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Article ; Online: From gut to mud: dissemination of antimicrobial resistance between animal and agricultural niches.

Jadeja, Niti B / Worrich, Anja

2022 Volume 24, Issue 8, Page(s) 3290–3306

Abstract: With increasing reports on antimicrobial resistance (AMR) in humans, animals and the environment, we are at risk of returning to a pre-antibiotic era. Therefore, AMR is recognized as one of the major global health threats of this century. Antibiotics are ...

Abstract	With increasing reports on antimicrobial resistance (AMR) in humans, animals and the environment, we are at risk of returning to a pre-antibiotic era. Therefore, AMR is recognized as one of the major global health threats of this century. Antibiotics are used extensively in farming systems to treat and prevent infections in food animals or to increase their growth. Besides the risk of a transfer of AMR between the human and the animal sector, there is another yet largely overlooked sector in the One Health triad. Human-dominated ecosystems such as agricultural soils are a major sink for antibiotics and AMR originating from livestock farming. This review summarizes current knowledge on the prevalence of AMR at the interface of animal and agricultural production and discusses the potential implications for human health. Soil resistomes are augmented by the application of manure from treated livestock. Subsequent transfer of AMR into plant microbiomes may likely play a critical role in human exposure to antibiotic resistance in the environment. Based on the knowledge that is currently available we advocate that more attention should be paid to the role of environmental resistomes in the AMR crisis.
MeSH term(s)	Agriculture ; Animals ; Anti-Bacterial Agents/pharmacology ; Drug Resistance, Bacterial ; Humans ; Livestock ; Manure ; Microbiota ; Soil
Chemical Substances	Anti-Bacterial Agents ; Manure ; Soil
Language	English
Publishing date	2022-02-16
Publishing country	England
Document type	Journal Article ; Review
ZDB-ID	2020213-1
ISSN	1462-2920 ; 1462-2912
ISSN (online)	1462-2920
ISSN	1462-2912
DOI	10.1111/1462-2920.15927
Database	MEDical Literature Analysis and Retrieval System OnLINE

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Article: From gut to mud: dissemination of antimicrobial resistance between animal and agricultural niches

Jadeja, Niti B. / Worrich, Anja

Environmental microbiology. 2022 Aug., v. 24, no. 8

2022

Abstract: With increasing reports on antimicrobial resistance (AMR) in humans, animals and the environment, we are at risk of returning to a pre‐antibiotic era. Therefore, AMR is recognized as one of the major global health threats of this century. Antibiotics are ...

Abstract	With increasing reports on antimicrobial resistance (AMR) in humans, animals and the environment, we are at risk of returning to a pre‐antibiotic era. Therefore, AMR is recognized as one of the major global health threats of this century. Antibiotics are used extensively in farming systems to treat and prevent infections in food animals or to increase their growth. Besides the risk of a transfer of AMR between the human and the animal sector, there is another yet largely overlooked sector in the One Health triad. Human‐dominated ecosystems such as agricultural soils are a major sink for antibiotics and AMR originating from livestock farming. This review summarizes current knowledge on the prevalence of AMR at the interface of animal and agricultural production and discusses the potential implications for human health. Soil resistomes are augmented by the application of manure from treated livestock. Subsequent transfer of AMR into plant microbiomes may likely play a critical role in human exposure to antibiotic resistance in the environment. Based on the knowledge that is currently available we advocate that more attention should be paid to the role of environmental resistomes in the AMR crisis.
Keywords	antibiotic resistance ; antibiotic resistance genes ; digestive system ; human health ; humans ; livestock ; microbiology ; microbiome ; risk ; soil
Language	English
Dates of publication	2022-08
Size	p. 3290-3306.
Publishing place	John Wiley & Sons, Inc.
Document type	Article
Note	REVIEW
ZDB-ID	2020213-1
ISSN	1462-2920 ; 1462-2912
ISSN (online)	1462-2920
ISSN	1462-2912
DOI	10.1111/1462-2920.15927
Database	NAL-Catalogue (AGRICOLA)

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Article ; Online: Removal of antibiotic resistance genes during swine manure composting is strongly impaired by high levels of doxycycline residues.

Wen, Xin / Chen, Majian / Ma, Baohua / Xu, Jiaojiao / Zhu, Ting / Zou, Yongde / Liao, Xindi / Wang, Yan / Worrich, Anja / Wu, Yinbao

Waste management (New York, N.Y.)

2024 Volume 177, Page(s) 76–85

Abstract: Antibiotic resistance genes (ARGs) are emerging pollutants that enter the farm and surrounding environment via the manure of antibiotic-treated animals. Pretreatment of livestock manure by composting decreases ARGs abundance, but how antibiotic residues ... ...

Abstract	Antibiotic resistance genes (ARGs) are emerging pollutants that enter the farm and surrounding environment via the manure of antibiotic-treated animals. Pretreatment of livestock manure by composting decreases ARGs abundance, but how antibiotic residues affect ARGs removal efficiency remains poorly understood. Here, we explored the fate of the resistome under different doxycycline residue levels during aerobic swine manure composting. Metagenomic sequencing showed that the presence of high levels of doxycycline generally had a higher abundance of tetracycline ARGs, and their dominant host bacteria of Firmicutes, especially Clostridium and Streptococcus, also had limited elimination in composting under high levels of doxycycline stress. Moreover, high levels of doxycycline impaired the removal of the total ARGs number in finished composts, with a removal rate of 51.74 % compared to 63.70 % and 71.52 % for the control and low-level doxycycline manure, respectively. Horizontal gene transfer and strengthened correlations among the bacterial community fostered ARGs preservation at high doxycycline levels during composting. In addition, ARGs carried by both plasmids and chromosomes, such as multidrug ARGs, showed wide host characteristics and rebound during compost maturation. Compared with chromosomes, a greater variety of ARGs on plasmids suggested that the majority of ARGs were characterized by horizontal mobility during composting, and the cross-host characteristics of ARGs during composting deserve further attention. This study provided deep insight into the fate of ARGs under residual antibiotic stress during manure composting and reminded the associated risk for environmental and public health.
MeSH term(s)	Animals ; Swine ; Doxycycline ; Anti-Bacterial Agents/pharmacology ; Composting ; Manure ; Drug Resistance, Microbial/genetics ; Livestock
Chemical Substances	Doxycycline (N12000U13O) ; Anti-Bacterial Agents ; Manure
Language	English
Publishing date	2024-01-30
Publishing country	United States
Document type	Journal Article
ZDB-ID	2001471-5
ISSN	1879-2456 ; 0956-053X
ISSN (online)	1879-2456
ISSN	0956-053X
DOI	10.1016/j.wasman.2024.01.037
Database	MEDical Literature Analysis and Retrieval System OnLINE

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Book ; Online ; Thesis: Role of fungus-mediated transport mechanisms for bacterial activity under environmental stress

Worrich, Anja [Verfasser]

2017

Author's details	Anja Worrich
Keywords	Biowissenschaften, Biologie ; Life Science, Biology
Subject code	sg570
Language	English
Publisher	Universitätsbibliothek Leipzig
Publishing place	Leipzig
Document type	Book ; Online ; Thesis
Database	Digital theses on the web

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Article ; Online: Associational effects in the microbial neighborhood.

Worrich, Anja / Musat, Niculina / Harms, Hauke

The ISME journal

2019 Volume 13, Issue 9, Page(s) 2143–2149

Abstract: Even though "perfect" metagenomes or metatranscriptomes are close at hand, the implicit assumption of spatial homogeneity in the "omic" approaches makes it difficult if not impossible to relate those data to ecological processes occurring in natural and ... ...

Abstract	Even though "perfect" metagenomes or metatranscriptomes are close at hand, the implicit assumption of spatial homogeneity in the "omic" approaches makes it difficult if not impossible to relate those data to ecological processes occurring in natural and man-made ecosystems. In fact, the distribution of microbes in their habitats is far from being uniform and random. Microbial communities show a high degree of spatial organization that stems from environmental gradients and local interactions. These interactions can be very complex and may involve multiple species. Several studies highlighted the importance of indirect interactions for community stability, but the absence of a theoretical framework for microbial ecology restricts the possibilities to strike a balance between the investigation of simple communities with purely pairwise interactions and the attempts to understand interaction patterns in whole communities based on meta-omics studies. Here we suggest adapting the concept of Associational Effects (AE) from plant ecology, to better understand the link between ecological interactions, spatial arrangement, and stability in microbial communities. By bringing together a conceptual framework developed for plants and observations made for microbes, this perspective article fosters synthesis of related disciplines to yield novel insights into the advancing field of spatial microbial ecology. To promote the integration into microbial ecology, we (i) outline the theoretical background of AE, (ii) collect underlying mechanisms by literature synthesis, (iii) propose a three-point roadmap for the investigation of AE in microbial communities, and (iv) discuss its implications for microbial ecology research.
MeSH term(s)	Ecology ; Metagenome ; Microbiota ; Plant Development ; Plants/microbiology
Language	English
Publishing date	2019-05-21
Publishing country	England
Document type	Journal Article ; Research Support, Non-U.S. Gov't ; Review
ZDB-ID	2406536-5
ISSN	1751-7370 ; 1751-7362
ISSN (online)	1751-7370
ISSN	1751-7362
DOI	10.1038/s41396-019-0444-6
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Article ; Online: Prospects for Integrating Disturbances, Biodiversity and Ecosystem Functioning Using Microbial Systems

Thomas Banitz / Antonis Chatzinotas / Anja Worrich

Frontiers in Ecology and Evolution, Vol

2020 Volume 8

Abstract: Biodiversity is a key driver of ecosystem functioning, while disturbances are a key driver of biodiversity. Consequently, disturbances crucially influence ecosystem functioning–both directly via affecting ecosystem processes but also indirectly via ... ...

Abstract	Biodiversity is a key driver of ecosystem functioning, while disturbances are a key driver of biodiversity. Consequently, disturbances crucially influence ecosystem functioning–both directly via affecting ecosystem processes but also indirectly via altering biodiversity. We thus need to disclose the joint relationships between disturbances, biodiversity and functioning (DBF) to understand and predict ecosystem dynamics under realistic conditions. However, biodiversity responses to disturbances have so far insufficiently been studied together with biodiversity effects on functions. For many ecosystems, such integrative exploration of DBF relationships would require too extensive manipulations and observations over unfeasible spatial and temporal scales. We argue that microbial systems offer a bright perspective to overcome these limitations, and present a roadmap for doing so. Microbial systems allow us exposing different, well-characterized communities to multiple, reproducible disturbance regimes, and precisely measuring both biodiversity and associated functions over time. Comprehensive data can be obtained by systematically varying and replicating representative environmental scenarios. These data can further be explored and explained with computational models. Microbial systems thus reveal mechanisms that underlie DBF relationships and allow scrutinizing ecological hypotheses. This advancement of theory will be essential for ecology as a whole. It is particularly relevant in the context of global change, which is expected to promote disturbances as well as loss of biodiversity and functions in many ecosystems.
Keywords	ecological theory ; trait-based ecology ; microcosm experiments ; multifunctionality ; environmental change ; computational modeling ; Evolution ; QH359-425 ; Ecology ; QH540-549.5
Subject code	333
Language	English
Publishing date	2020-02-01T00:00:00Z
Publisher	Frontiers Media S.A.
Document type	Article ; Online
Database	BASE - Bielefeld Academic Search Engine (life sciences selection)

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Article: Ecology of Contaminant Biotransformation in the Mycosphere: Role of Transport Processes.

Worrich, Anja / Wick, Lukas Y / Banitz, Thomas

Advances in applied microbiology

2018 Volume 104, Page(s) 93–133

Abstract: Fungi and bacteria often share common microhabitats. Their co-occurrence and coevolution give rise to manifold ecological interactions in the mycosphere, here defined as the microhabitats surrounding and affected by hyphae and mycelia. The extensive ... ...

Abstract	Fungi and bacteria often share common microhabitats. Their co-occurrence and coevolution give rise to manifold ecological interactions in the mycosphere, here defined as the microhabitats surrounding and affected by hyphae and mycelia. The extensive structure of mycelia provides ideal "logistic networks" for transport of bacteria and matter in structurally and chemically heterogeneous soil ecosystems. We describe the characteristics of the mycosphere as a unique and highly dynamic bacterial habitat and a hot spot for contaminant biotransformation. In particular, we emphasize the role of the mycosphere for (i) bacterial dispersal and colonization of subsurface interfaces and new habitats, (ii) matter transport processes and contaminant bioaccessibility, and (iii) the functional stability of microbial ecosystems when exposed to environmental fluctuations such as stress or disturbances. Adopting concepts from ecological theory, the chapter disentangles bacterial-fungal impacts on contaminant biotransformation in a systemic approach that interlinks empirical data from microbial ecosystems with simulation data from computational models. This approach provides generic information on key factors, processes, and ecological principles that drive microbial contaminant biotransformation in soil. We highlight that the transport processes create favorable habitat conditions for efficient bacterial contaminant degradation in the mycosphere. In-depth observation, understanding, and prediction of the role of mycosphere transport processes will support the use of bacterial-fungal interactions in nature-based solutions for contaminant biotransformation in natural and man-made ecosystems, respectively.
MeSH term(s)	Bacteria/growth & development ; Bacteria/metabolism ; Biological Transport ; Biotransformation ; Ecosystem ; Fungi/growth & development ; Fungi/metabolism ; Metabolic Networks and Pathways ; Soil Microbiology ; Soil Pollutants/metabolism
Chemical Substances	Soil Pollutants
Language	English
Publishing date	2018-07-03
Publishing country	United States
Document type	Journal Article
ZDB-ID	160-0
ISSN	0065-2164
ISSN	0065-2164
DOI	10.1016/bs.aambs.2018.05.005
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Article ; Online: Physical, Chemical and Biological Effects on Soil Bacterial Dynamics in Microscale Models

Sara König / Hans-Jörg Vogel / Hauke Harms / Anja Worrich

Frontiers in Ecology and Evolution, Vol

2020 Volume 8

Abstract: Soil is populated by highly diverse microbial communities mediating important processes and functions. The distribution of microbes, however, is neither uniform nor random. Instead, it is dictated by physical, chemical, and biological processes and ... ...

Abstract	Soil is populated by highly diverse microbial communities mediating important processes and functions. The distribution of microbes, however, is neither uniform nor random. Instead, it is dictated by physical, chemical, and biological processes and conditions and varying over small spatial and temporal scales. The feedbacks between these processes make the soil-microbe complex a self-organizing system capable of adapting to the continuously changing conditions mainly driven by the highly fluctuating water content. For making meaningful predictions on the spatiotemporal dynamics of soil microbes and their functions, we need to integrate knowledge from physics, chemistry, and biology in our modeling approaches. Here, we review modeling studies with a focus on spatiotemporal dynamics of bacteria and bacterial functions in soil microhabitats. We compare these studies along four dimensions: specific aim, model type (individual-based, population-based), scale, and considered physical, chemical, biological processes and aspects. A special emphasis is laid on modeling approaches considering processes and aspects influencing the spatial distribution of bacteria such as motility, vector-based dispersal and biofilm formation. This includes factors like soil structure, carbon and oxygen gradients, temporal variations in hydration conditions or anthropogenic disturbance events. By assessing the importance of different microscale bacterial processes, this review should contribute to the ongoing discussion on challenges related to the upscaling from the microscopic via the profile to the landscape scale. Recent technical advances to observe bacteria in soils or soil-like environments combined with multidisciplinary collaborations will help to shed light on currently understudied physical, chemical and biological interactions in the soil-microbe complex.
Keywords	soil processes ; soil structure ; bacterial models ; simulation ; upscaling ; Evolution ; QH359-425 ; Ecology ; QH540-549.5
Subject code	550 ; 910
Language	English
Publishing date	2020-03-01T00:00:00Z
Publisher	Frontiers Media S.A.
Document type	Article ; Online
Database	BASE - Bielefeld Academic Search Engine (life sciences selection)

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Article: Mining Synergistic Microbial Interactions: A Roadmap on How to Integrate Multi-Omics Data.

Saraiva, Joao Pedro / Worrich, Anja / Karakoç, Canan / Kallies, Rene / Chatzinotas, Antonis / Centler, Florian / Nunes da Rocha, Ulisses

Microorganisms

2021 Volume 9, Issue 4

Abstract: Mining interspecies interactions remain a challenge due to the complex nature of microbial communities and the need for computational power to handle big data. Our meta-analysis indicates that genetic potential alone does not resolve all issues involving ...

Abstract	Mining interspecies interactions remain a challenge due to the complex nature of microbial communities and the need for computational power to handle big data. Our meta-analysis indicates that genetic potential alone does not resolve all issues involving mining of microbial interactions. Nevertheless, it can be used as the starting point to infer synergistic interspecies interactions and to limit the search space (i.e., number of species and metabolic reactions) to a manageable size. A reduced search space decreases the number of additional experiments necessary to validate the inferred putative interactions. As validation experiments, we examine how multi-omics and state of the art imaging techniques may further improve our understanding of species interactions' role in ecosystem processes. Finally, we analyze pros and cons from the current methods to infer microbial interactions from genetic potential and propose a new theoretical framework based on: (i) genomic information of key members of a community; (ii) information of ecosystem processes involved with a specific hypothesis or research question; (iii) the ability to identify putative species' contributions to ecosystem processes of interest; and, (iv) validation of putative microbial interactions through integration of other data sources.
Language	English
Publishing date	2021-04-14
Publishing country	Switzerland
Document type	Journal Article ; Review
ZDB-ID	2720891-6
ISSN	2076-2607
ISSN	2076-2607
DOI	10.3390/microorganisms9040840
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Article ; Online: Development of embodied capital

Jorin Veen / Haneul Jang / David Raubenheimer / Bryndan O. C. M. van Pinxteren / Vidrige Kandza / Patrick G. Meirmans / Nicole M. van Dam / Susanne Dunker / Petra Hoffmann / Anja Worrich / Karline R. L. Janmaat

Frontiers in Ecology and Evolution, Vol

Diet composition, foraging skills, and botanical knowledge of forager children in the Congo Basin

2023 Volume 11

Abstract: The embodied capital theory states that the extended juvenile period has enabled human foragers to acquire the complex foraging skills and knowledge needed to obtain food. Yet we lack detailed data on how forager children develop these skills and ... ...

Abstract	The embodied capital theory states that the extended juvenile period has enabled human foragers to acquire the complex foraging skills and knowledge needed to obtain food. Yet we lack detailed data on how forager children develop these skills and knowledge. Here, we examine the seasonal diet composition, foraging behavior, and botanical knowledge of Mbendjele BaYaka forager children in the Republic of the Congo. Our data, acquired through long-term observations involving full-day focal follows, show a high level of seasonal fluctuation in diet and foraging activities of BaYaka children, in response to the seasonal availability of their food sources. BaYaka children foraged more than half of the time independent from adults, predominantly collecting and eating fruits, tubers, and seeds. For these most-consumed food types, we found an early onset of specialization of foraging skills in children, similar to the gendered division in foraging in adults. Specifically, children were more likely to eat fruit and seed species when there were more boys and men in the group, and girls were more likely than boys to collect tuber species. In a botanical knowledge test, children were more accurate at identifying plant food species with increasing age, and they used fruits and trunks for species identification, more so than using leaves and barks. These results show how the foraging activities of BaYaka children may facilitate the acquisition of foraging skills and botanical knowledge and provide insights into the development of embodied capital. Additionally, BaYaka children consumed agricultural foods more than forest foods, probably reflecting BaYaka’s transition into a horticultural lifestyle. This change in diet composition may have significant consequences for the cognitive development of BaYaka children.
Keywords	botanical knowledge ; cognitive development ; embodied capital theory ; forager diet ; juvenile foraging ; Mbendjele BaYaka subsistence ; Evolution ; QH359-425 ; Ecology ; QH540-549.5
Subject code	590
Language	English
Publishing date	2023-02-01T00:00:00Z
Publisher	Frontiers Media S.A.
Document type	Article ; Online
Database	BASE - Bielefeld Academic Search Engine (life sciences selection)

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