Chemosynthesis

Enrich‐Prast, Alex; Bastviken, David; Crill, Patrick; Santoro, Ana Lúcia; Signori, Camila Negrão; Sanseverino, Ângela M.

doi:10.1016/b978-0-12-409548-9.09054-0

Cited by 11 publications

(11 citation statements)

References 11 publications

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“…This is particularly important for microbial communities living in nutrient-rich environments such as the human gut. For microbial communities living in oligotrophic environments, the growth rates of bacteria and the assembly process of communities are relatively slow [64][65][66], if sources are from considerably different habitats (e.g., fecal samples from different animals) [67][68][69], and the impact of ecological dynamics on community-based MST might be relatively low [70] (which is consistent with our numerical results shown in Figure S1). But even in this case, interpreting the results of existing MST solvers should be done with great caution.…”

Section: Discussionsupporting

confidence: 87%

Ecological dynamics imposes fundamental challenges in community‐based microbial source tracking

Wang

Dai

Yin

et al. 2023

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Quantifying the contributions of possible environmental sources ("sources") to a specific microbial community ("sink") is a classical problem in microbiology known as microbial source tracking (MST). Solving the MST problem will not only help us understand how microbial communities were formed, but also have far-reaching applications in pollution control, public health, and forensics. MST methods generally fall into two categories: target-based methods (focusing on the detection of source-specific indicator species or chemicals); and community-based methods (using community structure to measure similarity between sink samples and potential source environments).As next-generation sequencing becomes a standard community-assessment method in microbiology, numerous community-based computational methods, referred to as MST solvers hereafter have been developed and applied to various real datasets to demonstrate their utility across different contexts. Yet, those MST solvers do not consider microbial interactions and priority effects in microbial communities. Here, we revisit the performance of several representative MST solvers. We show compelling evidence that solving the MST problem using existing MST solvers is impractical when ecological dynamics plays a role in community assembly. In particular, we clearly demonstrate that the presence of either microbial interactions or priority effects will render the MST problem mathematically unsolvable for MST solvers. We further analyze data from fecal microbiota transplantation studies, finding that the state-of-the-art MST solvers fail to identify donors for most of the recipients. Finally, we perform community coalescence experiments to demonstrate that the state-of-the-art MST solvers fail to identify the sources for most of the sinks. Our findings suggest that ecological dynamics imposes fundamental challenges in MST. Interpretation of results of existing MST solvers should be done cautiously.

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Section: Discussionsupporting

confidence: 87%

Ecological dynamics imposes fundamental challenges in community‐based microbial source tracking

Wang

Dai

Yin

et al. 2023

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“…Episodical intrusion of dissolved O 2 in the deeper part of the redoxcline could therefore partly fuel aerobic

{NH}_{4}^{+}

or H 2 S oxidation. However, in the absence of O 2 , it is widely assumed that prokaryotes use the thermodynamically most favourable electron acceptors available in waters (Enrich‐Prast et al ).

{NO}_{3}^{-}

is commonly the next most energetically favourable electron acceptor in many aquatic environments and it can be used in the anaerobic oxidation of H 2 S by chemoautotrophic bacteria such as many members of the Epsilonproteobacteria group ( Sulfurimonas , Sulfuricurvum ), among others.…”

Section: Discussionmentioning

confidence: 99%

“…In modern aquatic environments, biosynthesis of organic matter is to a large extent carried out by algae and cyanobacteria through oxygenic photosynthesis. Other prokaryotes, however, have the ability to produce organic matter from CO 2 without the energy of sunlight, but using the energy generated by the oxidation of various reduced species (Enrich‐Prast et al ). These chemoautotrophic organisms greatly impact the biogeochemical cycles of diverse elements, such as carbon (C), nitrogen (N), and sulfur (S), especially in euxinic systems (Jost et al ).…”

mentioning

confidence: 99%

Chemoautotrophy and anoxygenic photosynthesis within the water column of a large meromictic tropical lake (Lake Kivu, East Africa)

Morana

Roland

Crowe

et al. 2016

Limnology & Oceanography

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We quantified chemoautotrophic and anoxygenic photosynthetic microbial production in the water column of Lake Kivu, a permanently stratified tropical lake situated amidst volcanic activity, and aimed to identify the microorganisms involved in these processes through the analysis of their phospholipid fatty acid (PLFA) content and stable isotope ( 13 C) labelling of PLFA in a set of incubation experiments. Data demonstrate the existence of a biogeochemically active chemoautotrophic bacterial community in the redoxcline of Lake Kivu (50-70 m). PLFA data indicate that the bacterial communities are structured vertically in the water column, with a large dissimilarity between the oxic and anoxic waters. Maximum volumetric dark CO 2 fixation rates measured in Lake Kivu were in the same range as values reported from H 2 S-rich marine redoxclines, such as the Black and Baltic Seas, and the Cariaco Basin. Similarly, maximal chemoautotrophic activities in Lake Kivu were observed in sulfidic waters, just below the oxycline. Anoxygenic photosynthetic production was never observed in the main basin of Lake Kivu. However, anoxygenic phototrophs largely dominated CO 2 fixation in the illuminated redoxcline of Kabuno Bay, a shallower ferruginous sub-basin. Overall, this study supports the idea that chemoautotrophs and/or anoxygenic photoautotrophs might play an important role in the flow of carbon and energy in permanently stratified tropical ecosystems. In Lake Kivu, these processes significantly contribute to organic matter biosynthesis and exert an indirect control on oxygenic photoautotrophs by shortcircuiting the vertical transport of nutrients to the illuminated and oxygenated surface waters.

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“…a) (Cory et al ). Chemoautotrophic processes, such as nitrification and sulfide oxidation, simultaneously consume O 2 and CO 2 (Enrich‐Prast et al ) (downward‐left shift in Fig. a) and can be an important CO 2 fixation process in lakes (Squires et al ).…”

Section: Drivers Of Dissolved O2 and Co2 Concentrations In Aquatic Ecosystemsmentioning

confidence: 99%

Paired O₂–CO₂ measurements provide emergent insights into aquatic ecosystem function

Vachon

Sadro

Bogard

et al. 2020

Limnol Oceanogr Letters

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Scientific Significance StatementMetabolic stoichiometry predicts that dissolved oxygen (O2) and carbon dioxide (CO2) in aquatic ecosystems should covary inversely; however, field observations often diverge from theoretical expectations. Here, we propose a suite of metrics describing this O2 and CO2 decoupling and introduce a conceptual framework for interpreting these metrics within aquatic ecosystems. Within this framework, we interpret cross‐system patterns of high‐frequency O2 and CO2 measurements in 11 northern lakes and extract emergent insights into the metabolic behavior and the simultaneous roles of chemical and physical forcing in shaping ecosystem processes. This approach leverages the power of high‐frequency paired O2–CO2 measurements, and yields a novel, integrative aquatic system typology which can also be applicable more broadly to streams and rivers, wetlands and marine systems.

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Chemosynthesis

Cited by 11 publications

References 11 publications

Ecological dynamics imposes fundamental challenges in community‐based microbial source tracking

Ecological dynamics imposes fundamental challenges in community‐based microbial source tracking

Chemoautotrophy and anoxygenic photosynthesis within the water column of a large meromictic tropical lake (Lake Kivu, East Africa)

Paired O₂–CO₂ measurements provide emergent insights into aquatic ecosystem function

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Chemosynthesis

Cited by 11 publications

References 11 publications

Ecological dynamics imposes fundamental challenges in community‐based microbial source tracking

Ecological dynamics imposes fundamental challenges in community‐based microbial source tracking

Chemoautotrophy and anoxygenic photosynthesis within the water column of a large meromictic tropical lake (Lake Kivu, East Africa)

Paired O2–CO2 measurements provide emergent insights into aquatic ecosystem function

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Paired O₂–CO₂ measurements provide emergent insights into aquatic ecosystem function