| | - Zongze Shao
- State Key Laboratory Breeding Base of Marine Genetic Resources, Third Institute of Oceanography, Ministry of Natural Resources of PR China, Xiamen 361005, PR China
- Key Laboratory of Marine Genetic Resources, Third Institute of Oceanography, Ministry of Natural Resources of PR China, Xiamen 361005, PR China
- Fujian Key Laboratory of Marine Genetic Resources, Third Institute of Oceanography, Ministry of Natural Resources of PR China, Xiamen 361005, PR China
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Jiang X, Wu J, Jin Z, Yang S, Shen L. Enhancing the removal of H 2S from biogas through refluxing of outlet gas in biological bubble-column. BIORESOURCE TECHNOLOGY 2020; 299:122621. [PMID: 31877481 DOI: 10.1016/j.biortech.2019.122621] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/13/2019] [Revised: 12/11/2019] [Accepted: 12/12/2019] [Indexed: 06/10/2023]
Abstract
Biological bubble-column (BBC) is beneficial for elemental sulfur recycle from H2S, but it's difficult to remove high concentration of H2S in biogas efficiently due to the mass transfer limitation of H2S from gas to liquid. In this study, a novel method with refluxing outlet gas in BBC was investigated. The results showed that gas reflux greatly enhanced the removal of high concentration of H2S (about 5000 ppmv) from biogas. The removal efficiency of H2S was 88.0 ± 4.1% with the reflux ratio at 1.0, which was higher than those without gas reflux (58.4 ± 1.0%), when the inlet H2S loading was 143.1 ± 4.5 g/(m3·h). Moreover, the removal capacity of H2S improved significantly with the increase of the reflux ratios from 1.0 to 4.0 and achieved the maximum at 271.8 ± 2.4 g/(m3·h). This might mainly be attributed to longer residence time and enhanced the mass transfer of O2 and H2S from gas to liquid through gas reflux.
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Affiliation(s)
- Xia Jiang
- College of Architecture and Environment, Sichuan University, Chengdu 610065, People's Republic of China; National Engineering Research Center for Flue Gas Desulfurization, Chengdu 610065, People's Republic of China.
| | - Jianping Wu
- College of Architecture and Environment, Sichuan University, Chengdu 610065, People's Republic of China
| | - Ziheng Jin
- College of Architecture and Environment, Sichuan University, Chengdu 610065, People's Republic of China
| | - Senlin Yang
- College of Architecture and Environment, Sichuan University, Chengdu 610065, People's Republic of China
| | - Liang Shen
- College of Chemistry and Chemical Engineering, Xiamen University, Xiamen 361005, People's Republic of China
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Cron B, Henri P, Chan CS, Macalady JL, Cosmidis J. Elemental Sulfur Formation by Sulfuricurvum kujiense Is Mediated by Extracellular Organic Compounds. Front Microbiol 2019; 10:2710. [PMID: 31827465 PMCID: PMC6890823 DOI: 10.3389/fmicb.2019.02710] [Citation(s) in RCA: 19] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/20/2019] [Accepted: 11/08/2019] [Indexed: 11/13/2022] Open
Abstract
Elemental sulfur [S(0)] is a central and ecologically important intermediate in the sulfur cycle, which can be used by a wide diversity of microorganisms that gain energy from its oxidation, reduction, or disproportionation. S(0) is formed by oxidation of reduced sulfur species, which can be chemically or microbially mediated. A variety of sulfur-oxidizing bacteria can biomineralize S(0), either intracellularly or extracellularly. The details and mechanisms of extracellular S(0) formation by bacteria have been in particular understudied so far. An important question in this respect is how extracellular S(0) minerals can be formed and remain stable in the environment outside of their thermodynamic stability domain. It was recently discovered that S(0) minerals could be formed and stabilized by oxidizing sulfide in the presence of dissolved organic compounds, a process called S(0) organomineralization. S(0) particles formed through this mechanism possess specific signatures such as morphologies that differ from that of their inorganically precipitated counterparts, encapsulation within an organic envelope, and metastable crystal structures (presence of the monoclinic β- and γ-S8 allotropes). Here, we investigated S(0) formation by the chemolithoautotrophic sulfur-oxidizing and nitrate-reducing bacterium Sulfuricurvum kujiense (Epsilonproteobacteria). We performed a thorough characterization of the S(0) minerals produced extracellularly in cultures of this microorganism, and showed that they present all the specific signatures (morphology, association with organics, and crystal structures) of organomineralized S(0). Using "spent medium" experiments, we furthermore demonstrated that soluble extracellular compounds produced by S. kujiense are necessary to form and stabilize S(0) minerals outside of the cells. This study provides the first experimental evidence of the importance of organomineralization in microbial S(0) formation. The prevalence of organomineralization in extracellular S(0) precipitation by other sulfur bacteria remains to be investigated, and the biological role of this mechanism is still unclear. However, we propose that sulfur-oxidizing bacteria could use soluble organics to stabilize stores of bioavailable S(0) outside the cells.
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Affiliation(s)
- Brandi Cron
- Department of Geosciences, The Pennsylvania State University, University Park, PA, United States
| | - Pauline Henri
- Department of Earth Sciences, University of Delaware, Newark, DE, United States
| | - Clara S Chan
- Department of Earth Sciences, University of Delaware, Newark, DE, United States
| | - Jennifer L Macalady
- Department of Geosciences, The Pennsylvania State University, University Park, PA, United States
| | - Julie Cosmidis
- Department of Geosciences, The Pennsylvania State University, University Park, PA, United States
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9
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Trivedi CB, Lau GE, Grasby SE, Templeton AS, Spear JR. Low-Temperature Sulfidic-Ice Microbial Communities, Borup Fiord Pass, Canadian High Arctic. Front Microbiol 2018; 9:1622. [PMID: 30087659 PMCID: PMC6066561 DOI: 10.3389/fmicb.2018.01622] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/14/2018] [Accepted: 06/28/2018] [Indexed: 11/30/2022] Open
Abstract
A sulfur-dominated supraglacial spring system found at Borup Fiord Pass (BFP), Ellesmere Island, Nunavut, Canada, is a unique sulfur-on-ice system expressed along the toe of a glacier. BFP has an intermittent flowing, subsurface-derived, glacial spring that creates a large white-yellow icing (aufeis) that extends down-valley. Over field campaigns in 2014, 2016, and 2017, numerous samples were collected and analyzed for both microbial community composition and aqueous geochemistry. Samples were collected from multiple site types: spring discharge fluid, aufeis (spring-derived ice), melt pools with sedimented cryoconite material, and mineral precipitate scrapings, to probe how microbial communities differed between site types in a dynamic freeze/thaw sulfur-rich system. Dissolved sulfate varied between 0.07 and 11.6 mM and was correlated with chloride concentrations, where the fluids were saltiest among spring fluids. The highest sulfate samples exhibited high dissolved sulfide values between 0.22 and 2.25 mM. 16S rRNA gene sequencing from melt pool and aufeis samples from the 2014 campaign were highly abundant in operational taxonomic units (OTUs) closely related to sulfur-oxidizing microorganisms (SOM; Sulfurimonas, Sulfurovum, and Sulfuricurvum). Subsequent sampling 2 weeks later had fewer SOMs and showed an increased abundance of the genus Flavobacterium. Desulfocapsa, an organism that specializes in the disproportionation of inorganic sulfur compounds was also found. Samples from 2016 and 2017 revealed that microorganisms present were highly similar in community composition to 2014 samples, primarily echoed by the continued presence of Flavobacterium sp. Results suggest that while there may be acute events where sulfur cycling organisms dominate, a basal community structure appears to dominate over time and site type. These results further enhance our knowledge of low-temperature sulfur systems on Earth, and help to guide the search for potential life on extraterrestrial worlds, such as Europa, where similar low-temperature sulfur-rich conditions may exist.
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Affiliation(s)
- Christopher B. Trivedi
- Department of Civil and Environmental Engineering, Colorado School of Mines, Golden, CO, United States
| | - Graham E. Lau
- Department of Geological Sciences, University of Colorado Boulder, Boulder, CO, United States
| | | | - Alexis S. Templeton
- Department of Geological Sciences, University of Colorado Boulder, Boulder, CO, United States
| | - John R. Spear
- Department of Civil and Environmental Engineering, Colorado School of Mines, Golden, CO, United States
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10
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Sapers HM, Ronholm J, Raymond-Bouchard I, Comrey R, Osinski GR, Whyte LG. Biological Characterization of Microenvironments in a Hypersaline Cold Spring Mars Analog. Front Microbiol 2017; 8:2527. [PMID: 29312221 PMCID: PMC5744183 DOI: 10.3389/fmicb.2017.02527] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/26/2017] [Accepted: 12/05/2017] [Indexed: 11/13/2022] Open
Abstract
While many habitable niches on Earth are characterized by permanently cold conditions, little is known about the spatial structure of seasonal communities and the importance of substrate-cell associations in terrestrial cyroenvironments. Here we use the 16S rRNA gene as a marker for genetic diversity to compare two visually distinct but spatially integrated surface microbial mats on Axel Heiberg Island, Canadian high arctic, proximal to a perennial saline spring. This is the first study to describe the bacterial diversity in microbial mats on Axel Heiberg Island. The hypersaline springs on Axel Heiberg represent a unique analog to putative subsurface aquifers on Mars. The Martian subsurface represents the longest-lived potentially habitable environment on Mars and a better understanding of the microbial communities on Earth that thrive in analog conditions will help direct future life detection missions. The microbial mats sampled on Axel Heiberg are only visible during the summer months in seasonal flood plains formed by melt water and run-off from the proximal spring. Targeted-amplicon sequencing revealed that not only does the bacterial composition of the two mat communities differ substantially from the sediment community of the proximal cold spring, but that the mat communities are distinct from any other microbial community in proximity to the Arctic springs studied to date. All samples are dominated by Gammaproteobacteria: Thiotichales is dominant within the spring samples while Alteromonadales comprises a significant component of the mat communities. The two mat samples differ in their Thiotichales:Alteromonadales ratio and contribution of Bacteroidetes to overall diversity. The red mats have a greater proportion of Alteromonadales and Bacteroidetes reads. The distinct bacterial composition of the mat bacterial communities suggests that the spring communities are not sourced from the surface, and that seasonal melt events create ephemerally habitable niches with distinct microbial communities in the Canadian high arctic. The finding that these surficial complex microbial communities exist in close proximity to perennial springs demonstrates the existence of a transiently habitable niche in an important Mars analog site.
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Affiliation(s)
- Haley M. Sapers
- Centre for Planetary Science and Exploration, Faculty of Science, Western Science Centre, Western University, London, ON, Canada
- Department of Earth Sciences, University of Western Ontario, London, ON, Canada
- Department of Natural Resource Sciences, McGill University, Montreal, QC, Canada
| | - Jennifer Ronholm
- Department of Food Science and Agricultural Chemistry, McGill University, Montreal, QC, Canada
- Department of Animal Science, Faculty of Agricultural and Environmental Sciences, McGill University, Montreal, QC, Canada
| | | | - Raven Comrey
- Department of Natural Resource Sciences, McGill University, Montreal, QC, Canada
| | - Gordon R. Osinski
- Centre for Planetary Science and Exploration, Faculty of Science, Western Science Centre, Western University, London, ON, Canada
- Department of Earth Sciences, University of Western Ontario, London, ON, Canada
- Department of Physics and Astronomy, University of Western Ontario, London, ON, Canada
| | - Lyle G. Whyte
- Department of Natural Resource Sciences, McGill University, Montreal, QC, Canada
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Cosmidis J, Templeton AS. Self-assembly of biomorphic carbon/sulfur microstructures in sulfidic environments. Nat Commun 2016; 7:12812. [PMID: 27628108 PMCID: PMC5027620 DOI: 10.1038/ncomms12812] [Citation(s) in RCA: 47] [Impact Index Per Article: 5.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/16/2016] [Accepted: 08/01/2016] [Indexed: 01/29/2023] Open
Abstract
In natural and laboratory-based environments experiencing sustained counter fluxes of sulfide and oxidants, elemental sulfur (S0)—a key intermediate in the sulfur cycle—can commonly accumulate. S0 is frequently invoked as a biomineralization product generated by enzymatic oxidation of hydrogen sulfide and polysulfides. Here we show the formation of S0 encapsulated in nanometre to micrometre-scale tubular and spherical organic structures that self-assemble in sulfide gradient environments in the absence of any direct biological activity. The morphology and composition of these carbon/sulfur microstructures so closely resemble microbial cellular and extracellular structures that new caution must be applied to the interpretation of putative microbial biosignatures in the fossil record. These reactions between sulfide and organic matter have important implications for our understanding of S0 mineralization processes and sulfur interactions with organic carbon in the environment. They furthermore provide a new pathway for the synthesis of carbon-sulfur nanocomposites for energy storage technologies. Organic materials mineralized with sulfur are considered to be a product of biological activity in natural environments and the fossil record. Here, Cosmidis and Templeton show that sulfide can abiotically drive the self-assembly of organic carbon microstructures mineralized with elemental sulfur.
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Affiliation(s)
- Julie Cosmidis
- Department of Geological Sciences, University of Colorado, Boulder, Colorado 80309, USA
| | - Alexis S Templeton
- Department of Geological Sciences, University of Colorado, Boulder, Colorado 80309, USA
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12
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Han Y, Perner M. The globally widespread genus Sulfurimonas: versatile energy metabolisms and adaptations to redox clines. Front Microbiol 2015; 6:989. [PMID: 26441918 PMCID: PMC4584964 DOI: 10.3389/fmicb.2015.00989] [Citation(s) in RCA: 127] [Impact Index Per Article: 14.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/11/2015] [Accepted: 09/04/2015] [Indexed: 01/11/2023] Open
Abstract
Sulfurimonas species are commonly isolated from sulfidic habitats and numerous 16S rRNA sequences related to Sulfurimonas species have been identified in chemically distinct environments, such as hydrothermal deep-sea vents, marine sediments, the ocean's water column, and terrestrial habitats. In some of these habitats, Sulfurimonas have been demonstrated to play an important role in chemoautotrophic processes. Sulfurimonas species can grow with a variety of electron donors and acceptors, which may contribute to their widespread distribution. Multiple copies of one type of enzyme (e.g., sulfide:quinone reductases and hydrogenases) may play a pivotal role in Sulfurimonas' flexibility to colonize disparate environments. Many of these genes appear to have been acquired through horizontal gene transfer which has promoted adaptations to the distinct habitats. Here we summarize Sulfurimonas' versatile energy metabolisms and link their physiological properties to their global distribution.
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Affiliation(s)
| | - Mirjam Perner
- Molecular Biology of Microbial Consortia, Biocenter Klein Flottbek, University of HamburgHamburg, Germany
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13
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Akbari A, Ghoshal S. Effects of diurnal temperature variation on microbial community and petroleum hydrocarbon biodegradation in contaminated soils from a sub-Arctic site. Environ Microbiol 2015; 17:4916-28. [DOI: 10.1111/1462-2920.12846] [Citation(s) in RCA: 27] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/14/2014] [Revised: 03/08/2015] [Accepted: 03/11/2015] [Indexed: 11/29/2022]
Affiliation(s)
- Ali Akbari
- Department of Civil Engineering; McGill University; Montreal Canada
| | - Subhasis Ghoshal
- Department of Civil Engineering; McGill University; Montreal Canada
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14
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Evidence of in situ microbial activity and sulphidogenesis in perennially sub-0 °C and hypersaline sediments of a high Arctic permafrost spring. Extremophiles 2014; 19:1-15. [DOI: 10.1007/s00792-014-0703-4] [Citation(s) in RCA: 19] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/05/2014] [Accepted: 10/14/2014] [Indexed: 10/24/2022]
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15
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Marnocha CL, Dixon JC. Endolithic bacterial communities in rock coatings from Kärkevagge, Swedish Lapland. FEMS Microbiol Ecol 2014; 90:533-42. [DOI: 10.1111/1574-6941.12415] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/21/2014] [Revised: 06/30/2014] [Accepted: 08/10/2014] [Indexed: 11/28/2022] Open
Affiliation(s)
| | - John C. Dixon
- Department of Geosciences; University of Arkansas; Fayetteville AR USA
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16
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Defining the functional potential and active community members of a sediment microbial community in a high-arctic hypersaline subzero spring. Appl Environ Microbiol 2013; 79:3637-48. [PMID: 23563939 DOI: 10.1128/aem.00153-13] [Citation(s) in RCA: 39] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022] Open
Abstract
The Lost Hammer (LH) Spring is the coldest and saltiest terrestrial spring discovered to date and is characterized by perennial discharges at subzero temperatures (-5°C), hypersalinity (salinity, 24%), and reducing (≈-165 mV), microoxic, and oligotrophic conditions. It is rich in sulfates (10.0%, wt/wt), dissolved H2S/sulfides (up to 25 ppm), ammonia (≈381 μM), and methane (11.1 g day(-1)). To determine its total functional and genetic potential and to identify its active microbial components, we performed metagenomic analyses of the LH Spring outlet microbial community and pyrosequencing analyses of the cDNA of its 16S rRNA genes. Reads related to Cyanobacteria (19.7%), Bacteroidetes (13.3%), and Proteobacteria (6.6%) represented the dominant phyla identified among the classified sequences. Reconstruction of the enzyme pathways responsible for bacterial nitrification/denitrification/ammonification and sulfate reduction appeared nearly complete in the metagenomic data set. In the cDNA profile of the LH Spring active community, ammonia oxidizers (Thaumarchaeota), denitrifiers (Pseudomonas spp.), sulfate reducers (Desulfobulbus spp.), and other sulfur oxidizers (Thermoprotei) were present, highlighting their involvement in nitrogen and sulfur cycling. Stress response genes for adapting to cold, osmotic stress, and oxidative stress were also abundant in the metagenome. Comparison of the composition of the functional community of the LH Spring to metagenomes from other saline/subzero environments revealed a close association between the LH Spring and another Canadian high-Arctic permafrost environment, particularly in genes related to sulfur metabolism and dormancy. Overall, this study provides insights into the metabolic potential and the active microbial populations that exist in this hypersaline cryoenvironment and contributes to our understanding of microbial ecology in extreme environments.
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Mandrake L, Rebbapragada U, Wagstaff KL, Thompson D, Chien S, Tran D, Pappalardo RT, Gleeson D, Castaño R. Surface Sulfur Detection via Remote Sensing and Onboard Classification. ACM T INTEL SYST TEC 2012. [DOI: 10.1145/2337542.2337562] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/27/2022]
Abstract
Orbital remote sensing provides a powerful way to efficiently survey targets such as the Earth and other planets and moons for features of interest. One such feature of astrobiological relevance is the presence of surface sulfur deposits. These deposits have been observed to be associated with microbial activity at the Borup Fiord glacial springs in Canada, a location that may provide an analogue to other icy environments such as Europa.
This article evaluates automated classifiers for detecting sulfur in remote sensing observations by the hyperion spectrometer on the EO-1 spacecraft. We determined that a data-driven machine learning solution was needed because the sulfur could not be detected by simply matching observations to sulfur lab spectra. We also evaluated several methods (manual and automated) for identifying the most relevant attributes (spectral wavelengths) needed for successful sulfur detection. Our findings include (1) the Borup Fiord sulfur deposits were best modeled as containing two sub-populations: sulfur on ice and sulfur on rock; (2) as expected, classifiers using Gaussian kernels outperformed those based on linear kernels, and should be adopted when onboard computational constraints permit; and (3) Recursive Feature Elimination selected sensible and effective features for use in the computationally constrained environment onboard EO-1. This study helped guide the selection of algorithm parameters and configuration for the classification system currently operational on EO-1. Finally, we discuss implications for a similar onboard classification system for a future Europa orbiter.
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Affiliation(s)
- Lukas Mandrake
- Jet Propulsion Laboratory, California Institute of Technology
| | | | | | - David Thompson
- Jet Propulsion Laboratory, California Institute of Technology
| | - Steve Chien
- Jet Propulsion Laboratory, California Institute of Technology
| | - Daniel Tran
- Jet Propulsion Laboratory, California Institute of Technology
| | | | | | - Rebecca Castaño
- Jet Propulsion Laboratory, California Institute of Technology
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Gleeson DF, Pappalardo RT, Anderson MS, Grasby SE, Mielke RE, Wright KE, Templeton AS. Biosignature detection at an Arctic analog to Europa. ASTROBIOLOGY 2012; 12:135-150. [PMID: 22283368 DOI: 10.1089/ast.2010.0579] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/31/2023]
Abstract
The compelling evidence for an ocean beneath the ice shell of Europa makes it a high priority for astrobiological investigations. Future missions to the icy surface of this moon will query the plausibly sulfur-rich materials for potential indications of the presence of life carried to the surface by mobile ice or partial melt. However, the potential for generation and preservation of biosignatures under cold, sulfur-rich conditions has not previously been investigated, as there have not been suitable environments on Earth to study. Here, we describe the characterization of a range of biosignatures within potentially analogous sulfur deposits from the surface of an Arctic glacier at Borup Fiord Pass to evaluate whether evidence for microbial activities is produced and preserved within these deposits. Optical and electron microscopy revealed microorganisms and extracellular materials. Elemental sulfur (S⁰), the dominant mineralogy within field samples, is present as rhombic and needle-shaped mineral grains and spherical mineral aggregates, commonly observed in association with extracellular polymeric substances. Orthorhombic α-sulfur represents the stable form of S⁰, whereas the monoclinic (needle-shaped) γ-sulfur form rosickyite is metastable and has previously been associated with sulfide-oxidizing microbial communities. Scanning transmission electron microscopy showed mineral deposition on cellular and extracellular materials in the form of submicron-sized, needle-shaped crystals. X-ray diffraction measurements supply supporting evidence for the presence of a minor component of rosickyite. Infrared spectroscopy revealed parts-per-million level organics in the Borup sulfur deposits and organic functional groups diagnostic of biomolecules such as proteins and fatty acids. Organic components are below the detection limit for Raman spectra, which were dominated by sulfur peaks. These combined investigations indicate that sulfur mineral deposits may contain identifiable biosignatures that can be stabilized and preserved under low-temperature conditions. Borup Fiord Pass represents a useful testing ground for instruments and techniques relevant to future astrobiological exploration at Europa.
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Affiliation(s)
- Damhnait F Gleeson
- Jet Propulsion Laboratory, California Institute of Technology, Pasadena, California, USA.
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Grasby SE, Beauchamp B, Bense V. Sulfuric acid Speleogenesis associated with a glacially driven groundwater system-paleo-spring "pipes" at Borup Fiord Pass, Nunavut. ASTROBIOLOGY 2012; 12:19-28. [PMID: 22204399 DOI: 10.1089/ast.2011.0700] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/31/2023]
Abstract
Gypsum filled "pipe" features were discovered in the proglacial area of the Borup Fiord Pass supraglacial sulfur spring. Stable isotope data suggest that gypsum is formed through oxidation of sulfides and are consistent with models of sulfuric acid speleogenesis. These results suggest that gypsum pipes are paleo-spring discharge channels analogous to those that feed the modern sulfur spring at Borup Fiord. A conceptual model is proposed whereby retreat of the glacial front and associated growth of permafrost in ground exposed now to low arctic temperatures leads to "freezing-in" of the spring system and abandonment of old channels in favor of more open flow systems in the subglacial region. Results provide a model for glacially driven groundwater systems that may form in association with Mars' polar icecaps and potential geological signatures for paleo-groundwater discharge.
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