Weak Influence of Paleoenvironmental Conditions on the Subsurface Biosphere of Lake Ohrid over the Last 515 ka

Thomas, Camille; Vogel, Hendrik; Wagner, Bernd; Ariztegui, Daniel

doi:10.3390/microorganisms8111736

Cited by 12 publications

(14 citation statements)

References 72 publications

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“…Some of the organisms reported here have been found in deep sediments and soils elsewhere (Paul et al, 2012). The Bathyarchaeia class, member of Crenarchaeota, was previously reported in the deep sediment biosphere of lakes (Thomas et al, 2020) and subseafloor sediments (Kirkpatrick et al, 2019). Methane production by Bathyarchaeia was hypothesized by the metabolic reconstruction of its genome, the key genes associated with archaeal methane metabolism including methyl-coenzyme M reductase complex suggests their potential for diverse methyl compound utilization for gas production (Evans et al, 2015).…”

Section: Methanogenic Microorganisms and Biogenic Methane Production In The Sedimentsmentioning

confidence: 70%

Mobile mud layer underneath the desiccated maar lake of Rincón de Parangueo and insights into its microbial fingerprints

Sánchez-Sánchez¹,

Cerca²,

Alcántara-Hernández³

et al. 2021

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We surveyed a subsurface layer of saturated mobile mud and its microbial fingerprints below the desiccated bottom of a maar lake at Rincón de Parangueo (RP), Mexico. A multi-scale approach was followed using geological fieldwork, coring of the sediments, ground penetrating radar survey, physico-chemical characterization including X-ray diffraction and scanning electron microscope, and high-throughput DNA sequencing methods. The mobile mud is an organic-rich silty clay, with high values of alkalinity, volumetric water content and conductivity. Mud mobility has been attributed to overpressure caused by disequilibrium compaction of sediments related to active subsidence and pore overpressure produced by an input of groundwater and gas content in the sediments and resulted in a diverse set of structures related to mud tectonics such as injection domes and fluid seeps through fractures. Extraction and sequencing of sedimentary environmental DNA in the mud layer were performed for Bacteria and Archaea. Despite the small number of samples obtained, the microbial fingerprint from the sedimentary environmental DNA at subsurface shares similarities with the microbial communities identified on the crater surface. Additionally, we identify the DNA of specific methanogenic microorganisms in the mud, such as Bathyarchaeia, Methanomassiliicoccales, and Methanobacteriales, and we speculate on their probable role in gas production and pore overpressure in the mud layer. The underground mud at Rincón de Parangueo represents a geologically dynamic environment with conditions that are favorable for the thriving of microbial communities.

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Section: Methanogenic Microorganisms and Biogenic Methane Production In The Sedimentsmentioning

confidence: 70%

Mobile mud layer underneath the desiccated maar lake of Rincón de Parangueo and insights into its microbial fingerprints

Sánchez-Sánchez¹,

Cerca²,

Alcántara-Hernández³

et al. 2021

revmexcg

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“…Results similar to those in our hyposaline zone were observed in a study of the sediments from ancient Lake Ohrid 49 . They found Gammaproteobacteria co-occurring with cyanobacterial sequences, especially during dry glacial intervals 63 . In addition, we found the highest abundance of Thermoplasmata in sediments from the hyposaline and freshwater zones.…”

Section: Resultsmentioning

confidence: 99%

“…Nevertheless, we recommend that future studies focus on detailed characterization of microbial substrates and constrain post-depositional processes. Such studies should also consider selection processes that result from gradual depletion of substrates during burial 52 , 59 , 63 . Finally, we highlight the importance of including additional geochemical measures, such as porewater chemistry 80 .…”

Section: Resultsmentioning

confidence: 99%

Holocene life and microbiome profiling in ancient tropical Lake Chalco, Mexico

Moguel

Pérez

Alcaraz

et al. 2021

Sci Rep

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Metagenomic and traditional paleolimnological approaches are suitable to infer past biological and environmental changes, however, they are often applied independently, especially in tropical regions. We combined both approaches to investigate Holocene Prokaryote and Eukaryote diversity and microbial metabolic pathways in ancient Lake Chalco, Mexico. Here, we report on diversity among a large number of lineages (36,722 OTUs) and functional diversity (27,636,243 non-clustered predicted proteins, and 6,144 annotated protein-family genes). The most abundant domain is Bacteria (81%), followed by Archaea (15%) and Eukarya (3%). We also determined the diversity of protein families and their relationship to metabolic pathways. The early Holocene (> 11,000 cal years BP) lake was characterized by cool, freshwater conditions, which later became warmer and hyposaline (11,000–6,000 cal years BP). We found high abundances of cyanobacteria, and fungi groups associated with mature forests in these sediments. Bacteria and Archaea include mainly anaerobes and extremophiles that are involved in the sulfur, nitrogen, and carbon cycles. We found evidence for early human impacts, including landscape modifications and lake eutrophication, which began ~ 6,000 cal years BP. Subsaline, temperate conditions were inferred for the past 5,000 years. Finally, we found nitrogen-fixing bacteria and protein-family genes that are linked to contaminated environments, as well as several fungal pathogens of crops in near-surface sediments.

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“…After removing ASVs shared with seawater, the only ASV that differed significantly in abundance between the skin microbiome of aquarium and wild whitespotted eagle rays was classified as Alkanindiges illinoisensis, an alkane-degrading bacterium not previously reported in marine ecosystems [ 64 – 69 ]. Additionally, an uncultured prokaryote (sequence ID: MT067094.1) that shared 100% identity with our ASV and Alkanindiges illnoisensis was found in lake sediments [ 70 ]. Its role in the aquarium system and in ray microbiomes is unclear; however, it was present at low relative abundances (< 0.5%) in aquarium individuals.…”

Section: Discussionmentioning

confidence: 99%

Microbiome differences between wild and aquarium whitespotted eagle rays (Aetobatus narinari)

et al. 2022

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Background Animal-associated microbiomes can be influenced by both host and environmental factors. Comparing wild animals to those in zoos or aquariums can help disentangle the effects of host versus environmental factors, while also testing whether managed conditions foster a ‘natural’ host microbiome. Focusing on an endangered elasmobranch species—the whitespotted eagle ray Aetobatus narinari—we compared the skin, gill, and cloaca microbiomes of wild individuals to those at Georgia Aquarium. Whitespotted eagle ray microbiomes from Georgia Aquarium were also compared to those of cownose rays (Rhinoptera bonasus) in the same exhibit, allowing us to explore the effect of host identity on the ray microbiome. Results Long-term veterinary monitoring indicated that the rays in managed care did not have a history of disease and maintained health parameters consistent with those of wild individuals, with one exception. Aquarium whitespotted eagle rays were regularly treated to control parasite loads, but the effects on animal health were subclinical. Microbiome α- and β-diversity differed between wild versus aquarium whitespotted eagle rays at all body sites, with α-diversity significantly higher in wild individuals. β-diversity differences in wild versus aquarium whitespotted eagle rays were greater for skin and gill microbiomes compared to those of the cloaca. At each body site, we also detected microbial taxa shared between wild and aquarium eagle rays. Additionally, the cloaca, skin, and gill microbiomes of aquarium eagle rays differed from those of cownose rays in the same exhibit. Potentially pathogenic bacteria were at low abundance in all wild and aquarium rays. Conclusion For whitespotted eagle rays, managed care was associated with a microbiome differing significantly from that of wild individuals. These differences were not absolute, as the microbiome of aquarium rays shared members with that of wild counterparts and was distinct from that of a cohabitating ray species. Eagle rays under managed care appear healthy, suggesting that their microbiomes are not associated with compromised host health. However, the ray microbiome is dynamic, differing with both environmental factors and host identity. Monitoring of aquarium ray microbiomes over time may identify taxonomic patterns that co-vary with host health.

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Weak Influence of Paleoenvironmental Conditions on the Subsurface Biosphere of Lake Ohrid over the Last 515 ka

Cited by 12 publications

References 72 publications

Mobile mud layer underneath the desiccated maar lake of Rincón de Parangueo and insights into its microbial fingerprints

Mobile mud layer underneath the desiccated maar lake of Rincón de Parangueo and insights into its microbial fingerprints

Holocene life and microbiome profiling in ancient tropical Lake Chalco, Mexico

Microbiome differences between wild and aquarium whitespotted eagle rays (Aetobatus narinari)

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