Skip to main content
MicrobiologyOpen logoLink to MicrobiologyOpen
. 2018 Jun 6;8(3):e00647. doi: 10.1002/mbo3.647

Enhancement of methanogenesis by electric syntrophy with biogenic iron‐sulfide minerals

Souichiro Kato 1,2,, Kensuke Igarashi 1
PMCID: PMC6436484  PMID: 29877051

Abstract

Recent studies have shown that interspecies electron transfer between chemoheterotrophic bacteria and methanogenic archaea can be mediated by electric currents flowing through conductive iron oxides, a process termed electric syntrophy. In this study, we conducted enrichment experiments with methanogenic microbial communities from rice paddy soil in the presence of ferrihydrite and/or sulfate to determine whether electric syntrophy could be enabled by biogenic iron sulfides. Although supplementation with either ferrihydrite or sulfate alone suppressed methanogenesis, supplementation with both ferrihydrite and sulfate enhanced methanogenesis. In the presence of sulfate, ferrihydrite was transformed into black precipitates consisting mainly of poorly crystalline iron sulfides. Microbial community analysis revealed that a methanogenic archaeon and iron‐ and sulfate‐reducing bacteria (Methanosarcina, Geobacter, and Desulfotomaculum, respectively) predominated in the enrichment culture supplemented with both ferrihydrite and sulfate. Addition of an inhibitor specific for methanogenic archaea decreased the abundance of Geobacter, but not Desulfotomaculum, indicating that Geobacter acquired energy via syntrophic interaction with methanogenic archaea. Although electron acceptor compounds such as sulfate and iron oxides have been thought to suppress methanogenesis, this study revealed that coexistence of sulfate and iron oxide can promote methanogenesis by biomineralization of (semi)conductive iron sulfides that enable methanogenesis via electric syntrophy.

Keywords: electric syntrophy, Geobacter, iron sulfide, Methanogenesis, Methanosarcina

1. INTRODUCTION

In anaerobic environments, where available energy sources are often restricted, a symbiotic relationship based on energy and electron transfer between multiple microbial species, specifically termed syntrophy, is a very important metabolic process. In particular, the syntrophic interaction between chemoheterotrophic bacteria and methanogenic archaea contributes greatly to CH4 production in diverse anaerobic environments and has a great influence on the global carbon cycle (Stams, 1994; Thauer, Kaster, Seedorf, Buckel, & Hedderich, 2008). In the syntrophic methanogenesis reaction, interspecies electron transfer (IET) from chemoheterotrophic bacteria to methanogenic archaea had been considered to occur only via diffusion of small molecules (e.g., H2 and formate) as electron carriers (Kato & Watanabe, 2010; Schink, 1997). Recent studies, however, have disclosed that IET can be mediated by electric currents flowing through conductive solid materials, a process that is specifically termed electric syntrophy or direct IET (Kato, 2015; Kouzuma, Kato, & Watanabe, 2015; Malvankar & Lovley, 2014). In addition to naturally occurring iron oxide minerals such as magnetite (Cruz Viggi et al., 2014; Kato, Hashimoto, & Watanabe, 2012a,2012b; Li et al., 2015; Liu et al., 2015; Yamada, Kato, Ueno, Ishii, & Igarashi, 2015; Zhuang, Tang, Wang, Hu, & Zhou, 2015), biological apparatus such as pili (Rotaru et al., 2014; Shrestha et al., 2013; Summers et al., 2010) and artificial conductive materials such as graphite (Chen et al., 2014), activated carbon (Liu et al., 2012; Rotaru et al., 2014), and carbon nanomaterials (Lin et al., 2017) have been reported as conduits of the electric currents that mediate syntrophy (reviewed in Cheng & Call, 2016; Lovley, 2017; Barua & Dhar, 2017). Because these studies have also pointed out that methanogenesis based on electric syntrophy is more efficient than methanogenesis based on diffusive transport of small molecules, supplementation with conductive particles has been proposed as a novel biotechnology for improvement of anaerobic wastewater treatment systems (Baek, Kim, & Lee, 2016; Dang et al., 2016; Sasaki et al., 2018; Zhao et al., 2016).

Most iron exists as divalent or trivalent minerals in natural environments. In anaerobic environments where methanogenesis occurs, divalent minerals such as iron sulfides predominate (Nielsen, Risgaard‐Petersen, Fossing, Christensen, & Sayama, 2010; Weber, Achenbach, & Coates, 2006). In such environments, iron sulfides are continuously formed via reduction in iron and sulfur compounds by dissimilatory iron‐reducing bacteria (DIRBs) and sulfate‐reducing bacteria (SRBs), respectively (Coleman, Hedrick, Lovley, White, & Pye, 1993; Flynn, O'Loughlin, Mishra, DiChristina, & Kemner, 2014; Gramp, Bigham, Jones, & Tuovinen, 2010; Igarashi & Kuwabara, 2014; Igarashi, Yamamura, & Kuwabara, 2016). It has been reported that iron sulfide minerals found in natural environments could have conductive (or semiconductive) properties (Malvankar, King, & Lovley, 2015; Nakamura et al., 2010; Yamamoto et al., 2017). Furthermore, it has been reported that biogenic iron sulfide minerals such as mackinawite produced by DIRB/SRB (e.g., Shewanella spp. and Desulfopila spp.) function as electrical conduits for long‐distance electron transfer (Enning et al., 2012; Kondo, Okamoto, Hashimoto, & Nakamura, 2015; Nakamura et al., 2010), as in the case of conductive iron oxide minerals (Kato, Hashimoto, & Watanabe, 2013; Kato, Kai, Nakamura, Watanabe, & Hashimoto, 2010; Nakamura, Kai, Okamoto, Newton, & Hashimoto, 2009). From these findings, we can assume that iron sulfide minerals may also mediate methanogenesis via electric syntrophy. However, electric syntrophy reactions dependent on (semi)conductive iron sulfides have not yet been experimentally demonstrated.

In this study, methanogenic microbial communities were enriched in the presence of sulfate and/or nonconductive, amorphous iron oxides (ferrihydrite). We then tested the hypothesis that biogenic iron sulfides enabled methanogenesis by mediating electric syntrophy. The experiments involved measurements of methanogenic activity, determination of mineral species formed, and investigation of microbial community structure in each enrichment culture.

2. EXPERIMENTAL PROCEDURES

2.1. Enrichment cultures

Methanogenic microbial communities were enriched in vials (68 ml in capacity) filled with 20 ml of an inorganic medium (PSN medium) supplemented with 20 mmol/L sodium acetate as described previously (Kato et al., 2012b). Fifty milligrams (wet weight) of rice paddy field soil was inoculated as a source of microorganisms. Ferrihydrite was prepared as described elsewhere (Lovley & Phillips, 1986) and was used to supplement +Fer and +Fer/SO42 cultures to give a final Fe concentration of 20 mmol/L. Sodium sulfate (final concentration, 10 mmol/L) was used to supplement +SO4 and +Fer/SO42 cultures. For the cultures of methanogenesis inhibition, bromoethane sulfonate (BES) (final concentration, 5 mmol/L) was added as a specific inhibitor of methanogenic archaea to the same medium used for the enrichment cultures. All cultures were incubated at 30°C without shaking under an atmosphere of N2/CO2 (80/20). CH4 and H2 in the gas phases were measured, using a gas chromatograph (GC‐2014, Shimadzu, Kyoto, Japan) as described previously (Kato, Sasaki, Watanabe, Yumoto, & Kamagata, 2014). At the early stationary phases, iron minerals were collected by centrifugation and were dried under N2 atmosphere in an anaerobic chamber (Vinyl Anaerobic Chambers Type C, Coy Laboratory Products, Grass Lake, MI). The X‐ray diffraction (XRD) and the X‐ray fluorescence (XRF) spectra of the iron minerals were obtained, using an X‐ray diffractometer (Ultima X, Rigaku, Tokyo, Japan) and X‐ray fluorescence spectrometer (SEA5120A, Hitachi High‐Technologies, Tokyo, Japan), respectively. The culture experiments were conducted in triplicate, and Student's t‐test was used to determine the significance of treatment effects.

2.2. Microbial community analysis

After five successive subcultures, enriched microorganisms were collected by centrifugation. DNA was extracted using the FAST DNA Spin Kit for soil (MP Biomedicals, Irvine, US) according to the manufacturer's instructions. Partial 16S rRNA gene fragments were amplified by PCR with a primer pair of 27F and 533R for bacteria and A25F and A958R for archaea, as described previously (Kato et al., 2010, 2015). PCR products were purified using a QIAquick PCR Purification Kit (QIAGEN, Hilden, Germany), ligated into pGEM‐T Easy Vector (Promega, Madison, US) and cloned into E. coli JM109 competent cells (Promega). Sequences of the cloned PCR products were determined at the Biomedical Center, TAKARA Bio (Kusatsu, Japan). The nucleotide sequence data reported here have been submitted to GenBank under Accession Nos. LC111538–LC111564.

2.3. Quantitative PCR

Quantitative real‐time PCR was performed using a LightCycler 96 real‐time PCR system (Roche, Basel, Switzerland) and THUNDERBIRD SYBR qPCR Mix (Toyobo, Osaka, Japan) according to the manufacturer's instructions. Table S3 lists the primers used for the qPCR analyses. After an initial denaturation at 95°C for 1 min, targets were amplified by 40 cycles of denaturation for 15 s at 95°C followed by annealing and extension for 45 s at 60°C. Fluorescence was measured at the end of the extension step. The PCR amplicons were assessed via a melting‐curve analysis to check for successful amplification. At least two separate trials were conducted for each DNA sample. Standard curves were generated with serially diluted PCR products amplified using the respective primer sets.

3. RESULTS AND DISCUSSION

3.1. Enrichments of methanogenic microbial communities with ferrihydrite and/or sulfate

Enrichment culture experiments were conducted to determine whether or not electric syntrophy could be mediated by biogenic iron sulfide minerals derived from simultaneous reduction in Fe(III) and sulfate. Cultures of methanogenic microbial communities from rice paddy field soil enriched with 20 mmol/L acetate as the sole energy and carbon sources and supplemented with both ferrihydrite (20 mmol/L as Fe) and sulfate (10 mmol/L) are hereafter referred to as the +Fer/SO42 enrichments. Enrichment cultures with no supplements or supplemented with either ferrihydrite or sulfate, but not both, were also conducted as controls. They are hereafter referred to as the Non, +Fer, and +SO42 enrichments, respectively. After five successive subcultures, the rate of CH4 production by each culture was measured (Figure 1). In the Non enrichment, approximately 17.6 mmol/L of CH4 was produced from 20 mmol/L acetate (Figure 1a), suggesting that methanogenesis was the major electron sink in the enrichment culture. Rates of CH4 production in the +Fer and +SO42 enrichments were significantly suppressed compared to the Non enrichment (Figure 1b). This observation is consistent with previous reports; the explanation is that DIRBs and SRBs outcompete methanogenic archaea for common substrates (e.g., acetate) (Achtnich, Bak, & Conrad, 1995; Chidthaisong & Conrad, 2000; Kato et al., 2012b; Lueders & Friedrich, 2002; Yamada, Kato, Ueno, Ishii, & Igarashi, 2014). In contrast, a significant enhancement of methanogenesis was observed in the +Fer/SO42 enrichment. These results clearly demonstrated that the presence of ferrihydrite and sulfate together enhanced methanogenesis, whereas the presence of either substrate alone did not. This result supports the hypothesis that electric syntrophy was mediated by biogenic iron sulfide minerals.

Figure 1.

Figure 1

Effects of supplementation with sulfate and/or iron oxides on methanogenic activities of cultures enriched with 20 mmol/L acetate as a substrate. (a) Time‐courses of CH4 production in the enrichments supplemented with no additives (Non), ferrihydrite (+Fer), sulfate (+SO42), and both ferrihydrite and sulfate (+Fer/SO42). (b) The maximum CH4 production rates calculated from the data in (a). Asterisks represent a significant difference (p < .05) from the Non enrichment. Data are presented as the means of three independent cultures, and error bars represent standard deviations

3.2. Analyses of the biomineralization products

During the +Fer/SO42 enrichment, ferrihydrite particles that were reddish brown in color turned into black precipitates (Figure 2a). The precipitates were collected from the +Fer/SO42 enrichment before and after cultivation, dried under anoxic conditions, and subjected to the XRF and the XRD analyses to identify the Fe species contained in the black precipitates. The XRF analysis showed that the black precipitates generated during the +Fer/SO42 enrichment contained more phosphorous and much more sulfur than the minerals recovered from samples before cultivation (Figure 2b), indicating that the black precipitates contained iron sulfide and minor amounts of phosphate minerals. The XRD analysis of the red–brown precipitate before cultivation showed only a broad peak characteristic of ferrihydrite (Figure 2b). In contrast, the black precipitate after cultivation showed, in addition to the broad ferrihydrite peak, several sharp peaks, an indication of significant alteration of the mineral phases. These peaks corresponded to siderite (FeCO3), an indication of microbial reduction in ferrihydrite into ferrous iron during cultivation. Although XRF analysis indicated the presence of iron sulfide in the black precipitate, XRD analysis failed to identify any peaks that corresponded to crystalline iron sulfide minerals. It is therefore likely that the iron sulfide in the black precipitates was amorphous or poorly crystalline species (Jeong, Lee, & Hayes, 2008). These results suggest that the black precipitate was a mixture of various mineral species, including amorphous iron sulfide, ferrihydrite, iron phosphate, and siderite. Among these mineral species, ferrihydrite, iron phosphate, and siderite are electrical insulators. On the other hand, it has been reported that some iron sulfide species have electric conductivity (Enning et al., 2012; Kondo et al., 2015; Nakamura et al., 2010). Especially, Enning et al. (2012) demonstrated electrical conductivity of biomineralization products generated by iron‐corrosive SRBs mainly consisting of amorphous iron sulfide. Collectively, it is supposed that amorphous iron sulfide confer electrical conductivity to the black precipitate in the +Fer/SO42 enrichment and mediate electric syntrophy.

Figure 2.

Figure 2

Biomineralization of iron sulfides in the enrichment culture supplemented with both ferrihydrite and sulfate. (a) Changes in color of minerals before and after cultivation. The X‐ray fluorescence (XRF) spectra (b) and the powder X‐ray diffraction (XRD) patterns (c) of the minerals taken before (orange line) and after (black line) cultivation. In (c), the reflection pattern of pure siderite (FeCO3) is shown under the sample patterns

3.3. Dominant microorganisms in the enrichment cultures

Clone library analysis of both the archaeal and bacterial 16S rRNA genes was conducted to determine the dominant microorganisms in the enrichment cultures. A phylotype was defined as a unique clone or a group of clones with sequence similarity >98%. All phylotypes obtained in this study are summarized in Tables S1 and S2. Only one archaeal phylotype (FeAcA001, 99% identity to Methanosarcina barkeri) was recovered from all the enrichment cultures (Table S1), and no other archaeal phylotype was recovered from any of the enrichment cultures. These results suggest that Methanosarcina spp. generated CH4 in all the enrichment cultures.

A total of 26 phylotypes were obtained from the clone library analysis targeting bacteria (Table S2). Figure 3 summarizes the relative abundances of the dominant phylotypes. The dominant bacteria in the cultures supplemented with ferrihydrite (i.e., the +Fer and +Fer/SO42 enrichments) were Geobacter spp., known as DIRBs (Figure 3, highlighted in red color). However, the Geobacter spp. that predominated in the +Fer and +Fer/SO42 enrichments were different at the phylotype level; the dominant Geobacter in the +Fer enrichment was phylotype FeAcB004 (98% identity to Geobacter psychrophilus), whereas the dominant Geobacter in the +Fer/SO42 enrichment were FeAcB003 (96% identity to Geobacter bemidjensis) and FeAcB006 (96% identity to Geobacter grbiciae). Because there have been no reports indicating that Geobacter spp. are capable of utilizing sulfate as an electron acceptor, it is unlikely that the observed difference in the dominant Geobacter types was simply due to the presence or absence of sulfate. Because previous reports have indicated that some Geobacter spp. are involved in electric syntrophy‐facilitated methanogenesis (Kato et al., 2012b; Morita et al., 2011; Rotaru et al., 2014, 2014), it is probable that the Geobacter spp. that dominated in the +Fer/SO42 enrichments (FeAcB003 and FeAcB006) contributed to syntrophic methanogenesis in addition to simple Fe(III) reduction.

Figure 3.

Figure 3

Phylogenetic distribution of bacterial 16S rRNA gene clones recovered from the enrichment cultures supplemented with no additives (Non), ferrihydrite (+Fer), sulfate (+SO42), and both ferrihydrite and sulfate (+Fer/SO42). The dominant phylotypes (>10% in at least one enrichment) and their closest relatives (sequence identity, %) are shown in the legends. The phylotypes closely related to Fe(III)‐reducing and sulfate‐reducing bacteria are highlighted in red and green, respectively

Dominance of SRBs was apparent in the cultures supplemented with sulfate (i.e., the +SO42 and +Fer/SO42 enrichments) (Figure 3, highlighted in green color). As was the case for Geobacter spp. in the ferrihydrite‐supplemented treatments, the dominant SRB types differed between the +SO42 and +Fer/SO42 enrichments: phylotype FeAcB005 (99% identity to Desulfovibrio carbinolicus) in the +SO4 enrichment and FeAcB015 (96% identity to Desulfotomaculum gibsoniae) in the +Fer/SO42 enrichment. There is no clear explanation for this observed difference in dominant SRB types. Because some SRB strains, including Desulfotomaculum spp., have been reported capable of reducing Fe(III) (Junier et al., 2009; Lovley, 1993), a difference in the availability of Fe(III) might have caused the changes in the SRB communities. Other plausible factors include a change in redox potential due to the presence of ferrihydrite, toxicity of ferrous ions, and a decrease in availability of acetate due to coexistence of Geobacter spp.

3.4. The effects of a methanogenic inhibitor on DIRBs and SRBs

In electric syntrophy‐facilitated methanogenesis, chemoheterotrophic bacteria and methanogenic archaea are in an interdependent relationship. The growth of chemoheterotrophic bacteria, which accompanies electric syntrophy, was therefore indirectly suppressed by a specific inhibitor of methanogenesis (Kato et al., 2012b). To identify microorganisms involved in electric syntrophy, each enrichment was further cultivated in the presence or absence of BES, a specific inhibitor of methanogens, and the abundances of total bacteria, archaea, and dominant DIRB and SRB species were measured via the quantitative PCR (qPCR) method (Figure 4).

Figure 4.

Figure 4

The abundances of archaea (a), bacteria (b), Geobacteraceae (c), Desulfovibrio (d), and Desulfotomaculum (e) in the enrichment cultures assessed via the qPCR method. (c–e) The relative abundances (%) were calculated as a relative ratio to the sum of total bacteria and total archaea. Asterisks represent a significant difference (p < .05) between results in the presence or absence of a methanogenesis inhibitor (5 mmol/L BES). Data are presented as the means of three independent cultures, and error bars represent standard deviations

Methane production was completely suppressed in the cultures supplemented with 5 mmol/L of BES (data not shown). Supplementation of BES reduced the abundance of total archaea to less than 5% of those in the BES‐free cultures (Figure 4a), suggesting that the growth of archaea was completely suppressed by BES, considering the inoculation size (5% v/v). In the absence of BES, the total bacterial abundances were significantly higher in the enrichments supplemented with ferrihydrite and/or sulfate than in the Non enrichment (Figure 4b). A significant decrease caused by BES supplementation was observed only in the Non enrichment; no significant effect was observed in other enrichments (Figure 4b). These results suggest that only archaea contributed to the decomposition of acetate in the Non enrichment, whereas both archaea and bacteria contributed under other conditions.

The abundance of Geobacter spp. (Figure 4c) was high under ferrihydrite‐supplemented conditions (the +Fer and +Fer/SO42 enrichments), a result consistent with the clone library analysis. The abundance of Geobacter spp. was not significantly affected by supplementation with BES in the +Fer enrichment, suggesting that Geobacter spp. acquired the energy required for growth via only Fe(III) reduction. By contrast, supplementation with BES significantly lowered the abundance of Geobacter spp. in the +Fer/SO42 enrichment. Under the BES‐supplemented conditions, Geobacter spp. can acquire energy only via Fe(III) reduction. The only possible explanation of the decrease in the abundance of Geobacter spp. by BES supplementation is that Geobacter spp. performed energy metabolisms dependent on the presence of methanogens, that is, electric syntrophy, in addition to Fe(III) reduction.

The results of qPCR analyses of the two types of SRBs were consistent with the clone library analyses; Desulfovibrio spp. were more abundant in the +SO42 enrichment, whereas Desulfotomaculum spp. were the major SRBs in the +Fer/SO42 enrichment (Figure 4d and e). Supplementation with BES did not significantly alter the abundance of Desulfovibrio and Desulfotomaculum, suggesting that these SRBs do not perform syntrophic metabolisms with methanogenic archaea; instead, they simply acquire energy through sulfate reduction.

3.5. Estimation of metabolic and electron flow in each enrichment culture

Based on the results obtained in this study, we estimated the metabolic reactions and electron flows occurring in each enrichment culture and the microbial species involved (Figure 5). In the Non enrichment, an aceticlastic methanogen, Methanosarcina spp., was thought to simply convert acetate to CH4 (Figure 5a). When ferrihydrite was supplemented (Figure 5b), the number of bacteria increased greatly, and Geobacter spp. became dominant (Figures 3 and 4). Geobacter spp. are thought to compete with methanogenic archaea for acetate, and such competition would result in a decrease in the rate of CH4 production (Figure 1). Supplementation with sulfate (Figure 5c) led to a dominance of SRBs, especially Desulfovibrio spp. (Figures 3 and 4). Similar to the results of the +Fer enrichment, competition between SRBs and methanogens could have caused the rate of CH4 production to decrease (Figure 1).

Figure 5.

Figure 5

Schematic illustration of the putative metabolic reactions, electron flows, and microbial species involved in each enrichment culture

In contrast, the metabolic flow and the microbial species involved dramatically changed when the medium was simultaneously supplemented with ferrihydrite and sulfate. Unlike the case of the +Fer and +SO42 enrichments, CH4 production was significantly enhanced in the +Fer/SO42 enrichment (Figure 1). Blackish minerals, mainly consisting of iron sulfides, were generated in the +Fer/SO42 enrichment culture (Figure 2). Microorganisms classified as both DIRB and SRB were predominant in the +Fer/SO42 enrichment (Figure 3). Notably, the dominant DIRB and SRB species in the +Fer/SO42 enrichment differed from those in the +Fer and +SO42 enrichments, respectively. Results of additional cultivation experiments with supplemental BES suggested that Geobacter spp. performed syntrophic metabolisms with methanogenic archaea (Figure 4c). Based on these observations, we concluded that the following metabolisms and electron flows would occur in the +Fer/SO42 enrichment (Figure 5d). Biomineralization of iron sulfides occurred via generation of ferrous iron and sulfides through reduction of ferrihydrite by Geobacter spp. (and possibly by Desulfotomaculum spp.) and reduction of sulfate by Desulfotomaculum spp., respectively. Geobacter spp. and Methanosarcina spp. then performed electric syntrophy with the biogenic iron sulfides as conduits to generate CH4. Methanogenesis based on electric syntrophy has been reported to be more efficient than the usual methanogenic processes (Cruz Viggi et al., 2014; Kato et al., 2012b; Li et al., 2015; Liu et al., 2015; Yamada et al., 2015; Zhuang et al., 2015), which could explain the increased rate of CH4 production in the +Fer/SO42 enrichment.

3.6. Conclusion

This study demonstrated for the first time that biogenic iron sulfide minerals can enable methanogenesis based on electric syntrophy. It has been reported that the existence of electron acceptor compounds such as sulfate and ferrihydrite inhibit methanogenesis (Achtnich et al., 1995; Chidthaisong & Conrad, 2000; Kato et al., 2012b; Lueders & Friedrich, 2002; Yamada et al., 2014). The results of this study suggest that methanogenesis can be promoted when sulfate and ferrihydrite coexist. Because iron sulfide minerals are ubiquitous in anaerobic environments, it is highly possible that electric syntrophy with iron sulfides contributes greatly to methanogenesis and also to carbon cycles in natural environments. Further investigation on the effects of iron sulfide minerals in natural environments and also experiments using model co‐cultures of Geobacter spp. and Methanosarcina spp. with synthetic iron sulfide species will shed light on the importance of iron sulfide minerals for the global methane flux.

CONFLICT OF INTEREST

The authors declare no conflict of interest.

Supporting information

 

ACKNOWLEDGMENTS

We thank Hiromi Ikebuchi and Asuka Tanaka for technical assistance. The XRD and XRF analyses were performed at the Innovation Booting Equipment Common (IBEC) Center of the National Institute of Advanced Industrial Science and Technology. This work was supported by Japan Society for the Promotion of Science KAKENHI Grant Number 16H06191.

Kato S, Igarashi K. Enhancement of methanogenesis by electric syntrophy with biogenic iron‐sulfide minerals. MicrobiologyOpen. 2019;8:e647 10.1002/mbo3.647

REFERENCES

  1. Achtnich, C. , Bak, F. , & Conrad, R. (1995). Competition for electron donors among nitrate reducers, ferric iron reducers, sulfate reducers, and methanogens in anoxic paddy soil. Biology and Fertility of Soils, 19, 65–72. 10.1007/BF00336349 [DOI] [Google Scholar]
  2. Baek, G. , Kim, J. , & Lee, C. (2016). A long‐term study on the effect of magnetite supplementation in continuous Methane fermentation of dairy effluent ‐ Enhancement in process performance and stability. Bioresource Technology, 222, 344–354. 10.1016/j.biortech.2016.10.019 [DOI] [PubMed] [Google Scholar]
  3. Barua, S. , & Dhar, B. R. (2017). Advances towards understanding and engineering direct interspecies electron transfer in anaerobic digestion. Bioresource Technology, 244, 698–707. 10.1016/j.biortech.2017.08.023 [DOI] [PubMed] [Google Scholar]
  4. Chen, S. , Rotaru, A. E. , Liu, F. , Philips, J. , Woodard, T. L. , Nevin, K. P. , & Lovley, D. R. (2014). Carbon cloth stimulates direct interspecies electron transfer in syntrophic co‐cultures. Bioresource Technology, 173, 82–86. 10.1016/j.biortech.2014.09.009 [DOI] [PubMed] [Google Scholar]
  5. Cheng, Q. , & Call, D. F. (2016). Hardwiring microbes via direct interspecies electron transfer: Mechanisms and applications. Environmental Science: Processes & Impacts, 18, 968–980. [DOI] [PubMed] [Google Scholar]
  6. Chidthaisong, A. , & Conrad, R. (2000). Turnover of glucose and acetate coupled to reduction of nitrate, ferric iron and sulfate and to methanogenesis in anoxic rice field soil. FEMS Microbiology Ecology, 31, 73–86. 10.1111/j.1574-6941.2000.tb00673.x [DOI] [PubMed] [Google Scholar]
  7. Coleman, M. L. , Hedrick, D. B. , Lovley, D. R. , White, D. C. , & Pye, K. (1993). Reduction of Fe(III) in sediments by sulphate‐reducing bacteria. Nature, 361, 436–438. 10.1038/361436a0 [DOI] [Google Scholar]
  8. Cruz Viggi, C. , Rossetti, S. , Fazi, S. , Paiano, P. , Majone, M. , & Aulenta, F. (2014). Magnetite particles triggering a faster and more robust syntrophic pathway of methanogenic propionate degradation. Environmental Science and Technology, 48, 7536–7543. 10.1021/es5016789 [DOI] [PubMed] [Google Scholar]
  9. Dang, Y. , Holmes, D. E. , Zhao, Z. , Woodard, T. L. , Zhang, Y. , Sun, D. , … Lovely, D. R. (2016). Enhancing methane fermentation of complex organic waste with carbon‐based conductive materials. Bioresource Technology, 220, 516–522. 10.1016/j.biortech.2016.08.114 [DOI] [PubMed] [Google Scholar]
  10. Enning, D. , Venzlaff, H. , Garrelfs, J. , Dinh, H. T. , Meyer, V. , Mayrhofer, K. , … Widdel, F. (2012). Marine sulfate‐reducing bacteria cause serious corrosion of iron under electroconductive biogenic mineral crust. Environmental Microbiology, 14, 1772–1787. 10.1111/j.1462-2920.2012.02778.x [DOI] [PMC free article] [PubMed] [Google Scholar]
  11. Flynn, T. M. , O'Loughlin, E. J. , Mishra, B. , DiChristina, T. J. , & Kemner, K. M. (2014). Sulfur‐mediated electron shuttling during bacterial iron reduction. Science, 344, 1039–1042. 10.1126/science.1252066 [DOI] [PubMed] [Google Scholar]
  12. Gramp, J. P. , Bigham, J. M. , Jones, F. S. , & Tuovinen, O. H. (2010). Formation of Fe‐sulfides in cultures of sulfate‐reducing bacteria. Journal of Hazardous Materials, 175, 1062–1067. 10.1016/j.jhazmat.2009.10.119 [DOI] [PubMed] [Google Scholar]
  13. Igarashi, K. , & Kuwabara, T. (2014). Fe(III) oxides protect fermenter‐methanogen syntrophy against interruption by elemental sulfur via stiffening of Fe(II) sulfides produced by sulfur respiration. Extremophiles, 18, 351–361. 10.1007/s00792-013-0620-y [DOI] [PubMed] [Google Scholar]
  14. Igarashi, K. , Yamamura, Y. , & Kuwabara, T. (2016). Natural synthesis of bioactive greigite by solid–gas reactions. Geochimica et Cosmochimica Acta, 191, 47–57. 10.1016/j.gca.2016.07.005 [DOI] [Google Scholar]
  15. Jeong, H. Y. , Lee, J. H. , & Hayes, K. F. (2008). Characterization of synthetic nanocrystalline mackinawite: Crystal structure, particle size, and specific surface area. Geochimica et Cosmochimica Acta, 72, 493–505. 10.1016/j.gca.2007.11.008 [DOI] [PMC free article] [PubMed] [Google Scholar]
  16. Junier, P. , Frutschi, M. , Wigginton, N. S. , Schofield, E. J. , Bargar, J. R. , & Bernier‐Latmani, R. (2009). Metal reduction by spores of Desulfotomaculum reducens . Environmental Microbiology, 11, 3007–3017. 10.1111/j.1462-2920.2009.02003.x [DOI] [PubMed] [Google Scholar]
  17. Kato, S. (2015). Biotechnological aspects of microbial extracellular electron transfer. Microbes and Environments, 30, 133–139. 10.1264/jsme2.ME15028 [DOI] [PMC free article] [PubMed] [Google Scholar]
  18. Kato, S. , Chino, K. , Kamimura, N. , Masai, E. , Yumoto, I. , & Kamagata, Y. (2015). Methanogenic degradation of lignin‐derived monoaromatic compounds by microbial enrichments from rice paddy field soil. Scientific Reports, 5, 14295 10.1038/srep14295 [DOI] [PMC free article] [PubMed] [Google Scholar]
  19. Kato, S. , Hashimoto, K. , & Watanabe, K. (2012a). Microbial interspecies electron transfer via electric currents through conductive minerals. Proceedings of the National Academy of Sciences of the United States of America, 109, 10042–10046. 10.1073/pnas.1117592109 [DOI] [PMC free article] [PubMed] [Google Scholar]
  20. Kato, S. , Hashimoto, K. , & Watanabe, K. (2012b). Methanogenesis facilitated by electric syntrophy via (semi)conductive iron‐oxide minerals. Environmental Microbiology, 14, 1646–1654. 10.1111/j.1462-2920.2011.02611.x [DOI] [PubMed] [Google Scholar]
  21. Kato, S. , Hashimoto, K. , & Watanabe, K. (2013). Iron‐oxide minerals affect extracellular electron‐transfer paths of Geobacter spp. Microbes and Environments, 28, 141–148. 10.1264/jsme2.ME12161 [DOI] [PMC free article] [PubMed] [Google Scholar]
  22. Kato, S. , Kai, F. , Nakamura, R. , Watanabe, K. , & Hashimoto, K. (2010). Respiratory interactions of soil bacteria with (semi)conductive iron‐oxide minerals. Environmental Microbiology, 12, 3114–3123. 10.1111/j.1462-2920.2010.02284.x [DOI] [PubMed] [Google Scholar]
  23. Kato, S. , Sasaki, K. , Watanabe, K. , Yumoto, I. , & Kamagata, Y. (2014). Physiological and transcriptomic analyses of a thermophilic, aceticlastic methanogen Methanosaeta thermophila responding to ammonia stress. Microbes and Environments, 29, 162–167. 10.1264/jsme2.ME14021 [DOI] [PMC free article] [PubMed] [Google Scholar]
  24. Kato, S. , & Watanabe, K. (2010). Ecological and evolutionary interactions in syntrophic methanogenic consortia. Microbes and Environments, 25, 145–151. 10.1264/jsme2.ME10122 [DOI] [PubMed] [Google Scholar]
  25. Kondo, K. , Okamoto, A. , Hashimoto, K. , & Nakamura, R. (2015). Sulfur‐mediated electron shuttling sustains microbial long‐distance extracellular electron transfer with the aid of metallic iron sulfides. Langmuir, 31, 7427–7434. 10.1021/acs.langmuir.5b01033 [DOI] [PubMed] [Google Scholar]
  26. Kouzuma, A. , Kato, S. , & Watanabe, K. (2015). Microbial interspecies interactions: Recent findings in syntrophic consortia. Frontiers in Microbiology, 6, 477. [DOI] [PMC free article] [PubMed] [Google Scholar]
  27. Li, H. , Chang, J. , Liu, P. , Fu, L. , Ding, D. , & Lu, Y. (2015). Direct interspecies electron transfer accelerates syntrophic oxidation of butyrate in paddy soil enrichments. Environmental Microbiology, 17, 1533–1547. 10.1111/1462-2920.12576 [DOI] [PubMed] [Google Scholar]
  28. Lin, R. , Cheng, J. , Zhang, J. , Zhou, J. , Cen, K. , & Murphy, J. D. (2017). Boosting biomethane yield and production rate with graphene: The potential of direct interspecies electron transfer in anaerobic digestion. Bioresource Technology, 239, 345–352. 10.1016/j.biortech.2017.05.017 [DOI] [PubMed] [Google Scholar]
  29. Liu, F. , Rotaru, A. E. , Shrestha, P. M. , Malvankar, N. S. , Nevin, K. P. , & Lovley, D. R. (2012). Promoting direct interspecies electron transfer with activated carbon. Energy & Environmental Science, 5, 8982–8989. 10.1039/c2ee22459c [DOI] [Google Scholar]
  30. Liu, F. , Rotaru, A. E. , Shrestha, P. M. , Malvankar, N. S. , Nevin, K. P. , & Lovley, D. R. (2015). Magnetite compensates for the lack of a pilin‐associated c‐type cytochrome in extracellular electron exchange. Environmental Microbiology, 17, 648–655. 10.1111/1462-2920.12485 [DOI] [PubMed] [Google Scholar]
  31. Lovley, D. R. (1993). Enzymatic iron and uranium reduction by sulfate‐reducing bacteria. Marine Geology, 113, 41–53. 10.1016/0025-3227(93)90148-O [DOI] [Google Scholar]
  32. Lovley, D. R. (2017). Syntrophy goes electric: Direct interspecies electron transfer. Annual Review of Microbiology, 71, 643–664. 10.1146/annurev-micro-030117-020420 [DOI] [PubMed] [Google Scholar]
  33. Lovley, D. R. , & Phillips, E. J. (1986). Organic matter mineralization with reduction of ferric iron in anaerobic sediments. Applied and Environment Microbiology, 51, 683–689. [DOI] [PMC free article] [PubMed] [Google Scholar]
  34. Lueders, T. , & Friedrich, M. W. (2002). Effects of amendment with ferrihydrite and gypsum on the structure and activity of methanogenic populations in rice field soil. Applied and Environment Microbiology, 68, 2484–2494. 10.1128/AEM.68.5.2484-2494.2002 [DOI] [PMC free article] [PubMed] [Google Scholar]
  35. Malvankar, N. S. , King, G. M. , & Lovley, D. R. (2015). Centimeter‐long electron transport in marine sediments via conductive minerals. ISME Journal, 9, 527–531. 10.1038/ismej.2014.131 [DOI] [PMC free article] [PubMed] [Google Scholar]
  36. Malvankar, N. S. , & Lovley, D. R. (2014). Microbial nanowires for bioenergy applications. Current Opinion in Biotechnology, 27, 88–95. 10.1016/j.copbio.2013.12.003 [DOI] [PubMed] [Google Scholar]
  37. Morita, M. , Malvankar, N. S. , Franks, A. E. , Summers, Z. M. , Giloteaux, L. , Rotaru, A. E. , … Lovley, D. R. (2011). Potential for direct interspecies electron transfer in methanogenic wastewater digester aggregates. mBio, 2, e00159–11. [DOI] [PMC free article] [PubMed] [Google Scholar]
  38. Nakamura, R. , Kai, F. , Okamoto, A. , Newton, G. J. , & Hashimoto, K. (2009). Self‐constructed electrically conductive bacterial networks. Angewandte Chemie International Edition, 48, 508–511. 10.1002/anie.200804750 [DOI] [PubMed] [Google Scholar]
  39. Nakamura, R. , Okamoto, A. , Tajima, N. , Newton, G. J. , Kai, F. , Takashima, T. , & Hashimoto, K. (2010). Biological iron‐monosulfide production for efficient electricity harvesting from a deep‐sea metal‐reducing bacterium. ChemBioChem, 11, 643–645. 10.1002/cbic.200900775 [DOI] [PubMed] [Google Scholar]
  40. Nakamura, R. , Takashima, T. , Kato, S. , Takai, K. , Yamamoto, M. , & Hashimoto, K. (2010). Electrical current generation across a black smoker chimney. Angewandte Chemie International Edition, 49, 7692–7694. 10.1002/anie.201003311 [DOI] [PubMed] [Google Scholar]
  41. Nielsen, L. P. , Risgaard‐Petersen, N. , Fossing, H. , Christensen, P. B. , & Sayama, M. (2010). Electric currents couple spatially separated biogeochemical processes in marine sediment. Nature, 463, 1071–1074. 10.1038/nature08790 [DOI] [PubMed] [Google Scholar]
  42. Rotaru, A. E. , Shrestha, P. M. , Liu, F. , Markovaite, B. , Chen, S. , Nevin, K. P. , & Lovley, D. R. (2014). Direct interspecies electron transfer between Geobacter metallireducens and Methanosarcina barkeri . Applied and Environment Microbiology, 80, 4599–4605. 10.1128/AEM.00895-14 [DOI] [PMC free article] [PubMed] [Google Scholar]
  43. Rotaru, A. E. , Shrestha, P. M. , Liu, F. , Shrestha, M. , Shrestha, D. , Embree, M. , … Lovley, D. R. (2014). A new model for electron flow during anaerobic digestion: Direct interspecies electron transfer to Methanosaeta for the reduction of carbon dioxide to methane. Energy & Environmental Science, 7, 408–415. 10.1039/C3EE42189A [DOI] [Google Scholar]
  44. Sasaki, K. , Sasaki, D. , Kamiya, K. , Nakanishi, S. , Kondo, A. , & Kato, S. (2018). Electrochemical biotechnologies minimizing the required electrode assemblies. Current Opinion in Biotechnology, 50, 182–188. 10.1016/j.copbio.2018.01.016 [DOI] [PubMed] [Google Scholar]
  45. Schink, B. (1997). Energetics of syntrophic cooperation in methanogenic degradation. Microbiology and Molecular Biology Reviews, 61, 262–280. [DOI] [PMC free article] [PubMed] [Google Scholar]
  46. Shrestha, P. M. , Rotaru, A. E. , Aklujkar, M. , Liu, F. , Shrestha, M. , Summers, Z. , … Lovley, D. R. (2013). Syntrophic growth with direct interspecies electron transfer as the primary mechanism for energy exchange. Environmental Microbiology Reports, 5, 904–910. 10.1111/1758-2229.12093 [DOI] [PubMed] [Google Scholar]
  47. Stams, A. J. (1994). Metabolic interactions between anaerobic bacteria in methanogenic environments. Antonie van Leeuwenhoek, 66, 271–294. 10.1007/BF00871644 [DOI] [PubMed] [Google Scholar]
  48. Summers, Z. M. , Fogarty, H. E. , Leang, C. , Franks, A. E. , Malvankar, N. S. , & Lovley, D. R. (2010). Direct exchange of electrons within aggregates of an evolved syntrophic coculture of anaerobic bacteria. Science, 330, 1413–1415. 10.1126/science.1196526 [DOI] [PubMed] [Google Scholar]
  49. Thauer, R. K. , Kaster, A. K. , Seedorf, H. , Buckel, W. , & Hedderich, R. (2008). Methanogenic archaea: Ecologically relevant differences in energy conservation. Nature Reviews Microbiology, 6, 579–591. 10.1038/nrmicro1931 [DOI] [PubMed] [Google Scholar]
  50. Weber, K. A. , Achenbach, L. A. , & Coates, J. D. (2006). Microorganisms pumping iron: Anaerobic microbial iron oxidation and reduction. Nature Reviews Microbiology, 4, 752–764. 10.1038/nrmicro1490 [DOI] [PubMed] [Google Scholar]
  51. Yamada, C. , Kato, S. , Ueno, Y. , Ishii, M. , & Igarashi, Y. (2014). Inhibitory effects of ferrihydrite on a thermophilic methanogenic community. Microbes and Environments, 29, 227–230. 10.1264/jsme2.ME14026 [DOI] [PMC free article] [PubMed] [Google Scholar]
  52. Yamada, C. , Kato, S. , Ueno, Y. , Ishii, M. , & Igarashi, Y. (2015). Conductive iron oxides accelerate thermophilic methanogenesis from acetate and propionate. Journal of Bioscience and Bioengineering, 119, 678–682. 10.1016/j.jbiosc.2014.11.001 [DOI] [PubMed] [Google Scholar]
  53. Yamamoto, M. , Nakamura, R. , Kasaya, T. , Kumagai, H. , Suzuki, K. , & Takai, K. (2017). Spontaneous and widespread electricity generation in natural deep‐sea hydrothermal fields. Angewandte Chemie International Edition, 56, 5725–5728. 10.1002/anie.201701768 [DOI] [PubMed] [Google Scholar]
  54. Zhao, Z. , Zhang, Y. , Holmes, D. E. , Dang, Y. , Woodard, T. L. , Nevin, K. P. , & Lovley, D. R. (2016). Potential enhancement of direct interspecies electron transfer for syntrophic metabolism of propionate and butyrate with biochar in up‐flow anaerobic sludge blanket reactors. Bioresource Technology, 209, 148–156. 10.1016/j.biortech.2016.03.005 [DOI] [PubMed] [Google Scholar]
  55. Zhuang, L. , Tang, J. , Wang, Y. , Hu, M. , & Zhou, S. (2015). Conductive iron oxide minerals accelerate syntrophic cooperation in methanogenic benzoate degradation. Journal of Hazardous Materials, 293, 37–45. 10.1016/j.jhazmat.2015.03.039 [DOI] [PubMed] [Google Scholar]

Associated Data

This section collects any data citations, data availability statements, or supplementary materials included in this article.

Supplementary Materials

 


Articles from MicrobiologyOpen are provided here courtesy of Wiley

RESOURCES