Differential structure and functional gene response to geochemistry associated with the suspended and attached shallow aquifer microbiomes from the Illinois Basin, IL

Dong, Yiran; Sanford, Robert A.; Connor, Lynn; Chee‐Sanford, Joanne C.; Wimmer, Bracken T.; Iranmanesh, Abbas; Shi, Liang; Krapac, Ivan G.; Locke, Randall A.; Shao, Hongbo

doi:10.1016/j.watres.2021.117431

Cited by 9 publications

(5 citation statements)

References 69 publications

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“…These findings are consistent with the recent study in which the abundant similar or same phylotypes and functional genes of sulfate reduction (e.g. dsrB and aprA) were found in subsurface groundwater of the Illinois Basin (Dong et al, 2021;Flynn et al, 2012), suggesting the origin and transport of S and S-cycling microbes. The reduced sulfur is subject to re-oxidation, from which sulfur-oxidizing bacteria can derive energy or precipitation with various metals to form sulfide minerals (e.g.…”

Section: Discussionsupporting

confidence: 92%

“…Previous studies have identified microbial communities within different stratigraphic horizons in the Illinois Basin. Dong et al ( 2021 ) collected samples from subsurface aquifers of the Pleistocene Glasford formation (20 m depth) and Upper Pennsylvanian formations (40 m depth) and found microbiota that exhibited distinct patterns. Earlier studies have identified active methanogenic communities in organic‐rich reservoirs at various depths (up to 900 m in Devonian strata) and believe these methanogens originated from surface environments.…”

Section: Introductionmentioning

confidence: 99%

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Impact of salinity origin on microbial communities in saline springs within the Illinois Basin, USA

Zhao

Shao

Zhang³

et al. 2022

Environmental Microbiology

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Saline springs within the Illinois Basin result from the discharge of deepseated evaporated seawater (brine) and likely contain diverse and complex microbial communities that are poorly understood. In this study, seven saline/mineral springs with different geochemical characteristics and salinity origins were investigated using geochemical and molecular microbiological analyses to reveal the composition of microbial communities inhabiting springs and their key controlling factors. The 16S rRNA sequencing results demonstrated that each spring harbours a unique microbial community influenced by its geochemical properties and subsurface conditions. The microbial communities in springs that originated from Cambrian/Ordovician strata, which are deep confined units that have limited recharge from overlying formations, share a greater similarity in community composition and have a higher species richness and more overlapped taxa than those that originated from shallower Pennsylvanian strata, which are subject to extensive regional surface and groundwater recharge. The microbial distribution along the spring flow paths at the surface indicates that 59.8%-94.2% of total sequences in sedimentary samples originated from spring water, highlighting the role of springs in influencing microbiota in the immediate terrestrial environment. The results indicate that the springs introduce microbiota with a high biodiversity into surface terrestrial or aquatic ecosystems, potentially affecting microbial reservoirs in downstream ecosystems.

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Section: Discussionsupporting

confidence: 92%

Section: Introductionmentioning

confidence: 99%

Impact of salinity origin on microbial communities in saline springs within the Illinois Basin, USA

Zhao

Shao

Zhang³

et al. 2022

Environmental Microbiology

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“…It has been reported that Geobacter spp. are among the major phylotypes in the attached fraction of environment samples ( Dong et al, 2021 ). Geobacter biofilms have an electroactive EPS matrix with matrix-associated c -Cyts and pili that spatially organize cells well for growth and electron transfer to mineral oxides and electrodes ( Figure 2 ).…”

Section: Biofilm Biology Of Geobacter and Shewanellamentioning

confidence: 99%

Biofilm Biology and Engineering of Geobacter and Shewanella spp. for Energy Applications

Wang

Han

et al. 2021

Front. Bioeng. Biotechnol.

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Geobacter and Shewanella spp. were discovered in late 1980s as dissimilatory metal-reducing microorganisms that can transfer electrons from cytoplasmic respiratory oxidation reactions to external metal-containing minerals. In addition to mineral-based electron acceptors, Geobacter and Shewanella spp. also can transfer electrons to electrodes. The microorganisms that have abilities to transfer electrons to electrodes are known as exoelectrogens. Because of their remarkable abilities of electron transfer, Geobacter and Shewanella spp. have been the two most well studied groups of exoelectrogens. They are widely used in bioelectrochemical systems (BESs) for various biotechnological applications, such as bioelectricity generation via microbial fuel cells. These applications mostly associate with Geobacter and Shewanella biofilms grown on the surfaces of electrodes. Geobacter and Shewanella biofilms are electrically conductive, which is conferred by matrix-associated electroactive components such as c-type cytochromes and electrically conductive nanowires. The thickness and electroactivity of Geobacter and Shewanella biofilms have a significant impact on electron transfer efficiency in BESs. In this review, we first briefly discuss the roles of planktonic and biofilm-forming Geobacter and Shewanella cells in BESs, and then review biofilm biology with the focus on biofilm development, biofilm matrix, heterogeneity in biofilm and signaling regulatory systems mediating formation of Geobacter and Shewanella biofilms. Finally, we discuss strategies of Geobacter and Shewanella biofilm engineering for improving electron transfer efficiency to obtain enhanced BES performance.

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“…Microbial community assembly was discerned by niche theory and neutral theory ( Zhang et al, 2022 ), which have found that the relative importance of deterministic factors (abiotic and biotic factors) and stochastic processes (birth, death, speciation, limited dispersal and immigration) depends on regional and local environmental conditions ( Zhou and Ning, 2017 ; Wang B. L. et al, 2021 ). To the best of our knowledge, the assembly process of carbon-functional structure is largely unknown, but a functional gene matrix can form a special microbiome involved in the element cycle and has been regarded as a community based on function rather than on taxonomic groups ( Dong et al, 2021 ; Zhou et al, 2021 ). Microbes have great diversity and incredible numbers, and this once created significant challenges for establishing direct links between microbes and function and identifying the redundant complexity.…”

Section: Introductionmentioning

confidence: 99%

Archaeal contribution to carbon-functional composition and abundance in China’s coastal wetlands: Not to be underestimated

et al. 2022

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Microbial diversity, together with carbon function, plays a key role in driving the wetland carbon cycle; however, the composition, driving factors of carbon-functional genes and the relationship with microbial community have not been well characterized in coastal wetlands. To understand these concerns, microbes, carbon-functional genes, and related environmental factors were investigated in twenty wetlands along China’s coast. The results indicate that carbon-functional gene composition is dominated by archaeal rather than bacterial community and that Nanoarchaeaeota is the dominant archaeal phylum associated with carbon cycling in anoxic sediments. Compared with microbes, carbon-functional composition was more stable because they showed the highest Shannon diversity and archaeal functional redundancy. Deterministic processes dominated microbial community, and stochastic processes were more important for carbon-functional genes. Labile Fe governed archaeal and carbon-functional composition by coupling with nitrogen and carbon biogeochemical cycles, while bacterial community was affected by NH4-N and SOC/SON. This study highlights the predominant contributions of archaea to carbon-functional genes and to the stability of carbon-functional composition, thus providing new insights into the microbial dominance of the carbon cycle and the evaluation of carbon function in coastal wetlands.

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Differential structure and functional gene response to geochemistry associated with the suspended and attached shallow aquifer microbiomes from the Illinois Basin, IL

Cited by 9 publications

References 69 publications

Impact of salinity origin on microbial communities in saline springs within the Illinois Basin, USA

Impact of salinity origin on microbial communities in saline springs within the Illinois Basin, USA

Biofilm Biology and Engineering of Geobacter and Shewanella spp. for Energy Applications

Archaeal contribution to carbon-functional composition and abundance in China’s coastal wetlands: Not to be underestimated

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