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1.
Sci Total Environ ; 917: 170433, 2024 Mar 20.
Article in English | MEDLINE | ID: mdl-38286289

ABSTRACT

Antibiotic resistance is a globally recognized health concern which leads to longer hospital stays, increased morbidity, increased mortality, and higher medical costs. Understanding how antibiotic resistance persists and exchanges in environmental systems like soil, water, and wastewater are critically important for understanding the emergence of pathogens with new resistance profiles and the subsequent exposure of people who indirectly/directly come in contact with these pathogens. There are concerns about the widespread application of prophylactic antibiotics in the clinical and agriculture sectors, as well as chemicals/detergents used in food and manufacturing industries, especially the quaternary ammonium compounds which have been found responsible for the generation of resistant genes in water and soil. The rates of horizontal gene transfer increase where there is a lack of proper water/wastewater infrastructure, high antibiotic manufacturing industries, or endpoint users - such as hospitals and intensive agriculture. Conventional wastewater treatment technologies are often inefficient in the reduction of ARB/ARGs and provide the perfect combination of conditions for the development of antibiotic resistance. The wastewater discharged from municipal facilities may therefore be enriched with bacterial communities/pathogens and provide a suitable environment (due to the presence of nutrients and other pollutants) to enhance the transfer of antibiotic resistance. However, facilities with tertiary treatment (either traditional/emerging technologies) provide higher rates of reduction. This review provides a synthesis of the current understanding of wastewater treatment and antibiotic resistance, examining the drivers that may accelerate their possible transmission to a different environment, and highlighting the need for tertiary technologies used in treatment plants for the reduction of resistant bacteria/genes.


Subject(s)
Wastewater , Water Purification , Humans , Anti-Bacterial Agents/analysis , Genes, Bacterial , Angiotensin Receptor Antagonists , Angiotensin-Converting Enzyme Inhibitors , Bacteria/genetics , Soil , Water
2.
Environ Microbiome ; 18(1): 52, 2023 Jun 08.
Article in English | MEDLINE | ID: mdl-37291644

ABSTRACT

BACKGROUND: Marine sponges are diverse and functionally important members of marine benthic systems, well known to harbour complex and abundant symbiotic microorganisms as part of their species-specific microbiome. Changes in the sponge microbiome have previously been observed in relation to natural environmental changes, including nutrient availability, temperature and light. With global climate change altering seasonal temperatures, this study aims to better understand the potential effects of natural seasonal fluctuations on the composition and functions of the sponge microbiome. RESULTS: Metataxonomic sequencing of two marine sponge species native to the U.K. (Hymeniacidon perlevis and Suberites massa) was performed at two different seasonal temperatures from the same estuary. A host-specific microbiome was observed in each species between both seasons. Detected diversity within S. massa was dominated by one family, Terasakiellaceae, with remaining dominant families also being detected in the associated seawater. H. perlevis demonstrated sponge specific bacterial families including aforementioned Terasakiellaceae as well as Sphingomonadaceae and Leptospiraceae with further sponge enriched families present. CONCLUSIONS: To our knowledge, these results describe for the first time the microbial diversity of the temperate marine sponge species H. perlevis and S. massa using next generation sequencing. This analysis detected the presence of core sponge taxa identified in each sponge species was not changed by seasonal temperature alterations, however, there were shifts observed in overall community composition due to fluctuations in less abundant taxa, demonstrating that microbiome stability across seasons is likely to be host species specific.

3.
Chemosphere ; 303(Pt 2): 135148, 2022 Sep.
Article in English | MEDLINE | ID: mdl-35640694

ABSTRACT

There is a growing concern that the use and misuse of antibiotics can increase the detection of antibiotic resistant genes (ARGs) in wastewater. Conventional wastewater treatment plants provide a pathway for ARGs and antibiotic resistant bacteria (ARB) to be released into natural water bodies. Research has indicated that conventional primary and secondary treatment systems can reduce ARGs/ARB to varying degrees. However, in developing/low-income countries, only 8-28% of wastewater is treated via conventional treatment processes, resulting in the environment being exposed to high levels of ARGs, ARB and pharmaceuticals in raw sewage. The use of constructed wetlands (CWs) has the potential to provide a low-cost solution for wastewater treatment, with respect to removal of nutrients, pathogens, ARB/ARGs either as a standalone treatment process or when integrated with conventional treatment systems. Recently, CWs have also been employed for the reduction of antibiotic residues, pharmaceuticals, and emerging contaminants. Given the benefits of ARG removal, low cost of construction, maintenance, energy requirement, and performance efficiencies, CWs offer a promising solution for developing/low-income countries. This review promotes a better understanding of the performance efficiency of treatment technologies (both conventional systems and CWs) for the reduction of antibiotics and ARGs/ARB from wastewater and explores workable alternatives.


Subject(s)
Wastewater , Wetlands , Angiotensin Receptor Antagonists , Angiotensin-Converting Enzyme Inhibitors , Anti-Bacterial Agents/pharmacology , Bacteria/genetics , Drug Resistance, Microbial/genetics , Genes, Bacterial , Pharmaceutical Preparations , Waste Disposal, Fluid/methods , Wastewater/chemistry
4.
Microbiologyopen ; 10(4): e1231, 2021 08.
Article in English | MEDLINE | ID: mdl-34459542

ABSTRACT

Marine biofouling imposes serious environmental and economic impacts on marine applications, especially in the shipping industry. To combat biofouling, protective coatings are applied on vessel hulls which are divided into two major groups: biocidal and non-toxic fouling release. The current study aimed to explore the effect of coating type on microbial biofilm community profiles to better understand the differences between the communities developed on fouling control biocidal antifouling and biocidal-free coatings. Biocidal (Intersmooth® 7460HS SPC), fouling release (Intersleek® 900), and inert surfaces were deployed in the marine environment for 4 months, and the biofilms that developed on these surfaces were investigated using Illumina NGS sequencing, targeting the prokaryotic 16S rRNA gene. The results confirmed differences in the community profiles between coating types. The biocidal coating supported communities dominated by Alphaproteobacteria (Loktanella, Sphingorhabdus, Erythrobacter) and Bacteroidetes (Gilvibacter), while other taxa, such as Portibacter and Sva0996 marine group, proliferated on the fouling-release surface. Knowledge of these marine biofilm components on fouling control coatings will serve as a guide for future investigations of marine microfouling as well as informing the coatings industry of potential microbial targets for robust coating formulations.


Subject(s)
Alphaproteobacteria/growth & development , Bacteroidetes/growth & development , Biofilms/growth & development , Biofouling/prevention & control , Disinfectants/pharmacology , Alphaproteobacteria/drug effects , Alphaproteobacteria/genetics , Bacteroidetes/drug effects , Bacteroidetes/genetics , Biofilms/drug effects , Computational Biology , High-Throughput Nucleotide Sequencing , Microbiota/drug effects , Seawater/microbiology
5.
Sci Total Environ ; 797: 149217, 2021 Nov 25.
Article in English | MEDLINE | ID: mdl-34303969

ABSTRACT

Microplastic pollution has become a major source of concern, with a large body of literature surrounding the impacts of microplastic ingestion by biota. However, many of these studies utilise virgin microbeads, which are not reflective of environmental microplastics that are rapidly colonised with microbial communities (plastisphere) in marine ecosystems. It is a concern therefore that current evidence of the impacts of microplastics on biota are unrepresentative of the environmental microplastic pollution. In this study, uptake and bioaccumulation of both virgin and Escherichia coli coated microplastics, by European native oysters (Ostrea edulis) were compared, and the physiological responses of oysters to the exposure were investigated. The uptake of E. coli coated microplastics was found to be significantly higher than the uptake of virgin microplastics, with average concentrations of 42.3 ± 23.5 no. g-1 and 11.4 ± 0.6 no. g-1 microbeads found in oysters exposed to coated and virgin microplastics, respectively. This suggests that environmental microplastic uptake into the marine trophic web by benthic filter feeders may be greater than previously thought. The oxygen consumption and respiration rate of oysters exposed to E. coli coated microplastics increased significantly over time, whilst virgin microplastics did not produce any measurable significant physiological responses. However, less than 0.5% of the total amount of administered microbeads were retained by all oysters, suggesting a limited residence time within the organisms. Although microplastics did not bioaccumulate in oyster tissues in the short-term, microorganisms assimilated by the ingestion of coated microplastics may be transferred to higher trophic levels. This poses a risk, not only for wildlife, but also for food safety and human health. The capacity to carry pathogens and expose a wide range of organisms to them means microplastics may have an important role as vectors for disease.


Subject(s)
Microplastics , Water Pollutants, Chemical , Biofilms , Ecosystem , Environmental Monitoring , Escherichia coli , Plastics , Water Pollutants, Chemical/analysis , Water Pollutants, Chemical/toxicity
6.
Anim Microbiome ; 3(1): 17, 2021 Feb 05.
Article in English | MEDLINE | ID: mdl-33546771

ABSTRACT

BACKGROUND: Historically the main source of laboratory Xenopus laevis was the environment. The increase in genetically altered animals and evolving governmental constraints around using wild-caught animals for research has led to the establishment of resource centres that supply animals and reagents worldwide, such as the European Xenopus Resource Centre. In the last decade, centres were encouraged to keep animals in a "low microbial load" or "clean" state, where embryos are surface sterilized before entering the housing system; instead of the conventional, "standard" conditions where frogs and embryos are kept without prior surface treatment. Despite Xenopus laevis having been kept in captivity for almost a century, surprisingly little is known about the frogs as a holobiont and how changing the microbiome may affect resistance to disease. This study examines how the different treatment conditions, "clean" and "standard" husbandry in recirculating housing, affects the skin microbiome of tadpoles and female adults. This is particularly important when considering the potential for poor welfare caused by a change in husbandry method as animals move from resource centres to smaller research colonies. RESULTS: We found strong evidence for developmental control of the surface microbiome on Xenopus laevis; adults had extremely similar microbial communities independent of their housing, while both tadpole and environmental microbiome communities were less resilient and showed greater diversity. CONCLUSIONS: Our findings suggest that the adult Xenopus laevis microbiome is controlled and selected by the host. This indicates that the surface microbiome of adult Xenopus laevis is stable and defined independently of the environment in which it is housed, suggesting that the use of clean husbandry conditions poses little risk to the skin microbiome when transferring adult frogs to research laboratories. This will have important implications for frog health applicable to Xenopus laevis research centres throughout the world.

7.
Front Microbiol ; 11: 331, 2020.
Article in English | MEDLINE | ID: mdl-32256461

ABSTRACT

[This corrects the article DOI: 10.3389/fmicb.2019.02687.].

8.
Ann Rev Mar Sci ; 12: 469-497, 2020 01 03.
Article in English | MEDLINE | ID: mdl-31505131

ABSTRACT

More than two-thirds of global biomass consists of vascular plants. A portion of the detritus they generate is carried into the oceans from land and highly productive blue carbon ecosystems-salt marshes, mangrove forests, and seagrass meadows. This large detrital input receives scant attention in current models of the global carbon cycle, though for blue carbon ecosystems, increasingly well-constrained estimates of biomass, productivity, and carbon fluxes, reviewed in this article, are now available. We show that the fate of this detritus differs markedly from that of strictly marine origin, because the former contains lignocellulose-an energy-rich polymer complex of cellulose, hemicelluloses, and lignin that is resistant to enzymatic breakdown. This complex can be depolymerized for nutritional purposes by specialized marine prokaryotes, fungi, protists, and invertebrates using enzymes such as glycoside hydrolases and lytic polysaccharide monooxygenases to release sugar monomers. The lignin component, however, is less readily depolymerized, and detritus therefore becomes lignin enriched, particularly in anoxic sediments, and forms a major carbon sink in blue carbon ecosystems. Eventual lignin breakdown releases a wide variety of small molecules that may contribute significantly to the oceanic pool of recalcitrant dissolved organic carbon. Marine carbon fluxes and sinks dependent on lignocellulosic detritus are important ecosystem services that are vulnerable to human interventions. These services must be considered when protecting blue carbon ecosystems and planning initiatives aimed at mitigating anthropogenic carbon emissions.


Subject(s)
Aquatic Organisms/growth & development , Carbon Cycle , Environmental Monitoring/methods , Lignin/chemistry , Models, Theoretical , Plants/chemistry , Aquatic Organisms/enzymology , Biomass , Carbon Sequestration , Ecosystem , Oceans and Seas
9.
Front Microbiol ; 10: 2687, 2019.
Article in English | MEDLINE | ID: mdl-31849863

ABSTRACT

Wood is consistently found in high levels in the gastrointestinal tract of the Amazonian catfish Panaque nigrolineatus, which, depending on environmental conditions, can switch between xylivorous and detritivorous dietary strategies. This is highly unusual among primary wood consumers and provides a unique system to examine the effect of dietary change in a xylivorous system. In this study, microbiome and predictive metagenomic analyses were performed for P. nigrolineatus fed either wood alone or a less refractory mixed diet containing wood and plant nutrition. While diet had an impact on enteric bacterial community composition, there was a high degree of interindividual variability. Members of the Proteobacteria and Planctomycetes were ubiquitous and dominated most communities; Bacteroidetes, Fusobacteria, Actinobacteria, and Verrucomicrobia also contributed in a tissue and diet-specific manner. Although predictive metagenomics revealed functional differences between communities, the relative abundance of predicted lignocellulose-active enzymes remained similar across diets. The microbiomes from both diets appeared highly adapted for hemicellulose hydrolysis as the predicted metagenomes contained several classes of hemicellulases and lignin-modifying enzymes. Enteric communities from both diets appeared to lack the necessary cellobiohydrolases for efficient cellulose hydrolysis, suggesting that cellobiose is not the primary source of dietary carbon for the fish. Our findings suggest that the P. nigrolineatus gut environment selects for an enteric community based on function, rather than a vertically transferred symbiotic relationship. This functional selection strategy may provide an advantage to an organism that switches between dietary strategies to survive a highly variable environment.

10.
Environ Microbiome ; 14(1): 2, 2019 Apr 01.
Article in English | MEDLINE | ID: mdl-33902710
11.
AIMS Microbiol ; 3(4): 749-761, 2017.
Article in English | MEDLINE | ID: mdl-29152603

ABSTRACT

The Amazonian catfish, Panaque nigrolineatus have several physiological adaptions enabling the scraping and consumption of wood (xylivory), facilitating a detritivorous dietary strategy. Composed of lignocellulose, wood is a difficult substrate to degrade and as yet, it is unclear whether the fish obtains any direct nutritional benefits from wood ingestion and degradation. However, there are numerous systems that rely on microbial symbioses to provide energy and other nutritional benefits for host organisms via lignocellulose decomposition. While previous studies on the microbial community of P. nigrolineatus have focused upon the bacterial population, the role of fungi in lignocellulose degradation in the fish has not yet been examined. This study describes the detection of fungi within the fish gastrointestinal tract. Using next generation sequencing, the effects of diet on enteric fungal populations were examined in each gastrointestinal tract region. Fungal species were found to vary in different regions of the gastrointestinal tract as a function of diet. This study is the first to examine the fungal community in a xylivorous fish and results support the hypothesis that diet influences fungal distribution and diversity within the gastrointestinal tract of P. nigrolineatus.

12.
Mar Drugs ; 15(6)2017 Jun 01.
Article in English | MEDLINE | ID: mdl-28587172

ABSTRACT

As the human population increases there is an increasing reliance on aquaculture to supply a safe, reliable, and economic supply of food. Although food production is essential for a healthy population, an increasing threat to global human health is antimicrobial resistance. Extensive antibiotic resistant strains are now being detected; the spread of these strains could greatly reduce medical treatment options available and increase deaths from previously curable infections. Antibiotic resistance is widespread due in part to clinical overuse and misuse; however, the natural processes of horizontal gene transfer and mutation events that allow genetic exchange within microbial populations have been ongoing since ancient times. By their nature, aquaculture systems contain high numbers of diverse bacteria, which exist in combination with the current and past use of antibiotics, probiotics, prebiotics, and other treatment regimens-singularly or in combination. These systems have been designated as "genetic hotspots" for gene transfer. As our reliance on aquaculture grows, it is essential that we identify the sources and sinks of antimicrobial resistance, and monitor and analyse the transfer of antimicrobial resistance between the microbial community, the environment, and the farmed product, in order to better understand the implications to human and environmental health.


Subject(s)
Drug Resistance, Microbial/genetics , Animals , Anti-Infective Agents/pharmacology , Aquaculture/methods , Bacteria/drug effects , Gene Transfer, Horizontal/genetics , Humans , Probiotics/pharmacology
13.
Curr Opin Chem Biol ; 29: 108-19, 2015 Dec.
Article in English | MEDLINE | ID: mdl-26583519

ABSTRACT

Organisms use diverse mechanisms involving multiple complementary enzymes, particularly glycoside hydrolases (GHs), to deconstruct lignocellulose. Lytic polysaccharide monooxygenases (LPMOs) produced by bacteria and fungi facilitate deconstruction as does the Fenton chemistry of brown-rot fungi. Lignin depolymerisation is achieved by white-rot fungi and certain bacteria, using peroxidases and laccases. Meta-omics is now revealing the complexity of prokaryotic degradative activity in lignocellulose-rich environments. Protists from termite guts and some oomycetes produce multiple lignocellulolytic enzymes. Lignocellulose-consuming animals secrete some GHs, but most harbour a diverse enzyme-secreting gut microflora in a mutualism that is particularly complex in termites. Shipworms however, house GH-secreting and LPMO-secreting bacteria separate from the site of digestion and the isopod Limnoria relies on endogenous enzymes alone. The omics revolution is identifying many novel enzymes and paradigms for biomass deconstruction, but more emphasis on function is required, particularly for enzyme cocktails, in which LPMOs may play an important role.


Subject(s)
Biocatalysis , Lignin/metabolism , Amino Acid Sequence , Animals , Archaea/chemistry , Archaea/enzymology , Archaea/metabolism , Bacteria/chemistry , Bacteria/enzymology , Bacteria/metabolism , Fungi/chemistry , Fungi/enzymology , Fungi/metabolism , Glycoside Hydrolases/chemistry , Glycoside Hydrolases/metabolism , Models, Molecular , Molecular Sequence Data , Polymerization , Sequence Alignment
14.
ISME J ; 9(12): 2712-24, 2015 Dec.
Article in English | MEDLINE | ID: mdl-25909976

ABSTRACT

The Amazonian catfish, Panaque nigrolineatus, consume large amounts of wood in their diets. The nitrogen-fixing community within the gastrointestinal (GI) tract of these catfish was found to include nifH phylotypes that are closely related to Clostridium sp., Alpha and Gammaproteobacteria, and sequences associated with GI tracts of lower termites. Fish fed a diet of sterilized palm wood were found to contain nifH messenger RNA within their GI tracts, displaying high sequence similarity to the nitrogen-fixing Bradyrhizobium group. Nitrogenase activity, measured by acetylene reduction assays, could be detected in freshly dissected GI tract material and also from anaerobic enrichment cultures propagated in nitrogen-free enrichment media; nifH sequences retrieved from these cultures were dominated by Klebsiella- and Clostridium-like sequences. Microscopic examination using catalyzed reporter deposition-enhanced immunofluorescence revealed high densities of nitrogenase-containing cells colonizing the woody digesta within the GI tract, as well as cells residing within the intestinal mucous layer. Our findings suggest that the P. nigrolineatus GI tract provides a suitable environment for nitrogen fixation that may facilitate production of reduced nitrogen by the resident microbial population under nitrogen limiting conditions. Whether this community is providing reduced nitrogen to the host in an active or passive manner and whether it is present in a permanent or transient relationship remains to be determined. The intake of a cellulose rich diet and the presence of a suitable environment for nitrogen fixation suggest that the GI tract microbial community may allow a unique trophic niche for P. nigrolineatus among fish.


Subject(s)
Bacteria/enzymology , Bacterial Proteins/metabolism , Catfishes/metabolism , Gastrointestinal Tract/microbiology , Nitrogenase/metabolism , Wood/metabolism , Animals , Bacteria/classification , Bacteria/genetics , Bacteria/isolation & purification , Bacterial Proteins/genetics , Catfishes/microbiology , Gastrointestinal Tract/metabolism , Molecular Sequence Data , Nitrogen Fixation/genetics , Nitrogenase/genetics , Phylogeny
15.
PLoS One ; 9(2): e84169, 2014.
Article in English | MEDLINE | ID: mdl-24586230

ABSTRACT

The Tudor warship the Mary Rose has reached an important transition point in her conservation. The 19 year long process of spraying with polyethylene glycol (PEG) has been completed (April 29(th) 2013) and the hull is air drying under tightly controlled conditions. Acidophilic bacteria capable of oxidising iron and sulfur have been previously identified and enriched from unpreserved timbers of the Mary Rose, demonstrating that biological pathways of iron and sulfur oxidization existed potentially in this wood, before preservation with PEG. This study was designed to establish if the recycled PEG spray system was a reservoir of microorganisms capable of iron and sulfur oxidization during preservation of the Mary Rose. Microbial enrichments derived from PEG impregnated biofilm collected from underneath the Mary Rose hull, were examined to better understand the processes of cycling of iron. X-ray absorption spectroscopy was utilised to demonstrate the biological contribution to production of sulfuric acid in the wood. Using molecular microbiological techniques to examine these enrichment cultures, PEG was found to mediate a shift in the microbial community from a co-culture of Stenotrophomonas and Brevunidimonas sp, to a co-culture of Stenotrophomonas and the iron oxidising Alicyclobacillus sp. Evidence is presented that PEG is not an inert substance in relation to the redox cycling of iron. This is the first demonstration that solutions of PEG used in the conservation of the Mary Rose are promoting the oxidation of ferrous iron in acidic solutions, in which spontaneous abiotic oxidation does not occur in water. Critically, these results suggest PEG mediated redox cycling of iron between valence states in solutions of 75% PEG 200 and 50% PEG 2000 (v/v) at pH 3.0, with serious implications for the future use of PEG as a conservation material of iron rich wooden archaeological artefacts.


Subject(s)
Archaeology , Bacteria/metabolism , Iron/metabolism , Oceans and Seas , Transportation , Acids/metabolism , Bacteria/classification , Bacteria/drug effects , Bacteria/genetics , Biodiversity , Cloning, Molecular , Dose-Response Relationship, Drug , Oxidation-Reduction/drug effects , Phylogeny , Polyethylene Glycols/pharmacology , Sulfur/metabolism , Wood/metabolism , Wood/microbiology
16.
PLoS One ; 9(1): e87339, 2014.
Article in English | MEDLINE | ID: mdl-24489900

ABSTRACT

Freshwater cyanophages are poorly characterised in comparison to their marine counterparts, however, the level of genetic diversity that exists in freshwater cyanophage communities is likely to exceed that found in marine environments, due to the habitat heterogeneity within freshwater systems. Many cyanophages are specialists, infecting a single host species or strain; however, some are less fastidious and infect a number of different host genotypes within the same species or even hosts from different genera. Few instances of host growth characterisation after infection by broad host-range phages have been described. Here we provide an initial characterisation of interactions between a cyanophage isolated from a freshwater fishing lake in the south of England and its hosts. Designated ΦMHI42, the phage is able to infect isolates from two genera of freshwater cyanobacteria, Planktothrix and Microcystis. Transmission Electron Microscopy and Atomic Force Microscopy indicate that ΦMHI42 is a member of the Podoviridae, albeit with a larger than expected capsid. The kinetics of host growth after infection with ΦMHI42 differed across host genera, species and strains in a way that was not related to the growth rate of the uninfected host. To our knowledge, this is the first characterisation of the growth of cyanobacteria in the presence of a broad host-range freshwater cyanophage.


Subject(s)
Microcystis/growth & development , Podoviridae/physiology , Water Microbiology , Fresh Water/virology , Host Specificity , Host-Pathogen Interactions , Microcystis/virology
17.
PLoS One ; 7(10): e48018, 2012.
Article in English | MEDLINE | ID: mdl-23133540

ABSTRACT

The Neotropical detritivorous catfish Panaque nigrolineatus imbibes large quantities of wood as part of its diet. Due to the interest in cellulose, hemi-cellulose and lignin degradation pathways, this organism provides an interesting model system for the detection of novel microbial catabolism. In this study, we characterize the microbial community present in different regions of the alimentary tract of P. nigrolineatus fed a mixed diet of date palm and palm wood in laboratory aquaria. Analysis was performed on 16S rRNA gene clone libraries derived from anterior and posterior regions of the alimentary tract and the auxiliary lobe (AL), an uncharacterized organ that is vascularly attached to the midgut. Sequence analysis and phylogenetic reconstruction revealed distinct microbial communities in each tissue region. The foregut community shared many phylotypes in common with aquarium tank water and included Legionella and Hyphomicrobium spp. As the analysis moved further into the gastrointestinal tract, phylotypes with high levels of 16S rRNA sequence similarity to nitrogen-fixing Rhizobium and Agrobacterium spp. and Clostridium xylanovorans and Clostridium saccharolyticum, dominated midgut and AL communities. However, the hindgut was dominated almost exclusively by phylotypes with the highest 16S rRNA sequence similarity to the Cytophaga-Flavobacterium-Bacteroides phylum. Species richness was highest in the foregut (Chao(1) = 26.72), decreased distally through the midgut (Chao(1) = 25.38) and hindgut (Chao(1) = 20.60), with the lowest diversity detected in the AL (Chao(1) = 18.04), indicating the presence of a specialized microbial community. Using 16S rRNA gene phylogeny, we report that the P. nigrolineatus gastrointestinal tract possesses a microbial community closely related to microorganisms capable of cellulose degradation and nitrogen fixation. Further studies are underway to determine the role of this resident microbial community in Panaque nigrolineatus.


Subject(s)
Catfishes/microbiology , Gastrointestinal Tract/microbiology , Algorithms , Animals , Cellulose/metabolism , Cloning, Molecular , DNA, Bacterial/metabolism , Lignin/metabolism , Phylogeny , RNA, Ribosomal, 16S/metabolism , Sequence Analysis, DNA , Tissue Distribution
18.
Appl Environ Microbiol ; 78(24): 8822-8, 2012 Dec.
Article in English | MEDLINE | ID: mdl-23023757

ABSTRACT

A 500-year-old unpreserved Mary Rose sample, historically containing an iron bolt, was analyzed using enrichment cultures and 16S sequencing. The novel community of bacteria present demonstrates a biological pathway of Fe and S oxidation and a range of acid-generating metabolisms, with implications for preservation and biogeochemical cycling.


Subject(s)
Bacteria/classification , Biota , Fossils , Wood/microbiology , Bacteria/genetics , Bacteria/growth & development , Bacteria/isolation & purification , Carboxylic Acids/metabolism , Cluster Analysis , DNA, Bacterial/chemistry , DNA, Bacterial/genetics , DNA, Ribosomal/chemistry , DNA, Ribosomal/genetics , Iron/metabolism , Metabolic Networks and Pathways/genetics , Molecular Sequence Data , Phylogeny , RNA, Ribosomal, 16S/genetics , Sequence Analysis, DNA , Sulfur/metabolism
19.
Water Res ; 45(13): 3899-907, 2011 Jul.
Article in English | MEDLINE | ID: mdl-21601905

ABSTRACT

Bioaugmentation is an attractive mechanism for reducing recalcitrant pollutants in sediments, especially if this technology could be applied in situ. To examine the potential effectiveness of a bioaugmentation strategy for PCB contamination, PCB dehalorespiring populations were inoculated into Baltimore Harbor sediment microcosms. A culture containing the two most predominant indigenous PCB dehalorespiring microorganisms and a culture containing a strain with a rare ortho dechlorination activity and a non-indigenous strain that attacks double-flanked chlorines, were inoculated into sediment microcosms amended with 2,2',3,5,5',6-hexachlorobiphenyl (PCB 151) and Aroclor 1260. Although we observed a similar reduction in the concentration of PCB 151 in all microcosms at day 300, a reduced lag time for dechlorination activity was observed only in the bioaugmented microcosms and the pattern of dechlorination was altered depending on the initial combination of microorganisms added. Dechlorination of Aroclor 1260 was most extensive when dehalorespiring microorganisms were added to sediment. Overall numbers of dehalorespiring microorganisms in both bioaugmented and non-bioaugmented microcosms increased 100- and 1000-fold with PCB 151 and Aroclor 1260, respectively, and they were sustained for the full 300 days of the experiments. The ability of bioaugmentation to redirect dechlorination reactions in the sediment microcosms indicates that the inoculated PCB dehalorespiring microorganisms effectively competed with the indigenous microbial populations and cooperatively enhanced or altered the specific pathways of PCB dechlorination. These observations indicate that bioaugmentation with PCB dehalorespiring microorganisms is a potentially tractable approach for in situ treatment of PCB impacted sites.


Subject(s)
Biodegradation, Environmental , Geologic Sediments/microbiology , Polychlorinated Biphenyls/metabolism , Aroclors/metabolism , Bacteria/classification , Bacteria/genetics , Bacteria/metabolism , Sequence Analysis, DNA
20.
Environ Sci Technol ; 40(18): 5704-9, 2006 Sep 15.
Article in English | MEDLINE | ID: mdl-17007129

ABSTRACT

Bacterium o-17, a microorganism capable of the ortho dechlorination of 2,3,5,6-polychlorinated biphenyl (PCB), is a member of a sediment-free, nonmethanogenic mixed culture. The culture was examined for the ability to dechlorinate 26 PCB congeners, 12 chlorobenzenes (CBZs), and 6 chlorinated ethenes (CEs). Eight of the PCBs and 4 of the CBZs were dechlorinated including single-flanked ortho PCB chlorines, but double-flanked chlorines of PCBs and CBZs were preferentially dechlorinated. The dechlorination of three of the PCBs (2,3,4,5,6-, 2,3,4,6-, and 2,3,5,6-PCB), three of the CBZs (hexa-, penta-, and 1,2,3-CBZ), and PCE could be sustained for three or more sequential transfers of the bacterial community. Two PCBs (2,3,4- and 2,3,5-PCB), two CBZs (1,2,3,5- and 1,2,4,5-CBZ), and trichloroethene were dechlorinated only when a more extensively chlorinated parent compound was present. Aroclor 1260 and 2,4,6-PCB, not dechlorinated by the culture, inhibited the dechlorination of 2,3,5,6-PCB. Within the culture only bacterium o-17 was linked to dechlorination by PCR-DGGE analysis, confirming that this dehalogenating species was the catalyst for the dechlorination of the compounds tested. The microorganism is capable of dechlorinating several different congeners of PCBs, CBZs, and CEs, and it remains a rare example of an ortho-PCB dechlorinator. However, its limited ability to dechlorinate more extensively chlorinated congeners and Aroclor plus the inhibitory effects of some PCB congeners upon the bacterium is consistent with the observed infrequency of this reaction in the environment. An assessment of bioremediation potential of this microorganism in situ will require a greater understanding of the synergistic, cometabolic and competitive interactions of PCB dechlorinating microbial communities.


Subject(s)
Bacteria/metabolism , Environmental Pollutants/metabolism , Polychlorinated Biphenyls/metabolism , Chlorobenzenes/chemistry , Chlorobenzenes/metabolism , Electrophoresis, Polyacrylamide Gel/methods , Environmental Pollutants/chemistry , Ethylenes/chemistry , Ethylenes/metabolism , Polychlorinated Biphenyls/chemistry , Polymerase Chain Reaction/methods
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