Fanghua Liu

Fanghua Liu
Chinese Academy of Sciences | CAS · Yantai Institute of Coastal Zone Research

Professor
Institute of Eco-environmental and Soil Sciences, Guangdong Academy of Sciences

About

92
Publications
20,284
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Introduction
I am interested with the mechanisms of microbial electron transfer. We found the direct interspecies electron transfer (DIET) between bacteria and methanogenenic archaea. During the studies of microbe-iron oxides electron transfer, conductive granular activated carbon (GAC) and magnetite nanoparticles can promote the electron transfer among the iron(III)-reducing bacteria and that magnetite nanoparticles could substitute for the function of a c-type cytochrome were revealed.
Additional affiliations
January 2011 - January 2013
University of Massachusetts Amherst
Position
  • PostDoc Position
January 2010 - December 2011
Max Planck Institute for Terrestrial Microbiology
January 2010 - December 2011
Max Planck Institute for Terrestrial Microbiology

Publications

Publications (92)
Article
Nano-scale magnetite can facilitate microbial extracellular electron transfer that plays an important role in biogeochemical cycles, bioremediation, and several bioenergy strategies, but the mechanisms for the stimulation of extracellular electron transfer are poorly understood. Further investigation revealed that magnetite attached to the electric...
Article
Full-text available
Granular activated carbon (GAC) is commonly added to methanogenic digesters to enhance conversion of wastes to methane, but the mechanism(s) for GAC's stimulatory effect are poorly understood. GAC has high electrical conductivity and thus it was hypothesized that one mechanism for GAC stimulation of methanogenesis might be to facilitate direct inte...
Article
Rice field soils contain a thermophilic microbial community. Incubation of Italian rice field soil at 50°C resulted in transient accumulation of acetate, but the microorganisms responsible for methane production from acetate are unknown. Without addition of exogenous acetate, the δ(13)C of CH(4) and CO(2) indicated that CH(4) was exclusively produc...
Article
Full-text available
Acetate oxidation in Italian rice field at 50 °C is achieved by uncultured syntrophic acetate oxidizers. As these bacteria are closely related to acetogens, they may potentially also be able to synthesize acetate chemolithoautotrophically. Labeling studies using exogenous H(2) (80%) and (13)CO(2) (20%), indeed demonstrated production of acetate as...
Article
To identify the bacterial and archaeal composition in a mesophilic biogas digester treating pig manure and to compare the consistency of two 16S rDNA-based methods to investigate the microbial structure. Sixty-nine bacterial operational taxonomic units (OTU) and 25 archaeal OTU were identified by sequencing two 16S rDNA clone libraries. Most bacter...
Article
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Extensive production and application of magnetic minerals introduces significant amounts of magnetic wastes into the environment. Exposure to magnetic minerals could affect microbial community composition and geographic distribution. Here, we report that magnetic susceptibility is involved in determining bacterial α-diversity and community composit...
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Resolving metabolisms of deep-sea microorganisms is crucial for understanding ocean energy cycling. Here, a strictly anaerobic, Gram-negative strain NS-1 was isolated from the deep-sea cold seep in the South China Sea. Phylogenetic analysis based on 16S rRNA gene sequence indicated that strain NS-1 was most closely related to the type strain Haloce...
Preprint
Extensive production and application of magnetic minerals produce significant amounts of magnetic wastes to the environment. These magnetic minerals exposure could affect microbial community composition and geographic distribution. Here, we reported magnetic susceptibility is involved in determining bacterial α-diversity and community composition i...
Article
Full-text available
Methanobacterium electrotrophus strain YSL was isolated from enriched microbial aggregates from a coastal riverine sediment sample from Shandong Province, China. The genome of YSL was sequenced with the PacBio Sequel platform and contained three plasmids in addition to the chromosome. A total of 2,521 protein-coding genes and 58 RNA genes were pred...
Article
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The archaeal phylum Woesearchaeota, within the DPANN superphylum, includes phylogenetically diverse microorganisms that inhabit various environments. Their biology is poorly understood due to the lack of cultured isolates. Here, we analyze datasets of Woesearchaeota 16S rRNA gene sequences and metagenome-assembled genomes to infer global distributi...
Article
Geobacter, as a typical electroactive microorganism, is the “engine” of interspecies electron transfer (IET) between microorganisms. However, it does not have a dominant position in all natural environments. It is not known what performs a similar function as Geobacter in coastal zones. Metagenomic and metatranscriptomic analysis revealed that Desu...
Article
The wide use of chloramphenicol and its residues in the environments are an increasing threat to human beings. Electroactive microorganisms were proven with the ability of biodegradation of chloramphenicol, but the removal rate and efficiency need to be improved. In this study, a model electricigens, Geobacter metallireducens, was supplied with and...
Article
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Climate change and energy demand are calling for more sustainable fuels such as biomethane produced by anaerobic digestion of organic waste. Biochar addition to waste is presumed to enhance the efficiency of methane production, yet individual reports disclose contradictory results. Therefore, we performed a meta-analysis of 27 selected publications...
Article
Biomethane produced by methanogenic archaea is a main greenhouse resource of terrestrial and marine ecosystems, which strongly affects the global environment change. Conductive materials, especially nano-scale, show considerable intervention on biomethane production potential, but the mechanism is still unclear. Herein, we precisely quantified the...
Preprint
Full-text available
Climate change and energy demand are calling more sustainable fuels such as biomethane produced by anaerobic digestion of organic waste. Biochar addition to waste is presumed to enhance the efficiency of methane production, yet individual reports disclose contradictory results. Therefore, we performed a meta-analysis of 27 selected publications con...
Article
Full-text available
Recycling waste into new materials and energy is becoming a major challenge in the context of the future circular economy, calling for advanced methods of waste treatment. For instance, microbially-mediated anaerobic digestion is widely used for conversion of sewage sludge into biomethane, fertilizers and other products, yet the efficiency of micro...
Article
Direct interspecies electron transfer (DIET) from bacteria to methanogens is a revolutionary concept for syntrophic metabolism in methanogenic soils/sediments and anaerobic digestion. Previous studies have indicated that the potential for DIET is limited to methanogens in the Methanosarcinales, leading to the assumption that an abundance of other t...
Article
Electroactive microorganisms and electrochemical technologies have been separately used for environmental remediation such as antibiotics removal, yet the efficiency of coupling these two methods for chlorinated antibiotics degradation is poorly known. Here we tested the synergy of Geobacter sulfurreducens PCA, an electroactive bacteria, and an ele...
Preprint
Full-text available
Background: Microbial spatial distribution has been widely investigated in sediment. However, there is poorly available information on microbial distribution patterns in sediment of Bohai Sea coastal zone. Results: Here, we investigated the bacterial community composition and diversity in riverine and marine surface sediment around and in the Bohai...
Chapter
A vast majority of electroactive microorganisms have evolved the ability to exchange electrons with diverse solid materials directly or indirectly, such as metallic oxides, other microbials, or electrode in the bioelectrochemical systems (BES). This process is known as extracellular electron transfer (EET) and has received plenty of attention becau...
Article
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Direct interspecies electron transfer (DIET) between electricigens and methanogens has been shown to favour methane production. Furthermore, DIET is accelerated by conductive materials. However, whether conductive materials can promote other methanogenic pathways is unclear due to a lack of detailed experimental data and the poor mechanistic studie...
Article
Direct interspecies electron transfer (DIET) has been considered as a novel and highly efficient strategy in both natural anaerobic envi-ronments and artificial microbial fuel cells. A syntrophic model consisting of Geobacter metallireducens and Geobacter sulfurre-ducens was studied in this work. We conducted in vivo molecular mapping of the outer...
Article
Methanogens are the major contributors of greenhouse gas methane and play significant roles in the degradation and transformation of organic matter. These organisms are particularly abundant in Swan Lake, which is a shallow lagoon located in Rongcheng Bay, Yellow Sea, northern China, where eutrophication from overfertilization commonly results in a...
Article
In this study, the hydrogen production of anaerobic sludge was investigated through heat treatment and with enrichment of hydrogen-producing microorganisms in the presence of nano-ferrihydrite. Hydrogen production and hydrogen yield peaked at 0.97 mmol and 2.55 mol H2/mol glucose in the batch experiment amended with nano-ferrihydrite. In contrast,...
Article
The influence of fermentative iron reduction on hydrogen-producing metabolism is rarely studied. In this study, the benefits of dissimilatory iron reduction with respect to dark fermentation hydrogen production were exploited by adding the iron hydroxide mineral ferrihydrite to a heat-shocked consortium. The results showed that ferrihydrite reducti...
Article
Rapid identification of marine pathogens is very important in marine ecology. Artificial intelligence combined with Raman spectroscopy is a promising choice for identifying marine pathogens due to its rapidity and efficiency. However, considering the cost of sample collection and the challenging nature of the experimental environment, only limited...
Article
Methane is a major greenhouse gas responsible of global warming and renewable energy, but the precise contribution of biomethane from microbial decomposition is vague because microbial mechanisms are not fully understood. CO2 reduction and direct acetate dismutation are two main pathways for biomethane production, accounting for ~1/3 and 2/3 of pro...
Article
Geobacter metallireducens GS15, a model of dissimilatory iron‐reducing bacteria, is the key regulator in biogeochemical iron cycling. How the emerging contaminant microplastics involved in the iron cycling are driven by microbes on the microscale remains unknown. Hence, the influences of two typical microplastics, polybutylene terephthalate‐hexane...
Article
Herein, a new peroxymonosulfate (PMS) activation system was established using a biochar (BC)-supported Co3O4 composite (Co3O4-BC) as a catalyst to enhance chloramphenicols degradation. The effects of the amount of Co3O4 load on the BC, Co3O4-BC amount, PMS dose and solution pH on the degradation of chloramphenicol (CAP) were investigated. The resul...
Article
Recent investigations demonstrate that some coastal wetlands are atmospheric methane sinks, but the regulatory mechanisms are not clear. Here, the main pathway and operator of methane oxidation in the Yellow River Delta (YRD) wetland, a methane source in the wet season but a methane sink in the dry season, were investigated. The anaerobic oxidation...
Article
Geobacter metallireducens is known to be capable of removing nitroaromatic compounds via an oxidation mode. However, little attention has been paid to investigate the reductive removal of chlorinated nitroaromatic compounds by G. metallireducens. In this study, G. metallireducens was used to reduce chloramphenicol (CAP), a typical chlorinated nitro...
Article
In situ liquid time-of-flight secondary ion mass spectrometry (ToF-SIMS) is a powerful technique to study surface characterization of living biofilms in hydrated conditions. However, ToF-SIMS data analysis is still a great challenge in complicated bacterial biofilms, because many interference peaks from the medium may result in inaccurate interpret...
Article
Full-text available
Rivers are the primary contributors of iron and other elements to the global oceans. Iron-reducing bacteria play an important biogeochemical role in coupling the iron and carbon redox cycles. However, the extent of changes in community structures and iron-reduction activities of iron-reducing bacteria in riverine and coastal marine sediments remain...
Article
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Cellulosomes are an extracellular supramolecular multienzyme complex that can efficiently degrade cellulose and hemicelluloses in plant cell walls. The structural and unique subunit arrangement of cellulosomes can promote its adhesion to the insoluble substrates, thus providing individual microbial cells with a direct competence in the utilization...
Article
Direct interspecies electron transfer coupled to CO2 reduction, DIET-CO2 reduction, to generate methane is proposed and prosperous in 2010s. It is well known that bioaugmentation and increased electron transfer benefit DIET-CO2 reduction. Herein, we studied whether other methanogenic pathways, such as H2-mediated methanogenic progress and direct ac...
Article
According to prior laboratory research evidence, the formation of a conductive secondary mineral to accelerate electron transfer is an important factor in methanogenesis. However, the promotion of methanogenesis by a secondary mineral is rarely found in the in situ terrestrial ecosystem. In this study, soil samples with a depth profile were collect...
Article
Conductive mineral nanoparticles, such as magnetite, can promote interspecies electron transfer between syntrophic partners. However, the effect of magnetite has only been inferred in intraspecific electron output. Herein, a hydrogen-producing strain, namely, Clostridium bifermentans, which holds several electron output pathways, was used to study...
Article
Methanogens are an important biogenic source of methane, especially in estuarine waters across a river-to-sea gradient. However, the diversity and trophic strategy of methanogens in this gradient are not clear. In this study, the diversity and trophic strategy of methanogens in sediments across the Yellow River (YR) to the Bohai Sea (BS) gradient w...
Article
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Methane (CH4) is a major greenhouse gas emitted by the industry, agriculture and natural processes such as degradation of organic matter in anaerobic waters and soils. Addition of biochars to soils has been investigated to control greenhouse gas emission, but actually there are still current conflicting views: do biochars promote or suppress greenh...
Article
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Antimony (Sb) pollution is a worldwide problem. In some anoxic sites, such as Sb mine drainage and groundwater sediment, the Sb concentration is extremely elevated. Therefore, effective Sb remediation strategies are urgently needed. In contrast to microbial aerobic antimonite [Sb(III)] oxidation, the mechanism of microbial anaerobic Sb(III) oxidati...
Article
Conductive materials/minerals can promote direct interspecies electron transfer (DIET) between syntrophic bacteria and methanogens in defined co-culture systems and artificial anaerobic digesters; however, little is known about the stimulation strategy of carbon material on methane production in natural environments. Herein, the effect of carbon cl...
Article
Biochar has been reported to facilitate direct interspecies electron transfer (DIET) in co-cultures between Geobacter metallireducens and Geobacter sulfurreducens, a model defined co-culture system. In this study, the biochar derived from the activated sludge with different pyrolysis temperature was added to the co-cultures, the ethanol metabolism...
Article
Full-text available
Background Magnetite-mediated direct interspecies electron transfer (DIET) between Geobacter and Methanosarcina species is increasingly being invoked to explain magnetite stimulation of methane production in anaerobic soils and sediments. Although magnetite-mediated DIET has been documented in defined co-cultures reducing fumarate or nitrate as the...
Data
Raw data for quantities of methane, ferrous iron, ethanol and acetate in co-cultures of G. metallireducens and M. barkeri with ethanol as the substrate in the presence or absence of magnetite
Data
Raw data for quantities of methane, ferrous iron, ethanol, and acetate in cultures in co-cultures of M. barkeri and a pilA-deficient G.metallireducens in the presence or absence of magnetite
Data
Raw data for quantities of ferrous iron in cultures of Geobacter metallireducens and Geobacter sulfurreducens in the presence of magnetite with ethanol and acetate as the substrates
Article
Magnetite-mediated direct interspecies electron transfer (DIET) can facilitate syntrophic metabolism in natural microbial communities and also promote the performance of the engineered systems based on syntrophic interactions. In this study, the stimulatory effect of bare synthetic magnetite (Mt), humic acid coated magnetite, and SiO2 coated magnet...
Article
Many electroactive microorganisms (EAMs) are known as dissimilatory iron-reducing bacteria (DIRB) which can access iron as an electron acceptor to transfer electrons during the process of respiration. Previous research has shown that magnetic susceptibility (χlf) could be used as an indicator of DIRB activities. However, the relationship between χl...
Article
Full-text available
Electromethanogenesis, which is different to traditional hydrogenotrophic and acetoclastic methanogenesis, is a novel means of methane production involving the direct transfer of electrons to methanogens. Nano-Fe3O4 (nano-magnetite) has been found to strengthen the link between electricity-producing bacteria and methanogens; however, whether nano-F...
Article
The aggregation of syntrophic Geobacter metallireducens and Geobacter sulfurreducens is beneficial for enhancing direct interspecies electron transfer (DIET). Although DIET was suspected to occur on the microbial community surface, the surface chemical speciation of such cocultured communities remains unclear. In order to better understand surface...
Article
Minerals that contain ferric iron, such as amorphous Fe(III) oxides (A), can inhibit methanogenesis by competitively accepting electrons. In contrast, ferric iron reduced products, such as magnetite (M), can function as electrical conductors to stimulate methanogenesis, however, the processes and effects of magnetite production and transformation i...
Article
Both activated carbon and magnetite have been reported to promote the syntrophic growth of Geobacter metallireducens and Geobacter sulfurreducens co-cultures, the first model to show direct interspecies electron transfer (DIET); however, differential transcriptomics of the promotion on co-cultures with these two conductive materials are unknown. He...
Article
Full-text available
Background: The phytopathogenic Xanthomonas campestris pv.campestris is a gram-negative bacterium and the causal agent of black-rot disease of cruciferous crops. Many gram-negative bacteria possess a family of proteins, called Dsbs, which are involved in disulfide bond formation in certain periplasmic proteins. In our preliminary screening of the...
Article
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The yeast Saccharomyces cerevisiae is capable of responding to various environmental stresses, such as salt stress. Such responses require a complex network and adjustment of the gene expression network. The goal of this study is to further understand the molecular mechanism of salt stress response in yeast, especially the molecular mechanism relat...
Article
Wetland-estuarine-marine environments are typical oxic/anoxic transition zones and have complex water flow-paths within the zone of mixing where freshwater interacts with ocean water. Little is known about the impact of this interaction on bacterial community structures or the relationship between bacterial community and geochemical factors in such...
Article
Atmospheric nitrogen deposition caused by human activities has been receiving much attention. Here, after long-term simulated ammonium and nitrate nitrogen deposition (NH4Cl, KNO3, and NH4NO3) in the Yellow River Delta (YRD), a sensitive coastal wetland ecosystem typified by a distinct wet and dry season, methane fluxes were measured, by adopting a...
Article
Bacterial quorum sensing signal molecules N-acyl homoserine lactones (AHLs) (C10-HSL, 3-OXO-C10-HSL and 3-OH-C10-HSL) as possible chemical cues were employed to investigate the role in the formation of fouling diatom-biofilm (Cylindrotheca sp.). Results showed that AHLs promoted Chlorophyll a (Chl.a) and extracellular polymeric substance (EPS) cont...
Article
Full-text available
Carbonic anhydrase (CA) plays an important role in the formation and evolution of life. However, to our knowledge, there has been no report on CA isoenzyme function differentiation in fungi. Two different CA gene sequences in Aspergillus nidulans with clear genetic background provide us a favorable basis for studying function differentiation of CA...
Data
Figure S1. XRD analysis of the solid phase of three types of minerals before and after CA dissolution experiments. a, c and e represents three types of minerals before CA dissolution experiments. b,d and f represent three types of minerals after CA dissolution experiments.