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Article: First Report and Characterization of a Plasmid-Encoded

Skwor, Troy / Jones, Dan Christopher / Cahak, Caitlin / Newton, Ryan J

2024 Volume 12, Issue 3

Abstract: Antibiotic resistance remains one of the most pressing public health issues facing the world today. At the forefront of this battle lies the ever-increasing identification of extended-spectrum beta-lactamases and carbapenemases within human pathogens, ... ...

Abstract	Antibiotic resistance remains one of the most pressing public health issues facing the world today. At the forefront of this battle lies the ever-increasing identification of extended-spectrum beta-lactamases and carbapenemases within human pathogens, conferring resistance towards broad-spectrum and last-resort antimicrobials. This study was prompted due to the identification of a pathogenic
Language	English
Publishing date	2024-02-29
Publishing country	Switzerland
Document type	Journal Article
ZDB-ID	2720891-6
ISSN	2076-2607
ISSN	2076-2607
DOI	10.3390/microorganisms12030494
Database	MEDical Literature Analysis and Retrieval System OnLINE

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Article ; Online: Genome Streamlining, Proteorhodopsin, and Organic Nitrogen Metabolism in Freshwater Nitrifiers.

Podowski, Justin C / Paver, Sara F / Newton, Ryan J / Coleman, Maureen L

mBio

2022 Volume 13, Issue 3, Page(s) e0237921

Abstract: Microbial nitrification is a critical process governing nitrogen availability in aquatic systems. Freshwater nitrifiers have received little attention, leaving many unanswered questions about their taxonomic distribution, functional potential, and ... ...

Abstract	Microbial nitrification is a critical process governing nitrogen availability in aquatic systems. Freshwater nitrifiers have received little attention, leaving many unanswered questions about their taxonomic distribution, functional potential, and ecological interactions. Here, we reconstructed genomes to infer the metabolism and ecology of free-living picoplanktonic nitrifiers across the Laurentian Great Lakes, a connected series of five of Earth's largest lakes. Surprisingly, ammonia-oxidizing bacteria (AOB) related to
MeSH term(s)	Ammonia/metabolism ; Archaea/genetics ; Archaea/metabolism ; Bacteria/genetics ; Bacteria/metabolism ; Ecosystem ; Genome ; Lakes/microbiology ; Nitrification ; Nitrogen/metabolism ; Oxidation-Reduction ; Phylogeny ; Rhodopsins, Microbial
Chemical Substances	Rhodopsins, Microbial ; proteorhodopsin ; Ammonia (7664-41-7) ; Nitrogen (N762921K75)
Language	English
Publishing date	2022-04-18
Publishing country	United States
Document type	Journal Article ; Research Support, Non-U.S. Gov't ; Research Support, U.S. Gov't, Non-P.H.S.
ZDB-ID	2557172-2
ISSN	2150-7511 ; 2161-2129
ISSN (online)	2150-7511
ISSN	2161-2129
DOI	10.1128/mbio.02379-21
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Article ; Online: Full-Length 16S rRNA Gene Sequences from Raw Sewage Samples Spanning Geographic and Seasonal Gradients in Conveyance Systems across the United States.

LaMartina, Emily Lou / Schmoldt, Angela L / Newton, Ryan J

Microbiology resource announcements

2022 Volume 11, Issue 7, Page(s) e0031922

Abstract: Wastewater microbiome research often relies on sequencing of hypervariable regions of 16S rRNA genes, which are difficult to classify at refined taxonomic levels. Here, we introduce a data set of near-full-length 16S rRNA genes from samples designed to ... ...

Abstract	Wastewater microbiome research often relies on sequencing of hypervariable regions of 16S rRNA genes, which are difficult to classify at refined taxonomic levels. Here, we introduce a data set of near-full-length 16S rRNA genes from samples designed to capture known geographic and seasonal variations in municipal wastewater microbial communities.
Language	English
Publishing date	2022-06-21
Publishing country	United States
Document type	Journal Article
ISSN	2576-098X
ISSN (online)	2576-098X
DOI	10.1128/mra.00319-22
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Article ; Online: Anthropogenic particle concentrations and fluxes in an urban river are temporally variable and impacted by storm events.

Berg, Elizabeth M / Dila, Deborah K / Schaul, Olivia / Eros, Audrey / McLellan, Sandra L / Newton, Ryan J / Hoellein, Timothy J / Kelly, John J

Water environment research : a research publication of the Water Environment Federation

2024 Volume 96, Issue 4, Page(s) e11021

Abstract: Anthropogenic particles (AP), which include microplastics and other synthetic, semisynthetic, and anthropogenically modified materials, are pollutants of concern in aquatic ecosystems worldwide. Rivers are important conduits and retention sites for AP, ... ...

Abstract	Anthropogenic particles (AP), which include microplastics and other synthetic, semisynthetic, and anthropogenically modified materials, are pollutants of concern in aquatic ecosystems worldwide. Rivers are important conduits and retention sites for AP, and time series data on the movement of these particles in lotic ecosystems are needed to assess the role of rivers in the global AP cycle. Much research assessing AP pollution extrapolates stream loads based on single time point measurements, but lotic ecosystems are highly variable over time (e.g., seasonality and storm events). The accuracy of models describing AP dynamics in rivers is constrained by the limited studies that examine how frequent changes in discharge drive particle retention and transport. This study addressed this knowledge gap by using automated, high-resolution sampling to track AP concentrations and fluxes during multiple storm events in an urban river (Milwaukee River) and comparing these measurements to commonly monitored water quality metrics. AP concentrations and fluxes varied significantly across four storm events, highlighting the temporal variability of AP dynamics. When data from the sampling periods were pooled, there were increases in particle concentration and flux during the early phases of the storms, suggesting that floods may flush AP into the river and/or resuspend particles from the benthic zone. AP flux was closely linked to river discharge, suggesting large loads of AP are delivered downstream during storms. Unexpectedly, AP concentrations were not correlated with other simultaneously measured water quality metrics, including total suspended solids, fecal coliforms, chloride, nitrate, and sulfate, indicating that these metrics cannot be used to estimate AP. These data will contribute to more accurate models of particle dynamics in rivers and global plastic export to oceans. PRACTITIONER POINTS: Anthropogenic particle (AP) concentrations and fluxes in an urban river varied across four storm events. AP concentrations and fluxes were the highest during the early phases of the storms. Storms increased AP transport downstream compared with baseflow. AP concentrations did not correlate with other water quality metrics during storms.
MeSH term(s)	Ecosystem ; Plastics ; Water Quality ; Rivers ; Feces ; Environmental Monitoring ; Water Pollutants, Chemical/analysis
Chemical Substances	Plastics ; Water Pollutants, Chemical
Language	English
Publishing date	2024-03-04
Publishing country	United States
Document type	Journal Article
ZDB-ID	1098976-6
ISSN	1554-7531 ; 1047-7624 ; 1061-4303
ISSN (online)	1554-7531
ISSN	1047-7624 ; 1061-4303
DOI	10.1002/wer.11021
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Article ; Online: An inexpensive, reproducible method to quantify activated sludge foaming potential: Validation through lab‐scale studies and year‐long full‐scale sampling campaign

Scarim, Grace / LaMartina, Emily Lou / Venkiteshwaran, Kaushik / Zitomer, Daniel H. / Newton, Ryan J. / McNamara, Patrick J.

Water Environment Research. 2023 Apr., v. 95, no. 4 p.e10856-

2023

Abstract: Activated sludge is a conventional treatment process for biochemical oxygen demand (BOD) and total suspended solids (TSS) removal at water resource recovery facilities (WRRFs). Foaming events are a common operational issue in activated sludge and can ... ...

Abstract	Activated sludge is a conventional treatment process for biochemical oxygen demand (BOD) and total suspended solids (TSS) removal at water resource recovery facilities (WRRFs). Foaming events are a common operational issue in activated sludge and can lead to decreased treatment efficiency, maintenance issues, and potential environmental health risks. Stable foaming events are caused by biological and chemical drivers (i.e., microbes and surfactants) during the aeration process. However, foaming events are difficult to predict and quantify. We present an inexpensive and easy‐to‐use method that can be applied at WRRFs to quantify foaming potential. Subsequently, the method was applied over a year‐long full‐scale study while data on microbial community composition and functional parameters associated with foaming potential were collected from activated sludge samples at South Shore Water Reclamation Facility (WRF) (Oak Creek, WI). Results from the development of the foaming potential method using linear alkylbenzene sulfonate (LAS) showed that the method was reproducible (relative standard deviation <20%) and able to capture changes in foam‐inducing constituents. Using full‐scale activated sludge samples, higher relative abundance values for the following genera were associated with foaming events: Zoogloea, Flavobacterium, Variovorax, and Bdellovibrio. This is the first report that Variovorx and Bdellovibrio relative abundance was correlated with foaming events in activated sludge. Furthermore, the foaming potential positively correlated (ρ = 0.24) with soluble total nitrogen. Characterizing foaming events through frequent sampling and monitoring of specific genera and functional parameters may allow for predictions and preemptive mitigation efforts to avoid negative consequences in the future. PRACTITIONER POINTS: A reproducible method to measure foaming potential in activated sludge is available. Genera Zoogloea, Flavobacterium, Variovorax, and Bdellovibrio correlated with foaming events. A year‐long sampling campaign of activated sludge measuring foaming potential and microbial community composition was conducted at South Shore Water Reclamation Facility in Oak Creek, WI. More research at other facilities with this method is needed to understand links between microbes and foaming
Keywords	Bdellovibrio ; Flavobacterium ; Variovorax ; Zoogloea ; activated sludge ; aeration ; biochemical oxygen demand ; community structure ; environment ; environmental health ; microbial communities ; research ; standard deviation ; streams ; sulfonates ; total nitrogen ; water ; water reuse
Language	English
Dates of publication	2023-04
Publishing place	John Wiley & Sons, Ltd
Document type	Article ; Online
Note	JOURNAL ARTICLE
ZDB-ID	1098976-6
ISSN	1554-7531 ; 1047-7624 ; 1061-4303
ISSN (online)	1554-7531
ISSN	1047-7624 ; 1061-4303
DOI	10.1002/wer.10856
Database	NAL-Catalogue (AGRICOLA)

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Article ; Online: Urban wastewater bacterial communities assemble into seasonal steady states.

LaMartina, Emily Lou / Mohaimani, Aurash A / Newton, Ryan J

Microbiome

2021 Volume 9, Issue 1, Page(s) 116

Abstract: Background: Microorganisms in urban sanitary sewers exhibit community properties that suggest sewers are a novel ecosystem. Sewer microorganisms present both an opportunity as a control point for wastewater treatment and a risk to human health. If ... ...

Abstract	Background: Microorganisms in urban sanitary sewers exhibit community properties that suggest sewers are a novel ecosystem. Sewer microorganisms present both an opportunity as a control point for wastewater treatment and a risk to human health. If treatment processes are to be improved and health risks quantified, then it is necessary to understand microbial distributions and dynamics within this community. Here, we use 16S rRNA gene sequencing to characterize raw influent wastewater bacterial communities in a 5-year time series from two wastewater treatment plants in Milwaukee, WI; influent wastewater from 77 treatment plants across the USA; and wastewater in 12 Milwaukee residential sewers. Results: In Milwaukee, we find that in transit from residences to treatment plants, the human bacterial component of wastewater decreases in proportion and exhibits stochastic temporal variation. In contrast, the resident sewer community increases in abundance during transit and cycles seasonally according to changes in wastewater temperature. The result is a bacterial community that assembles into two distinct community states each year according to the extremes in wastewater temperature. Wastewater bacterial communities from other northern US cities follow temporal trends that mirror those in Milwaukee, but southern US cities have distinct community compositions and differ in their seasonal patterns. Conclusions: Our findings provide evidence that environmental conditions associated with seasonal change and climatic differences related to geography predictably structure the bacterial communities residing in below-ground sewer pipes. Video abstract.
MeSH term(s)	Ecosystem ; Humans ; RNA, Ribosomal, 16S/genetics ; Seasons ; Sewage ; Waste Water
Chemical Substances	RNA, Ribosomal, 16S ; Sewage ; Waste Water
Language	English
Publishing date	2021-05-20
Publishing country	England
Document type	Journal Article ; Research Support, N.I.H., Extramural ; Research Support, Non-U.S. Gov't ; Video-Audio Media
ZDB-ID	2697425-3
ISSN	2049-2618 ; 2049-2618
ISSN (online)	2049-2618
ISSN	2049-2618
DOI	10.1186/s40168-021-01038-5
Database	MEDical Literature Analysis and Retrieval System OnLINE

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Article: Guts of the Urban Ecosystem: Microbial Ecology of Sewer Infrastructure.

Roguet, Adélaïde / Newton, Ryan J / Eren, A Murat / McLellan, Sandra L

mSystems

2022 Volume 7, Issue 4, Page(s) e0011822

Abstract: Microbes have inhabited the oceans and soils for millions of years and are uniquely adapted to their habitat. In contrast, sewer infrastructure in modern cities dates back only ~150 years. Sewer pipes transport human waste and provide a view into public ... ...

Abstract	Microbes have inhabited the oceans and soils for millions of years and are uniquely adapted to their habitat. In contrast, sewer infrastructure in modern cities dates back only ~150 years. Sewer pipes transport human waste and provide a view into public health, but the resident organisms that likely modulate these features are relatively unexplored. Here, we show that the bacterial assemblages sequenced from untreated wastewater in 71 U.S. cities were highly coherent at a fine sequence level, suggesting that urban infrastructure separated by great spatial distances can give rise to strikingly similar communities. Within the overall microbial community structure, temperature had a discernible impact on the distribution patterns of closely related amplicon sequence variants, resulting in warm and cold ecotypes. Two bacterial genera were dominant in most cities regardless of their size or geographic location; on average,
MeSH term(s)	Humans ; Anti-Bacterial Agents ; Bacteria/genetics ; Microbiota/genetics ; RNA, Ribosomal, 16S/genetics ; United States ; Wastewater
Chemical Substances	Anti-Bacterial Agents ; RNA, Ribosomal, 16S ; Wastewater
Language	English
Publishing date	2022-06-28
Publishing country	United States
Document type	Journal Article ; Research Support, N.I.H., Extramural
ISSN	2379-5077
ISSN	2379-5077
DOI	10.1128/msystems.00118-22
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Article ; Online: Impact of corrosion inhibitors on antibiotic resistance, metal resistance, and microbial communities in drinking water.

Kimbell, Lee K / LaMartina, Emily Lou / Kohls, Stan / Wang, Yin / Newton, Ryan J / McNamara, Patrick J

mSphere

2023 Volume 8, Issue 5, Page(s) e0030723

Abstract: Corrosion inhibitors, including zinc orthophosphate, sodium orthophosphate, and sodium silicate, are commonly used to prevent the corrosion of drinking water infrastructure. Metals such as zinc are known stressors for antibiotic resistance selection, and ...

Abstract	Corrosion inhibitors, including zinc orthophosphate, sodium orthophosphate, and sodium silicate, are commonly used to prevent the corrosion of drinking water infrastructure. Metals such as zinc are known stressors for antibiotic resistance selection, and phosphates can increase microbial growth in drinking water distribution systems (DWDS). Yet, the influence of corrosion inhibitor type on antimicrobial resistance in DWDS is unknown. Here, we show that sodium silicates can decrease antibiotic resistant bacteria (ARB) and antibiotic-resistance genes (ARGs), while zinc orthophosphate increases ARB and ARGs in source water microbial communities. Based on controlled bench-scale studies, zinc orthophosphate addition significantly increased the abundance of ARB resistant to ciprofloxacin, sulfonamides, trimethoprim, and vancomycin, as well as the genes
MeSH term(s)	Humans ; Drinking Water ; Corrosion ; Angiotensin Receptor Antagonists ; Angiotensin-Converting Enzyme Inhibitors ; Drug Resistance, Microbial/genetics ; Zinc ; Anti-Bacterial Agents/pharmacology ; Microbiota ; Phosphates ; Sodium
Chemical Substances	sodium silicate (IJF18F77L3) ; Drinking Water ; Angiotensin Receptor Antagonists ; Angiotensin-Converting Enzyme Inhibitors ; Zinc (J41CSQ7QDS) ; Anti-Bacterial Agents ; Phosphates ; Sodium (9NEZ333N27)
Language	English
Publishing date	2023-09-08
Publishing country	United States
Document type	Journal Article ; Research Support, U.S. Gov't, Non-P.H.S.
ISSN	2379-5042
ISSN (online)	2379-5042
DOI	10.1128/msphere.00307-23
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Article ; Online: One Health and Global Health View of Antimicrobial Susceptibility through the "Eye" of Aeromonas: Systematic Review and Meta-Analysis.

Jones, Daniel Christopher / LaMartina, Emily Lou / Lewis, Jenna Rachel / Dahl, Andrew James / Nadig, Nischala / Szabo, Aniko / Newton, Ryan J / Skwor, Troy A

International journal of antimicrobial agents

2023 Volume 62, Issue 2, Page(s) 106848

Abstract: Antimicrobial resistance (AMR) is one of the most pressing public health concerns; therefore, it is imperative to advance our understanding of the factors influencing AMR from Global and One Health perspectives. To address this, Aeromonas populations ... ...

Abstract	Antimicrobial resistance (AMR) is one of the most pressing public health concerns; therefore, it is imperative to advance our understanding of the factors influencing AMR from Global and One Health perspectives. To address this, Aeromonas populations were identified using 16S rRNA gene libraries among human, agriculture, aquaculture, drinking water, surface water, and wastewater samples, supporting its use as indicator bacteria to study AMR. A systematic review and meta-analysis was then performed from Global and One Health perspectives, including data from 221 articles describing 15 891 isolates from 57 countries. The interconnectedness of different environments was evident as minimal differences were identified between sectors among 21 different antimicrobials. However, resistance to critically important antibiotics (aztreonam and cefepime) was significantly higher among wastewater populations compared with clinical isolates. Additionally, isolates from untreated wastewater typically exhibited increased AMR compared with those from treated wastewater. Furthermore, aquaculture was associated with increased AMR to ciprofloxacin and tetracycline compared with wild-caught seafood. Using the World Health Organization AWaRe classifications, countries with lower consumption of "Access" compared to "Watch" drugs from 2000 to 2015 demonstrated higher AMR levels. The current analysis revealed negative correlations between AMR and anthropogenic factors, such as environmental performance indices and socioeconomic standing. Environmental health and sanitation were two of the environmental factors most strongly correlated with AMR. The current analysis highlights the negative impacts of "Watch" drug overconsumption, anthropogenic activity, absence of wastewater infrastructure, and aquaculture on AMR, thus stressing the need for proper infrastructure and global regulations to combat this growing problem.
MeSH term(s)	Humans ; Aeromonas/genetics ; Wastewater ; Global Health ; One Health ; RNA, Ribosomal, 16S ; Drug Resistance, Bacterial ; Anti-Bacterial Agents/pharmacology ; Anti-Infective Agents
Chemical Substances	Wastewater ; RNA, Ribosomal, 16S ; Anti-Bacterial Agents ; Anti-Infective Agents
Language	English
Publishing date	2023-05-16
Publishing country	Netherlands
Document type	Meta-Analysis ; Systematic Review ; Journal Article ; Review
ZDB-ID	1093977-5
ISSN	1872-7913 ; 0924-8579
ISSN (online)	1872-7913
ISSN	0924-8579
DOI	10.1016/j.ijantimicag.2023.106848
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Zs.A 3368: Show issues			Location: Je nach Verfügbarkeit (siehe Angabe bei Bestand) bis Jg. 1994: Bestellungen von Artikeln über das Online-Bestellformular Jg. 1995 - 2021: Lesesall (2.OG) ab Jg. 2022: Lesesaal (EG)
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Article ; Online: An inexpensive, reproducible method to quantify activated sludge foaming potential: Validation through lab-scale studies and year-long full-scale sampling campaign.

Scarim, Grace / LaMartina, Emily Lou / Venkiteshwaran, Kaushik / Zitomer, Daniel H / Newton, Ryan J / McNamara, Patrick J

Water environment research : a research publication of the Water Environment Federation

2023 Volume 95, Issue 4, Page(s) e10856

Abstract	Activated sludge is a conventional treatment process for biochemical oxygen demand (BOD) and total suspended solids (TSS) removal at water resource recovery facilities (WRRFs). Foaming events are a common operational issue in activated sludge and can lead to decreased treatment efficiency, maintenance issues, and potential environmental health risks. Stable foaming events are caused by biological and chemical drivers (i.e., microbes and surfactants) during the aeration process. However, foaming events are difficult to predict and quantify. We present an inexpensive and easy-to-use method that can be applied at WRRFs to quantify foaming potential. Subsequently, the method was applied over a year-long full-scale study while data on microbial community composition and functional parameters associated with foaming potential were collected from activated sludge samples at South Shore Water Reclamation Facility (WRF) (Oak Creek, WI). Results from the development of the foaming potential method using linear alkylbenzene sulfonate (LAS) showed that the method was reproducible (relative standard deviation <20%) and able to capture changes in foam-inducing constituents. Using full-scale activated sludge samples, higher relative abundance values for the following genera were associated with foaming events: Zoogloea, Flavobacterium, Variovorax, and Bdellovibrio. This is the first report that Variovorx and Bdellovibrio relative abundance was correlated with foaming events in activated sludge. Furthermore, the foaming potential positively correlated (ρ = 0.24) with soluble total nitrogen. Characterizing foaming events through frequent sampling and monitoring of specific genera and functional parameters may allow for predictions and preemptive mitigation efforts to avoid negative consequences in the future. PRACTITIONER POINTS: A reproducible method to measure foaming potential in activated sludge is available. Genera Zoogloea, Flavobacterium, Variovorax, and Bdellovibrio correlated with foaming events. A year-long sampling campaign of activated sludge measuring foaming potential and microbial community composition was conducted at South Shore Water Reclamation Facility in Oak Creek, WI. More research at other facilities with this method is needed to understand links between microbes and foaming.
MeSH term(s)	Sewage/chemistry ; Waste Disposal, Fluid/methods ; Water Purification ; Microbiota ; Nitrogen ; Water ; Bioreactors
Chemical Substances	Sewage ; Nitrogen (N762921K75) ; Water (059QF0KO0R)
Language	English
Publishing date	2023-03-22
Publishing country	United States
Document type	Journal Article
ZDB-ID	1098976-6
ISSN	1554-7531 ; 1047-7624 ; 1061-4303
ISSN (online)	1554-7531
ISSN	1047-7624 ; 1061-4303
DOI	10.1002/wer.10856
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