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Electron Donor Utilization and Secondary Mineral Formation during the Bioreduction of Lepidocrocite by Shewanella putrefaciens CN32
Open accessAbstract
The bioreduction of Fe(III) oxides by dissimilatory iron reducing bacteria (DIRB) may result in the production of a suite of Fe(II)-bearing secondary minerals, including magnetite, siderite, vivianite, green rusts, and chukanovite; the formation of specific phases controlled by the interaction of various physiological and geochemical factors. In an effort to better understand the effects of individual electron donors on the formation of specific Fe(II)-bearing secondary minerals, we examined the effects of a series of potential electron donors on the bioreduction of lepidocrocite (γ-FeOOH) by Shewanella putrefaciens CN32. Biomineralization products were identified by X-ray diffraction, Mössbauer spectroscopy, and scanning electron microscopy. Acetate, citrate, ethanol, glucose, glutamate, glycerol, malate, and succinate were not effectively utilized for the bioreduction of lepidocrocite by S. putrefaciens CN32; however, substantial Fe(II) production was observed when formate, lactate, H2, pyruvate, serine, or N acetylglucosamine (NAG) was provided as an electron donor. Carbonate or sulfate green rust was the dominant Fe(II)-bearing secondary mineral when formate, H2, lactate, or NAG was provided, however, siderite formed with pyruvate or serine. Geochemical modeling indicated that pH and carbonate concentration are the key factors determining the prevalence of carbonate green rust verses siderite.
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TL;DR
This study tested 17 potential electron donors for lepidocrocite bioreduction by *Shewanella putrefaciens* CN32 and found that only H₂, formate, lactate, pyruvate, serine, and NAG supported substantial Fe(II) production. The dominant Fe(II)-bearing secondary minerals were green rust (with H₂, formate, lactate, or NAG) or siderite (with pyruvate or serine), with pH and carbonate concentration controlling the green rust-versus-siderite outcome.
Key findings
- In the donor survey, no exogenous donor produced only 3.6 mM Fe(II) after 72 days; acetate, alanine, citrate, ethanol, glucose, glutamate, glycerol, glycine, malate, propionate, and succinate gave <7 mM Fe(II), whereas formate produced 58 mM, lactate 57 mM, H₂ 18 mM, NAG 61 mM, pyruvate 57 mM, and serine 58 mM.
- Final Fe(II)ₜₒₜ values included formate/chloride 57.6 ± 0.2 mM, lactate/chloride 56.4 ± 0.8 mM, NAG/chloride 61.4 ± 4.4 mM, pyruvate/chloride 57.3 ± 1.5 mM, serine/chloride 58.1 ± 1.8 mM, and H₂/chloride 8.5 ± 0.6 mM, H₂/sulfate 12.6 ± 2.3 mM, H₂/carbonate 16.0 ± 0.6 mM.
- Carbonate or sulfate green rust was the dominant secondary mineral with formate, H₂, lactate, or NAG; siderite formed with pyruvate or serine; NAG systems contained green rust plus minor siderite (<30% of Fe(II)). Magnetite, vivianite, and chukanovite were not observed.
- Geochemical modeling indicated pH and carbonate concentration are key: at a[HCO₃⁻] = 10⁻⁶, siderite is not stable; increasing a[HCO₃⁻] increases the siderite stability field and shifts carbonate green rust and ferrous hydroxide to higher pH.
Methods
- Batch serum-bottle experiments used sterile defined mineral medium with 80 mM lepidocrocite, 75 mM electron donor, 100 µM AQDS, and *S. putrefaciens* CN32 at 5 × 10⁹ cells mL⁻¹, incubated at 30 °C in the dark in triplicate; selected donors were tested with 25 mM NaCl or Na₂SO₄, and H₂ systems used H₂ headspace with or without Pd catalyst.
- Fe(II) was measured by ferrozine assay after 0.75 M HCl extraction; pH and electron donors were monitored, and solids were analyzed by powder X-ray diffraction, ⁵⁷Fe Mössbauer spectroscopy, and scanning electron microscopy.
- Geochemical models were built with The Geochemist’s Workbench (Act2/React) to generate Eh-pH diagrams using thermodynamic data for lepidocrocite, carbonate green rust, and ferrous hydroxycarbonate.
Limitations
- Stated in the paper: HCO₃⁻ concentrations were not measured directly, serine concentrations could not be measured, and Mössbauer quantitation was not possible for some samples (pyruvate/serine and some H₂ systems).
- Evident from the text: the study uses a single bacterial strain (*S. putrefaciens* CN32) and a single Fe(III) oxide (lepidocrocite) in defined laboratory media with AQDS, so generalization to natural communities and other minerals is uncertain.
- Evident from the text: the limited Fe(III) reduction with H₂ was not fully explained despite H₂ replenishment, reinoculation, and an abiotic H₂/Pd/AQDS control, and the carbonate control on mineralogy is inferred from modeling rather than direct carbonate measurements.
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- Findingown data
Significantly greater Fe(II) production was observed in systems amended with formate (58 mM), lactate (57 mM), H2 (18 mM), NAG (61 mM), pyruvate (57 mM), and serine (58 mM).
“Significantly greater Fe(II) production was observed in systems amended with formate (58 mM), lactate (57 mM), H 2 , (18 mM), NAG (61 mM), pyruvate (57 mM), and serine (58 mM)”
Quote in the paperSubstantial claim - Findingown data
Geochemical modeling indicated that pH and carbonate concentration are key factors determining the prevalence of carbonate green rust versus siderite.
“Geochemical modeling indicated that pH and carbonate concentration are the key factors determining the prevalence of carbonate green rust verses siderite.”
Quote in the paperSubstantial claim- Rests on an assumption: The calculated range of possible bicarbonate activities represents the conditions in the experiments.
- Findingown data
Carbonate or sulfate green rust was the dominant Fe(II)-bearing secondary mineral when formate, H2, lactate, or NAG was provided as an electron donor.
“Carbonate or sulfate green rust was the dominant Fe(II)-bearing secondary mineral when formate, H 2 , lactate, or NAG was provided”
Quote in the paperSubstantial claim - Findingown data
Substantial Fe(II) production was observed when formate, lactate, H2, pyruvate, serine, or NAG was provided as an electron donor to S. putrefaciens CN32 with lepidocrocite.
“substantial Fe(II) production was observed when formate, lactate, H 2 , pyruvate, serine, or N acetylglucosamine (NAG) was provided as an electron donor”
Quote in the paperSubstantial claim - Findingown data
Systems amended with acetate, alanine, citrate, ethanol, glucose, glutamate, glycerol, glycine, malate, propionate, or succinate showed slightly higher Fe(II) production (<7 mM).
“Systems amended with acetate, alanine, citrate, ethanol, glucose, glutamate, glycerol, glycine, malate, propionate, or succinate showed slightly higher levels of Fe(II) production (<7 mM).”
Quote in the paperNot a substantial claim
- Findingown data
Siderite formed when pyruvate or serine was provided as an electron donor.
“siderite formed with pyruvate or serine”
Quote in the paperSubstantial claim - Findingown data
Fe(II) production by S. putrefaciens CN32 was essentially immediate with H2 as the electron donor.
“Fe(II) production by S. putrefaciens CN32 was essentially immediate with H2 as the electron donor”
Quote in the paperNot a substantial claim - Findingown data
Carbonate green rust was the only secondary mineral observed in the chloride-amended lactate system.
“Carbonate green rust was the only secondary mineral observed in the chloride-amended system (Figure 8)”
Quote in the paperNot a substantial claim - Findingown data
In this study, specific electron donors lead to formation of specific Fe(II)-bearing secondary minerals during DIR of lepidocrocite by S. putrefaciens CN32.
“Likewise, in this study we observe that specific electrons donors lead to the formation specific Fe(II)-bearing secondary minerals during DIR of lepidocrocite by S. putrefaciens CN32.”
Quote in the paperSubstantial claim - Findingown data
Green rust crystallites in the sulfate-amended lactate system were exceptionally wide (up to 50 μm), thin hexagonal plates with very well-formed edges.
“The green rust crystallites in the sulfate-amended system were exceptionally wide (up to 50 µm), thin hexagonal plates with very well-formed edges (Figure 4F).”
Quote in the paperNot a substantial claim - Findingown data
Siderite in pyruvate systems was present as anhedral to subhedral imperfect rhombohedral crystallites, typically 1-3 μm and often highly aggregated/cemented.
“Siderite was present as anhedral to subhedral imperfect rhombohedral crystallites, typically 1-3 µm and often highly aggregated/cemented (Figure 11C).”
Quote in the paperNot a substantial claim - Findingown data
In serine systems, final pH values were 8.2 and 8.5 in chloride- and sulfate-amended systems, respectively.
“with final pH values of 8.2 and 8.5 in the chloride-and sulfate-amended systems, respectively.”
Quote in the paperNot a substantial claim - Findingown data
Carbonate green rust was the only secondary mineral observed in the chloride-amended formate system.
“Carbonate green rust was the only secondary mineral observed in the chloride-amended system (Figure 6)”
Quote in the paperNot a substantial claim - Findingown data
In our experimental systems, siderite was observed as the sole secondary mineral in pyruvate- and serine-amended systems.
“In our experimental systems, siderite was observed as the sole secondary mineral in pyruvate-and serine-amended systems (note, as discussed above, serine is likely converted to pyruvate by S. putrefaciens CN32).”
Quote in the paperSubstantial claim - Findingown data
Lactate consumption was concurrent with Fe(II) and acetate production.
“Lactate consumption was concurrent with Fe(II) and acetate production.”
Quote in the paperNot a substantial claim - Findingown data
Green rust particles in the sulfate-amended formate system were highly irregular in width and crystal edge morphology, unlike the generally well-formed crystallites in the chloride-amended system.
“Unlike the generally well-formed crystallites in the chloride-amended system, the green rust particles in the sulfate-amended system were highly irregular, both in terms of width as well as the morphology of the crystal edges (Figure 4D).”
Quote in the paperNot a substantial claim - Findingown data
In both serine systems, solids at conclusion consisted of residual lepidocrocite and siderite.
“In both systems the solids at the conclusion of the experiment consisted of residual lepidocrocite and siderite (Table 2 and Figure 13).”
Quote in the paperNot a substantial claim - Findingown data
Green rust was the only secondary mineral identified by pXRD and Mössbauer spectroscopy in H2 systems.
“Green rust was the only secondary mineral identified by pXRD and Mössbauer spectroscopy (Tables 2 and 3, Figure 3).”
Quote in the paperNot a substantial claim - Findingnone given
In all H2 systems the pH increased commensurate with the extent of Fe(II) production.
“In all systems the pH increased commensurate with the extent of Fe(II) production.”
Quote in the paperNot a substantial claim - Findingown data
Geochemical modeling indicates that pH and carbonate concentration are the key factors determining the prevalence of carbonate green rust versus siderite.
“Geochemical modeling indicates that pH and carbonate concentration are the key factors determining the prevalence of carbonate green rust verses siderite (Figure 15); ferrous hydroxide and chukanovite were considered in the modeling even though neither were observed in any of our experimental systems.”
Quote in the paperSubstantial claim - Findingown data
Among the amino acids examined (alanine, glutamate, glycine, serine), only serine was an effective electron donor for DIR by S. putrefaciens CN32.
“Among the amino acids examined in this study (alanine, glutamate, glycine, and serine), only serine was an effective electron donor for DIR by S. putrefaciens CN32.”
Quote in the paperSubstantial claim - Findingown data
Consumption of formate by S. putrefaciens CN32 was directly linked to Fe(II) production.
“Consumption of formate by S. putrefaciens CN32 was directly linked to Fe(II) production.”
- Also stated in: § 4.1. Electron Donor Utilization and Dissimilatory Iron(III) Reduction · plain
“Consumption of formate by S. putrefaciens CN32 was directly linked to Fe(II) production.”
Quote in the paperSubstantial claim - Also stated in: § 4.1. Electron Donor Utilization and Dissimilatory Iron(III) Reduction · plain
- Findingown data
Bioreduction of lepidocrocite in sulfate-amended formate systems followed similar trends with respect to Fe(II) production, formate consumption and pH, but with a longer lag period and slower rate of total Fe(II) production.
“The bioreduction of lepidocrocite in the sulfate-amended systems followed similar trends with respect to Fe(II) production, formate consumption and pH, but with a longer lag period (Figure 5) and slower rate of total Fe(II) production (Table 1).”
Quote in the paperNot a substantial claim - Findingnone given
The accumulation of acetate was less than expected.
“In addition, the accumulation of acetate was less than expected”
Quote in the paperNot a substantial claim - Findingown data
Substantially higher levels of Fe(II) were observed in the abiotic system containing Pd catalyst as an abiotic surrogate for microbial reduction of lepidocrocite.
“Moreover, substantially higher levels of Fe(II) were observed in the abiotic system containing Pd catalyst as an abiotic surrogate for microbial reduction of lepidocrocite (either by direct reduction or indirect reduction involving AQDS as an electron shuttle).”
Quote in the paperNot a substantial claim- The authors state this as an assumption: The Pd-catalyzed H2/AQDS abiotic system is a valid abiotic surrogate for microbial reduction of lepidocrocite.
- Findingown data
Among 17 putative electron donors tested with S. putrefaciens CN32, only H2, formate, lactate, pyruvate, serine, and NAG supported anaerobic respiration with AQDS/Fe(III) oxide as terminal electron acceptor(s).
“Among the 17 putative electron donors we tested with S. putrefaciens CN32, only H2, formate, lactate, pyruvate, serine, and NAG supported anaerobic respiration with AQDS/Fe(III) oxide as the terminal electron acceptor(s).”
Quote in the paperSubstantial claim - Findingown data
Among the 17 putative electron donors tested with S. putrefaciens CN32, only H2, formate, lactate, pyruvate, serine, and NAG supported anaerobic respiration with AQDS/Fe(III) oxide as the terminal electron acceptor(s).
“Among the 17 putative electron donors we tested with S. putrefaciens CN32, only H 2 , formate, lactate, pyruvate, serine, and NAG supported anaerobic respiration with AQDS/Fe(III) oxide as the terminal electron acceptor(s).”
Quote in the paperSubstantial claim - Findingown data
The morphology of green rust crystallites was similar in both chloride- and sulfate-amended NAG systems; thin hexagonal particles with irregular edges up to 20 μm wide decorated with anhedral to subhedral 0.5-2 μm rhombic siderite crystallites.
“The morphology of green rust crystallites were similar in both chloride-and sulfate-amended systems; thin hexagonal particles with irregular edges up to 20 µm wide decorated with anhedral to subhedral 0.5-2 µm rhombic siderite crystallites (Figure 11A,B).”
Quote in the paperNot a substantial claim - Findingown data
In the chloride-amended lactate system, pH decreased to 8.0 by day 62 after the initial rise.
“indeed, by day 62 the pH decreased to 8.0 in the chloride-amended system (Figure 7).”
Quote in the paperNot a substantial claim - Findingreasoning
Both carbonate and sulfate green rusts formed depending on the anionic composition of the experimental systems.
“Both carbonate and sulfate green rusts formed depending on the anionic composition of our experimental systems.”
Quote in the paperSubstantial claim - Findingown data
In the chloride-amended formate system, reduction of Fe(III) was essentially complete by day 55.
“The reduction of Fe(III) was essentially complete (i.e., there was no change in Fe(II) concentrations) by day 55.”
Quote in the paperNot a substantial claim - Findingown data
Chukanovite was not observed in any experimental systems.
“Chukanovite (ferrous hydroxy carbonate) was also not observed in any of our experimental systems.”
Quote in the paperNot a substantial claim - Findingown data
The solids in H2 systems consisted primarily of platy hexagonal particles up to 5 μm across, covered in tabular submicron-sized particles of unreacted lepidocrocite.
“The solids consisted primarily of platy hexagonal particles up to 5 m across, covered in tabular submicronsized particles of unreacted lepidocrocite (Figure 4A,B).”
Quote in the paperNot a substantial claim - Findingown data
The morphology of siderite particles formed in serine systems was identical to those in pyruvate systems.
“The morphology of siderite particles formed in the serine systems were identical to those in the pyruvate systems (Figure 11C,D).”
Quote in the paperNot a substantial claim - Findingown data
At a[HCO3-] = 10^-6, siderite is not stable.
“At a[HCO 3 -] = 10 -6 , siderite is not stable.”
Quote in the paperSubstantial claim - Findingown data
Green rusts were observed as products of lepidocrocite bioreduction by S. putrefaciens CN32 when H2, formate, lactate, or NAG were provided as electron donors.
“Green rusts were observed as products of lepidocrocite bioreduction by S. putrefaciens CN32 when H 2 , formate, lactate, or NAG were provided as electron donors (Table 3).”
Quote in the paperSubstantial claim - Findingown data
Replenishing the hydrogen headspace did not result in significant additional Fe(II) production.
“however, replenishing the hydrogen headspace did not result in significant additional Fe(II) production.”
Quote in the paperSubstantial claim - Findingown data
Accumulation of acetate was less than expected based on the amount of lactate consumed.
“In addition, the accumulation of acetate was less than expected based on the amount of lactate consumed (Table 1).”
Quote in the paperNot a substantial claim- Rests on an assumption: Acetate is not used by S. putrefaciens CN32 as an electron donor for DIR.
- Premiseown data
Formation of specific Fe(II)-bearing secondary minerals from dissimilatory iron reduction is controlled by the interaction of various physiological and geochemical factors.
“the formation of specific phases controlled by the interaction of various physiological and geochemical factors”
Quote in the paperSubstantial claim - Premisecitation
In each prior case only three donors were investigated.
“However, in each case only three donors were investigated”
Quote in the paperSubstantial claim0 of 2 sources checked - Interpretationown data
Acetate, citrate, ethanol, glucose, glutamate, glycerol, malate, and succinate were not effectively utilized for the bioreduction of lepidocrocite by S. putrefaciens CN32.
“Acetate, citrate, ethanol, glucose, glutamate, glycerol, malate, and succinate were not effectively utilized for the bioreduction of lepidocrocite by S. putrefaciens CN32”
Quote in the paperSubstantial claim - Interpretationcitation
Both prior studies show a pronounced effect of specific electron donors on the formation of specific secondary minerals.
“Both of these studies show a pronounced effect of specific electron donors on the formation of specific secondary minerals.”
Quote in the paperSubstantial claim0 of 2 sources checked - Premisereasoning
The effects of specific electron donors on the distribution of biogenic Fe(II) phases produced during dissimilatory iron reduction have not been extensively studied.
“however, the effects of specific electron donors on the distribution of biogenic Fe(II) phases produced during DIR have not been extensively studied”
Quote in the paperSubstantial claim - Interpretationown data
This is the first report of serine serving as an electron donor for DIR.
“This is the first report of serine serving as an electron donor for DIR.”
Quote in the paperSubstantial claim - Interpretationreasoning
Although carbonate concentrations were not measured, it is likely that use of pyruvate (and serine) as electron donor results in production of >30 mM carbonate given accumulation of ~60 mM Fe(II) and formation of 1 mole carbonate per 2 moles Fe(III) reduced based on oxidation of pyruvate to acetate and carbon dioxide.
“Although we were not able to measure carbonate concentrations in our experimental systems, it is likely that the use of pyruvate (and serine) as an electron donor results in production of >30 mM given the accumulation of ~60 mM Fe(II) and the formation of 1 mole of carbonate per 2 moles of Fe(III) reduced based on the oxidation of pyruvate to acetate and carbon dioxide.”
Quote in the paperSubstantial claim - Interpretationown data
The limited Fe(II) production in the H2 systems cannot be explained by a decrease in cell viability over time because reinoculation with freshly grown S. putrefaciens CN32 resulted in no increase in Fe(II).
“Likewise, the limited Fe(II) production cannot be explained by a decrease in cell viability over time as reinoculation with freshly grown S. putrefaciens CN32 resulted in no increase in Fe(II).”
Quote in the paperSubstantial claim - Interpretationown data
The limited extent of Fe(III) reduction in H2 systems is not due to electron donor limitation because systems initially contained >20 mmol H2 and only 4 mmol Fe(III).
“The limited extent of Fe(III) reduction is not due to electron donor limitation as the systems initially contained >20 mmol H2 and only 4 mmol Fe(III) (50 mL of 80 mM Fe(III)).”
Quote in the paperSubstantial claim - Interpretationown data
Our study provides the first evidence that a Shewanella sp. can use NAG as an electron donor for DIR, an ability previously reported only for Thermincola ferriacetica.
“Our study provides the first evidence that a Shewanella sp. can use NAG as an electron donor for DIR, an ability that has only been reported for Thermincola ferriacetica [92].”
Quote in the paperSubstantial claim0 of 1 sources checked- cites [92] Zavarzina, 2007, Thermincola ferriacetica sp. nov., a new anaerobic, thermophilic, facultatively chemolithoautotrophic bacterium capable of dissimilatory Fe(III) reduction, Extremeophiles source
- Interpretationreasoning
Sulfate green rust formed in sulfate-amended systems because sulfate is preferred over chloride as an interlayer anion in green rusts.
“Like carbonate, sulfate is preferred over chloride as an interlayer anion in green rusts; as such sulfate green rust formed in our sulfate-amended systems.”
Quote in the paperSubstantial claim - Interpretationreasoning
These results are consistent with the observed distribution of carbonate green rusts in systems with electron donors likely to result in lower carbonate concentrations (formate, lactate, and NAG) and siderite in systems likely to produce high carbonate concentrations (pyruvate and serine).
“These results are consistent with the observed distribution of carbonate green rusts in systems with electron donors likely to result in lower carbonate concentrations (formate, lactate, and NAG) and siderite in systems likely to produce high carbonate concentrations (pyruvate and serine).”
Quote in the paperSubstantial claim - Interpretationown data
The production of ~60 mM Fe(II) within 4 days in the abiotic control (H2/Pd/AQDS) suggests that there was no thermodynamic limitation on the system.
“Furthermore, the production of ~60 mM Fe(II) within 4 days in the abiotic control (i.e., H2/Pd/AQDS as a surrogate for microbial reduction) suggests that there was no thermodynamic limitation on the system.”
Quote in the paperSubstantial claim- The authors state this as an assumption: The Pd-catalyzed H2/AQDS abiotic system is a valid abiotic surrogate for microbial reduction of lepidocrocite.
- Interpretationown data
The limited extent of Fe(III) reduction in the H2 systems is not due to electron donor limitation because the systems initially contained >20 mmol H2 and only 4 mmol Fe(III).
“The limited extent of Fe(III) reduction is not due to electron donor limitation as the systems initially contained >20 mmol H 2 and only 4 mmol Fe(III) (50 mL of 80 mM Fe(III)).”
Quote in the paperSubstantial claim - Interpretationown data
The production of ~60 mM Fe(II) within 4 days in the abiotic control (H2/Pd/AQDS) suggests there was no thermodynamic limitation on the system.
“Furthermore, the production of ~60 mM Fe(II) within 4 days in the abiotic control (i.e., H 2 /Pd/AQDS as a surrogate for microbial reduction) suggests that there was no thermodynamic limitation on the system.”
Quote in the paperSubstantial claim- Rests on an assumption: The abiotic H2/Pd/AQDS system is a valid surrogate for microbial Fe(III) reduction, such that its lack of thermodynamic limitation implies no thermodynamic limitation in the biotic systems.
- Interpretationown data
The limited Fe(II) production in H2 systems cannot be explained by a decrease in cell viability over time because reinoculation with freshly grown S. putrefaciens CN32 resulted in no increase in Fe(II).
“Likewise, the limited Fe(II) production cannot be explained by a decrease in cell viability over time as reinoculation with freshly grown S. putrefaciens CN32 resulted in no increase in Fe(II).”
Quote in the paperSubstantial claim - Interpretationreasoning
Serine is easily converted to pyruvate by S. putrefaciens CN32.
“serine is easily converted to pyruvate”
Quote in the paperSubstantial claim - Interpretationreasoning
Production of Fe(II) is coupled to formation of carbonate from oxidation of organic electron donors, allowing carbonate green rust precipitation.
“Furthermore, the production of Fe(II) is coupled to the formation of carbonate from the oxidation of organic electron donors, allowing for carbonate green rust precipitation.”
Quote in the paperSubstantial claim
- Probably not a substantial claim. 17
- It may state two separate claims as one. 47
- The quote only partly states this claim. 2
Probably not a substantial claim. The paper’s conclusions may not depend on it. It may state two separate claims as one.
PremisecitationFormate and lactate are established electron donors for DIR by S. putrefaciens CN32 and Shewanella spp. in general.
“Formate and lactate are established electron donors for DIR by S. putrefaciens CN32 [25,33,44,48] as well as Shewanella spp. in general [16,34,46,52,53,[71][72][73][74][75]77].”
- Also stated in: § 4.1. Electron Donor Utilization and Dissimilatory Iron(III) Reduction · boosted
“Formate and lactate are established electron donors for DIR by S. putrefaciens CN32 [25,33,44,48] as well as Shewanella spp. in general [16,34,46,52,53,[71][72][73][74][75]77].”
Quote in the paperNot a substantial claim1 of 5 sources checked- cites [25] Zachara, 1998, Bacterial reduction of crystalline Fe3+ oxides in single phase suspension and subsurface materials, Am. Mineral. source
The Experimental Procedures identify S. putrefaciens CN32 and state that sodium lactate was added as the electron donor; Biogenic mineralization likewise describes lactate-driven Fe reduction. The passages found do not establish formate as an electron donor or extend this result to Shewanella species generally (searched: formate electron donor CN32; formate lactate Shewanella). (LLM, conf=0.87)
Experimental — accuracy not yet measured - cites [33] Fredrickson, 1998, Biogenic iron mineralization accompanying the dissimilatory reduction of hydrous ferric oxide by a groundwater bacterium, Geochim. Cosmochim. Acta source
- cites [44] Gorski, 2010, Effects of oxyanions, natural organic matter, and cell density on the bioreduction of lepidocrocite (g-FeOOH) and secondary mineral formation, Environ. Sci. Technol. source
- cites [48] Kukkadapu, 2004, Biotransformation of two-line silica-ferrihydrite by a dissimilatory Fe(III)-reducing bacterium: Formation of carbonate green rust in the presence of phosphate, Geochim. Cosmochim. Acta source
- cites [16,34,46,52,53,[71][72][73][74][75]77]
Couldn’t be matched to a paper in Crossref, so it can’t be checked.
- Also stated in: § 4.1. Electron Donor Utilization and Dissimilatory Iron(III) Reduction · boosted
It may state two separate claims as one.
Findingown dataIn the absence of an exogenous electron donor, lepidocrocite reduction by S. putrefaciens CN32 was limited; within 72 days only 3.6 mM Fe(II) was produced.
“In the absence of an exogenous electron donor, lepidocrocite reduction by S. putrefaciens CN32 was limited; within 72 days only 3.6 mM Fe(II) was produced.”
Quote in the paperSubstantial claimIt may state two separate claims as one.
Findingown dataThe presence of specific anions had a significant effect on both the rate and extent of Fe(II) production, which were highest in the presence of carbonate.
“The presence of specific anions had a significant effect on both the rate and extent of Fe(II) production, which were highest in the presence of carbonate (Table 1).”
Quote in the paperNot a substantial claimIt may state two separate claims as one.
Findingown dataAfter the lag periods, Fe(II) production proceeded at similar rates in each lactate system leading to production of 56 and 59 mM total Fe(II) in chloride- and sulfate-amended systems, respectively.
“After the corresponding lag periods, Fe(II) production proceeded at similar rates (Table 1) in each system leading to production of 56 and 59 mM total Fe(II) in the chloride-and sulfate-amended systems, respectively.”
Quote in the paperNot a substantial claimIt may state two separate claims as one.
Findingown dataBioreduction of lepidocrocite by S. putrefaciens CN32 was immediate and sustained when serine was provided as electron donor; nearly 90% of Fe(II) production occurred within first 10 days in both chloride- and sulfate-amended systems.
“The bioreduction of lepidocrocite by S. putrefaciens CN32 was immediate and sustained when serine was provided as the electron donor; nearly 90% of Fe(II) production occurred within the first 10 days in both the chloride-and sulfate-amended systems (Figure 14).”
Quote in the paperNot a substantial claimIt may state two separate claims as one.
Findingown dataIn pyruvate systems, Fe(II) production was accompanied by complete depletion of pyruvate and accumulation of acetate.
“Fe(II) production was accompanied by complete depletion of pyruvate and accumulation of acetate.”
Quote in the paperNot a substantial claimIt may state two separate claims as one.
Findingown dataCompared to formate, lactate, and NAG, initial Fe(II) production was higher with pyruvate (7 mM within 6.5 h) and overall bioreduction of lepidocrocite was substantially faster, with >90% of total Fe(II) production occurring within first 10 days in both chloride- and sulfate-amended systems.
“Compared to formate, lactate, and NAG, the initial Fe(II) production was higher with pyruvate (7 mM within 6.5 h) and the overall bioreduction of lepidocrocite was substantially faster, with >90% of the total Fe(II) production occurring within the first 10 days; both the chloride-and sulfate-amended systems followed essentially the same trajectory (Figure 12).”
Quote in the paperSubstantial claimIt may state two separate claims as one.
Findingown dataIn our experimental systems we typically observed formation of either green rust or siderite, except in NAG-amended systems, where green rust and a minor amount of siderite (<30% of Fe(II)) were observed.
“In our experimental systems we typically observed formation of either green rust or siderite, except in the NAG-amended systems, where green rust and a minor amount of siderite (<30% of Fe(II)) were observed.”
Quote in the paperSubstantial claimIt may state two separate claims as one.
Findingown dataIn both NAG systems, Fe(II) production was accompanied by consumption of NAG and accumulation of acetate; after an initial pH increase to ~8.1, pH gradually decreased to ~7.6 by day 106.
“In both systems, Fe(II) production was accompanied by consumption of NAG and accumulation of acetate and after an initial increase in pH to ~8.1, the pH gradually decreased to ~7.6 by day 106 (Figure 9).”
Quote in the paperNot a substantial claimIt may state two separate claims as one.
Findingown dataIn lactate systems, ~2.5 moles of Fe(II) was produced per mole of lactate consumed, substantially less than 4 moles expected from oxidation of lactate to acetate and carbon dioxide.
“In the case of lactate, ~2.5 moles of Fe(II) was produced per mole of lactate consumed, which is substantially less than 4 moles of Fe(II) per mole of lactate based on the oxidation of lactate to acetate and carbon dioxide (lactate → acetate + CO 2 = 4e -).”
Quote in the paperSubstantial claimIt may state two separate claims as one.
Findingown dataApproximately 2 moles of Fe(II) were produced for each mole of formate consumed by S. putrefaciens CN32, consistent with stoichiometry of formate oxidation to carbon dioxide (2e-).
“Approximately 2 moles of Fe(II) produced for each mole of formate consumed (Table 1) by S. putrefaciens CN32, consistent with the stoichiometry of formate oxidation to carbon dioxide (formate CO2 = 2e -) (Table 1).”
Quote in the paperSubstantial claimIt may state two separate claims as one.
Findingown dataIn serine systems, Fe(II) production was concurrent with acetate production, and pyruvate was observed as a transient species.
“We were unable to measure serine concentrations, but Fe(II) production was concurrent with acetate production, and pyruvate was observed as a transient species.”
Quote in the paperNot a substantial claimIt may state two separate claims as one.
Findingown dataCarbonate green rust formed in the chloride- and carbonate-amended H2 systems and sulfate green rust formed in the sulfate-amended H2 system.
“Carbonate green rust formed in the chloride-and carbonateamended systems and sulfate green rust formed in the sulfate-amended system (Figure 3).”
Quote in the paperSubstantial claimIt may state two separate claims as one.
Findingown dataIn the sulfate-amended NAG system, sulfate green rust formation was first observed at 7 days, followed by carbonate green rust at day 38 and siderite at day 69.
“Sulfate green rust formation was first observed at 7 days after inoculation, followed by the appearance of carbonate green rust at day 38 and siderite at day 69 (Figure 10).”
Quote in the paperNot a substantial claimIt may state two separate claims as one.
Findingown dataIn the chloride-amended NAG system, ~3 mM Fe(II) was produced within first 24 h and there was minimal change over next 24 days.
“Within the first 24 h after inoculation, ~3 mM Fe(II) was produced in the chloride-amended system and there was minimal change over the next 24 days (Figure 9).”
Quote in the paperNot a substantial claimIt may state two separate claims as one.
Findingown dataIn the sulfate-amended formate systems, sulfate green rust was observed by day 9, by day 15 both sulfate and carbonate green rust were present, and by day 62 only carbonate green rust was detected.
“In the sulfate-amended systems, indications of sulfate green rust were observed by day 9, by day 15 both sulfate and carbonate green rust were present, and by day 62 only carbonate green rust was detected (Figure 6).”
Quote in the paperSubstantial claimIt may state two separate claims as one.
Findingown dataIn sulfate-amended lactate systems, sulfate green rust was observed by day 7, and by day 17 both sulfate and carbonate green rust were present; both were present at day 62.
“In the sulfate-amended systems, indications of sulfate green rust were observed by day 7, and by day 17 both sulfate and carbonate green rust were present (Figure 8); unlike the sulfate-amended formate system, both sulfate and carbonate green rust were present at the end of the experiment (day 62).”
Quote in the paperSubstantial claimThe quote only partly states this claim.
Findingown dataPyruvate was observed as a transient intermediate during Fe(III) reduction in serine-amended systems.
“pyruvate was observed as a transient intermediate during Fe(III) reduction.”
Quote in the paperSubstantial claimIt may state two separate claims as one.
Findingown dataIn the formate systems, pXRD and Mössbauer spectroscopy indicated complete removal of lepidocrocite accompanied by formation of green rust.
“Analysis of the solids by pXRD (Figure 6) and Mössbauer spectroscopy (Table 2) indicates complete removal of lepidocrocite accompanied by the formation of green rust.”
Quote in the paperSubstantial claimIt may state two separate claims as one.
Findingown dataIn lactate systems, initial pH increase from 7.5 to 8.2 and a pulse of Fe(II) production (~4 mM) within first 24 h was followed by a lag in Fe(II) production lasting ~27 days and ~17 days in chloride- and sulfate-amended systems, respectively.
“As observed with formate, there was an initial increase in pH from 7.5 to 8.2 and a pulse of Fe(II) production (~4 mM) within the first 24 h, that was followed by a lag in Fe(II) production lasting ~27 days and ~17 days in the chloride-and sulfate-amended systems, respectively (Figure 7).”
Quote in the paperNot a substantial claimIt may state two separate claims as one.
Findingown dataWith increasing a[HCO3-], the stability field of siderite increases and the stability fields of carbonate green rust and ferrous hydroxide shift to higher pH.
“With increasing a[HCO 3 -] the stability field of siderite increases and the stability fields of carbonate green rust and ferrous hydroxide shift to higher pH.”
Quote in the paperSubstantial claimIt may state two separate claims as one.
Findingown dataFe(II) concentrations approached steady state within 3 days and were largely unaffected by replenishment of headspace H2 or re-inoculation with freshly cultured S. putrefaciens CN32.
“Fe(II) concentrations approached steady state within 3 days and were largely unaffected by replenishment of headspace H2 or re-inoculation with freshly cultured S. putrefaciens CN32.”
Quote in the paperSubstantial claimIt may state two separate claims as one.
Findingown dataIn the case of lactate, ~2.5 moles of Fe(II) was produced per mole of lactate consumed, which is substantially less than 4 moles of Fe(II) per mole of lactate based on oxidation of lactate to acetate and carbon dioxide.
“In the case of lactate, ~2.5 moles of Fe(II) was produced per mole of lactate consumed, which is substantially less than 4 moles of Fe(II) per mole of lactate based on the oxidation of lactate to acetate and carbon dioxide (lactate acetate + CO2 = 4e -).”
Quote in the paperSubstantial claimIt may state two separate claims as one.
Findingown dataIn the chloride-amended formate system, initial production of 2.3 mM Fe(II) within first 24 h was followed by a lag period lasting ~13 days, after which there was vigorous and sustained Fe(II) production concurrent with formate consumption.
“The initial production of 2.3 mM Fe(II) within the first 24 h was followed by a lag period lasting ~13 days in the chloride-amended system, after which there was vigorous and sustained Fe(II) production concurrent with formate consumption (Figure 5).”
Quote in the paperNot a substantial claimIt may state two separate claims as one.
FindingcitationVivianite was not observed in any experimental systems (P:Fe = 0.005), and vivianite formation requires substantial phosphate (not observed at P:Fe lower than 0.08).
“Vivianite formation requires the presence of substantial phosphate (e.g., vivianite was not observed at P:Fe rations lower than 0.08 [33,43,48,63]), and vivianite was not observed in any of our experimental systems (P:Fe = 0.005 [63]).”
Quote in the paperSubstantial claim0 of 4 sources checked- cites [33] Fredrickson, 1998, Biogenic iron mineralization accompanying the dissimilatory reduction of hydrous ferric oxide by a groundwater bacterium, Geochim. Cosmochim. Acta source
- cites [43] Bae, S., and Lee, W. (2013). Biotransformation of lepidocrocite in the presence of quinones and flavins. Geochim. Cosmochim. Acta, 10. source
- cites [48] Kukkadapu, 2004, Biotransformation of two-line silica-ferrihydrite by a dissimilatory Fe(III)-reducing bacterium: Formation of carbonate green rust in the presence of phosphate, Geochim. Cosmochim. Acta source
- cites [63] Boyanov, 2013, Effects of bound phosphate on the bioreduction of lepidocrocite (g-FeOOH) and maghemite (g-Fe2O3) and formation of secondary minerals, Environ. Sci. Technol. source
It may state two separate claims as one.
Findingown dataIn pyruvate systems, pH increased from 7.5 to 8.0 within 6 h, decreased to 7.1 over next 66 h, rebounded to pH 8 by day 6, and gradually increased to final pH 8.5 by day 106.
“Within 6 h of inoculation, the pH increased from 7.5 to 8.0, followed by a decrease to 7.1 over the next 66 h, a rebound to pH 8 by day 6, and a gradual increase to a final pH of 8.5 by day 106 (Figure 12).”
Quote in the paperNot a substantial claimIt may state two separate claims as one.
Findingown dataAt day 62 in lactate systems, both pXRD and Mössbauer spectroscopy showed complete loss of lepidocrocite and formation of green rust.
“At the end of the experiment (day 62) both pXRD and Mössbauer spectroscopy showed complete loss of lepidocrocite and formation of green rust (Table 2 and Figure 8).”
Quote in the paperSubstantial claimIt may state two separate claims as one.
Findingown dataIn this study, reduction of Fe(III) by S. putrefaciens CN32 with H2 was rapid within first 2 days, then quickly plateaued to approximately 5, 10, and 15 mM Fe(II) in chloride, sulfate, and carbonate systems, respectively.
“In this study, reduction of Fe(III) by S. putrefaciens CN32 was rapid within the first 2 days, then quickly plateaued to approximately 5, 10, and 15 mM Fe(II) in the chloride, sulfate, and carbonate systems, respectively.”
Quote in the paperSubstantial claimIt may state two separate claims as one.
Findingown dataApproximately 2 moles of Fe(II) were produced for each mole of formate consumed by S. putrefaciens CN32, consistent with the stoichiometry of formate oxidation to carbon dioxide.
“Approximately 2 moles of Fe(II) produced for each mole of formate consumed (Table 1) by S. putrefaciens CN32, consistent with the stoichiometry of formate oxidation to carbon dioxide (formate → CO 2 = 2e -) (Table 1).”
Quote in the paperSubstantial claimIt may state two separate claims as one.
Findingown dataIn the sulfate-amended NAG system, initial production of ~4 mM Fe(II) within first 24 h was followed by a lag of 3 days, after which Fe(II) increased to 14 mM at day 25 and remained essentially unchanged until day 31.
“As with the chloride system, there was an initial production of Fe(II) within the first 24 h (~4 mM), but this was followed by a much shorter lag period (3 days), after which the Fe(II) concentration increased to 14 mM at day 25 and remained essentially unchanged until Fe(II) production resumed at day 31.”
Quote in the paperNot a substantial claimIt may state two separate claims as one.
Findingown dataReduction of Fe(III) by S. putrefaciens CN32 with H2 as electron donor was rapid within the first 2 days, then plateaued to approximately 5, 10, and 15 mM Fe(II) in chloride, sulfate, and carbonate systems, respectively.
“In this study, reduction of Fe(III) by S. putrefaciens CN32 was rapid within the first 2 days, then quickly plateaued to approximately 5, 10, and 15 mM Fe(II) in the chloride, sulfate, and carbonate systems, respectively.”
Quote in the paperSubstantial claimIt may state two separate claims as one.
Findingown dataIn the formate systems, pH increased from 7.5 to 8.3 within 18 h after inoculation and ultimately reached pH 9.1 by day 62.
“the pH increased from 7.5 to 8.3 within 18 h after inoculation followed by a slower pH increase, ultimately reaching pH 9.1 by day 62 (Figure 5).”
Quote in the paperNot a substantial claimIt may state two separate claims as one.
Findingown dataIn pyruvate systems, solids remaining at end consisted of residual lepidocrocite and siderite; there were no indications of green rust formation at any point.
“The solids remaining at the end of the experiment consisted of residual lepidocrocite and siderite (Table 2 and Figure 13); there were no indications of green rust formation at any point during the experiment (data not shown).”
Quote in the paperNot a substantial claimIt may state two separate claims as one.
Findingown dataProduction of Fe(II) was concurrent with NAG consumption and acetate production, consistent with NAG serving as an electron donor for Fe(III) reduction.
“The production of Fe(II) was concurrent with NAG consumption and acetate production, which is consistent with NAG serving as an electron donor for Fe(III) reduction.”
Quote in the paperSubstantial claimIt may state two separate claims as one.
Findingown dataIn the sulfate-amended NAG system, at 106 days Fe(II) concentration reached 71 mM, at which point lepidocrocite was no longer detected by Mössbauer or pXRD.
“At 106 days after inoculation, the Fe(II) concentration reached 71 mM, at which point lepidocrocite was no longer detected by Mössbauer or pXRD (Table 2 and Figure 10).”
Quote in the paperSubstantial claimIt may state two separate claims as one.
Findingown dataIn the chloride-amended NAG system, carbonate green rust formation was not evident until 38 days after inoculation and siderite was not observed until day 69.
“Carbonate green rust formation was not evident until 38 days after inoculation and siderite was not observed until day 69 (Figure 10).”
Quote in the paperNot a substantial claimIt may state two separate claims as one.
FindingreasoningFe(II) production rates in serine-amended systems were only slightly slower than rates in pyruvate-amended systems, consistent with conversion of serine to pyruvate and its subsequent utilization.
“Moreover, the Fe(II) production rates in the serine-amended systems were only slightly slower than the rates in the pyruvate-amended systems (which had the fastest rates among the donors tested (Table 1)), consistent with conversion of serine to pyruvate and its subsequent utilization.”
Quote in the paperSubstantial claimIt may state two separate claims as one.
Findingown dataIn the chloride-amended NAG system, substantial Fe(II) production occurred between day 25 and day 76 leading to ~61 mM Fe(II) at termination day 106; at which pXRD and Mössbauer indicated residual lepidocrocite and secondary minerals siderite and carbonate green rust.
“Substantial Fe(II) production was observed between day 25 and day 76 leading to an accumulation of ~61 mM Fe(II) at the termination of the experiment at day 106; at which time pXRD and Mössbauer spectroscopy indicated the presence of residual lepidocrocite and secondary minerals siderite and carbonate green rust (Table 2 and Figure 10).”
Quote in the paperSubstantial claimProbably not a substantial claim. The paper’s conclusions may not depend on it.
PremisecitationThe taxonomic diversity of DIRB is reflected in the broad range of electron donors that support dissimilatory iron reduction.
“The taxonomic diversity of DIRB is reflected in the broad range of electron donors that support DIR [54]”
Quote in the paperNot a substantial claim0 of 1 sources checked- cites [54] Dworkin, M. (2013). Dissimilatory Fe(III)- and Mn(IV)-reducing prokaryotes. The Prokaryotes—Prokaryotic Physiology and Biochemistry, Springer.
Couldn’t be matched to a paper in Crossref, so it can’t be checked.
Probably not a substantial claim.
PremisereasoningMany of these parameters are interdependent, often making it difficult to determine their relative contributions to formation of specific Fe(II)-bearing secondary minerals.
“Many of these parameters are interdependent (e.g., the rate of Fe(III) reduction may be controlled by the metabolic constraints placed on a given DIRB by the type and amount of electron donor available or by the system pH), often making it difficult to determine their relative contributions to the formation of specific Fe(II)-bearing secondary minerals.”
Quote in the paperSubstantial claimProbably not a substantial claim.
PremisecitationSalas et al. reported formation of siderite, green rust, and a combination of green rust and magnetite during DIR of ferrihydrite by Shewanella putrefaciens W3-18-1 with pyruvate, uridine, and lactate, respectively, as electron donors.
“Salas et al. [53] reported formation of siderite, green rust, and a combination of green rust and magnetite during DIR of ferrihydrite by Shewanella putrefaciens W3-18-1 with pyruvate, uridine, and lactate, respectively, as electron donors.”
Quote in the paperSubstantial claim0 of 1 sources checked- cites [53] Salas, 2009, The influence of carbon source on the products of dissimilatory iron reduction, Geomicrobiol. J. source
Probably not a substantial claim. The paper’s conclusions may not depend on it. The quote only partly states this claim.
Study design and conductown datapXRD samples prepared under anoxic conditions showed no evidence of oxidation when scanned between 5 and 80° 2θ.
“although the pXRD analysis was conducted under ambient atmosphere, samples prepared in this manner showed no evidence of oxidation when scanned between 5 • and 80 • 2θ at a speed of 1.25 • 2θ min -1”
Quote in the paperNot a substantial claimProbably not a substantial claim. The paper’s conclusions may not depend on it. It may state two separate claims as one.
Study design and conductown dataThe concentration of HCO3- was not measured directly during the experiments; a range of possible a[HCO3-] was calculated and used to create separate Eh-pH diagrams.
“As the concentration of HCO 3 -was not measured directly during the experiments, a range of possible a[HCO 3 -] was calculated and used to create separate Eh-pH diagrams to examine the effect of the range of a[HCO 3 -] on the stability of secondary iron minerals.”
Quote in the paperNot a substantial claimProbably not a substantial claim.
PremisecitationMany factors contribute to formation of specific Fe(II)-bearing secondary minerals as products of dissimilatory iron reduction, including Fe(III) oxide mineralogy, particle aggregation, rate and extent of Fe(II) production, electron shuttles, DIRB species and population size, oxyanions, dissolved NOM, and electron donor concentration and type.
“Many factors have been identified as contributing to the formation of specific Fe(II)-bearing secondary minerals as products of DIR, including Fe(III) oxide mineralogy, [20,35]; Fe(III) oxide particle aggregation, [41]; the rate and extent of Fe(II) production, [33,35,42,43]; the presence of electron shuttles, [33]; the species and population size of the DIRB, [44][45][46]; the presence of oxyanio”
Quote in the paperSubstantial claim0 of 6 sources checked- cites [20] Cutting, 2009, Mineralogical and morphological constraints on the reduction of Fe(III) minerals by Geobacter sulfurreducens, Geochim. Cosmochim. Acta source
- cites [35] Glasauer, 2003, Controls on Fe reduction and mineral formation by a subsurface bacterium, Geochim. Cosmochim. Acta source
- cites [41] Zegeye, 2010, Bacterial and iron oxide aggregates mediate secondary iron mineral formation: Green rust versus magnetite, Geobiology source
- cites [33] Fredrickson, 1998, Biogenic iron mineralization accompanying the dissimilatory reduction of hydrous ferric oxide by a groundwater bacterium, Geochim. Cosmochim. Acta source
- cites [42] Zachara, 2002, Biomineralization of poorly crystalline Fe(III) oxides by dissimilatory metal reducing bacteria (DMRB), Geomicrobiol. J. source
- cites [43] Bae, S., and Lee, W. (2013). Biotransformation of lepidocrocite in the presence of quinones and flavins. Geochim. Cosmochim. Acta, 10. source
Probably not a substantial claim.
PremisecitationDissimilatory iron-reducing bacteria can use soluble Fe(III) complexes, Fe(III) oxides, and Fe(III)-bearing clay minerals as terminal electron acceptors for anaerobic respiration.
“As a group, dissimilatory iron-reducing bacteria (DIRB) are able to use soluble Fe(III) complexes (e.g., ferric citrate), Fe(III) oxides, and Fe(III)-bearing clay minerals as terminal electron acceptors for anaerobic respiration [20][21][22][23][24][25][26][27][28].”
Quote in the paperSubstantial claim0 of 3 sources checked- cites [20] Cutting, 2009, Mineralogical and morphological constraints on the reduction of Fe(III) minerals by Geobacter sulfurreducens, Geochim. Cosmochim. Acta source
- cites [21] Shelobolina, 2003, Use of ferric and ferrous iron containing minerals for respiration by Desulfitobacterium frappieri, Geomicrobiol. J. source
- cites [22] Kostka, 1999, Respiration and dissolution of iron(III)-containing clay minerals by bacteria, Environ. Sci. Technol. source
Probably not a substantial claim.
PremisecitationProducts of dissimilatory iron reduction include Fe(II)-bearing secondary minerals such as magnetite, siderite, vivianite, green rust, chukanovite, and Fe(II)-bearing clays.
“The bioreduction of Fe(III) oxides by dissimilatory iron reducing bacteria (DIRB) may result in the production of a suite of Fe(II)-bearing secondary minerals, including magnetite, siderite, vivianite, green rusts, and chukanovite”
- Also stated in: § 1. Introduction · plain
“The products of DIR comprise a broad range of Fe(II) species including soluble and adsorbed Fe(II) and mineral phases containing structural Fe(II) (e.g., magnetite, siderite (FeCO 3 ), vivianite [Fe 3 (PO 4 ) 2 •8H 2 O], green rust, chukanovite [Fe 2 (OH) 2 CO 3 ], and Fe(II)-bearing clays) [32][33][34][35][36][37][38][39][40].”
Quote in the paperSubstantial claim0 of 3 sources checked- cites [32] Lovley, 1987, Anaerobic production of magnetite by a dissimilatory iron-reducing microorganism, Nature source
- cites [33] Fredrickson, 1998, Biogenic iron mineralization accompanying the dissimilatory reduction of hydrous ferric oxide by a groundwater bacterium, Geochim. Cosmochim. Acta source
- cites [34] Abdelmoula, 2002, Iron(II,III) hydroxycarbonate green rust formation and stabilization from lepidocrocite bioreduction, Environ. Sci. Technol. source
- Also stated in: § 1. Introduction · plain
Probably not a substantial claim. It may state two separate claims as one.
PremisecitationBioreduction of akaganeite by Shewanella sp. HN-41 resulted in formation of magnetite, siderite, and a combination of magnetite and siderite when lactate, pyruvate, and formate, respectively, were provided as electron donors.
“The bioreduction of akaganeite (β-FeOOH) by Shewanella sp.HN-41 resulted in the formation of magnetite, siderite, and a combination of magnetite and siderite when lactate, pyruvate, and formate, respectively, were provided as electron donors [52].”
Quote in the paperSubstantial claim0 of 1 sources checked- cites [52] Lee, 2007, Organic acid-dependent iron mineral formation by a newly isolated iron-reducing bacterium, Shewanella sp. HN-41, Geomicrobiol. J. source
Probably not a substantial claim. The paper’s conclusions may not depend on it.
Study design and conductown dataMössbauer samples showed no indication of inadvertent oxidation.
“No indication of inadvertent oxidation was observed.”
Quote in the paperNot a substantial claimProbably not a substantial claim. The paper’s conclusions may not depend on it.
Study design and conductnone givenAll experimental systems were prepared in triplicate.
“All experimental systems were prepared in triplicate.”
Quote in the paperNot a substantial claimProbably not a substantial claim. The paper’s conclusions may not depend on it.
PremisecitationAmong Fe(II)-bearing secondary minerals resulting from DIR of Fe(III) oxides, green rusts are a particularly effective reductant for a wide range of contaminants of concern, including chlorinated solvents, nitroaromatics, azo dyes, toxic metals, metallolids, and radionuclides.
“Among the Fe(II)-bearing secondary minerals resulting from DIR of Fe(III) oxides, green rusts are a particularly effective reductant for a wide range of contaminants of concern, including chlorinated solvents, nitroaromatics, azo dyes, toxic metals, metallolids, and radionuclides [127,128,132-153].”
Quote in the paperNot a substantial claim0 of 1 sources checked- cites [127,128,132-153]
Couldn’t be matched to a paper in Crossref, so it can’t be checked.
Probably not a substantial claim. The paper’s conclusions may not depend on it.
PremisecitationFormate is utilized as an electron donor for dissimilatory iron reduction by S. putrefaciens CN32.
“Formate essentially served as a positive control given that we have previously shown that formate is utilized as an electron donor for DIR by S. putrefaciens CN32 [16,28,44,55,63].”
Quote in the paperNot a substantial claim0 of 5 sources checked- cites [16] Scherer, 2007, Green rust formation from the bioreduction of g-FeOOH (lepidocrocite): Comparison of several Shewanella species, Geomicrobiol. J. source
- cites [28] Gorski, 2015, Effects of phosphate on secondary mineral formation during the bioreduction of akaganeite (b-FeOOH): Green rust versus framboidal magnetite, Curr. Inorg. Chem. source
- cites [44] Gorski, 2010, Effects of oxyanions, natural organic matter, and cell density on the bioreduction of lepidocrocite (g-FeOOH) and secondary mineral formation, Environ. Sci. Technol. source
- cites [55] 2008, Effects of electron transfer mediators on the biodegradation of lepidocrocite (g-FeOOH) by Shewanella putrefaciens CN32, Environ. Sci. Technol. source
- cites [63] Boyanov, 2013, Effects of bound phosphate on the bioreduction of lepidocrocite (g-FeOOH) and maghemite (g-Fe2O3) and formation of secondary minerals, Environ. Sci. Technol. source
It may state two separate claims as one.
Interpretationown dataPyruvate utilization by S. putrefaciens CN32 in the experimental systems likely involved fermentation of pyruvate and use of pyruvate and pyruvate fermentation products as electron donors for DIR.
“Our results suggest that a similar dynamic occurred with S. putrefaciens CN32 in our experimental systems containing pyruvate; if pyruvate was only utilized as an electron donor for DIR, only 30 mM would be needed to account for the ~60 mM of Fe(II) produced, yet all of the pyruvate (75 mM) was consumed.”
Quote in the paperSubstantial claimIt may state two separate claims as one.
InterpretationcitationMagnetite was not observed as a secondary mineral in any experimental systems, likely due to trace levels of phosphate present in the lepidocrocite used, as low phosphate suppresses magnetite formation during DIR of Fe(III) oxides.
“However, magnetite was not observed as a secondary mineral in any of our experimental systems, likely due to trace levels of phosphate present in the lepidocrocite used in our experiments [63], as low levels of phosphate are known to suppress magnetite formation during DIR of Fe(III) oxides [28,33,44,47,63].”
Quote in the paperSubstantial claim0 of 5 sources checked- cites [63] Boyanov, 2013, Effects of bound phosphate on the bioreduction of lepidocrocite (g-FeOOH) and maghemite (g-Fe2O3) and formation of secondary minerals, Environ. Sci. Technol. source
- cites [28] Gorski, 2015, Effects of phosphate on secondary mineral formation during the bioreduction of akaganeite (b-FeOOH): Green rust versus framboidal magnetite, Curr. Inorg. Chem. source
- cites [33] Fredrickson, 1998, Biogenic iron mineralization accompanying the dissimilatory reduction of hydrous ferric oxide by a groundwater bacterium, Geochim. Cosmochim. Acta source
- cites [44] Gorski, 2010, Effects of oxyanions, natural organic matter, and cell density on the bioreduction of lepidocrocite (g-FeOOH) and secondary mineral formation, Environ. Sci. Technol. source
- cites [47] Borch, 2007, Phosphate imposed limitations on biological reduction and alteration of ferrihydrite, Environ. Sci. Technol. source
It may state two separate claims as one.
InterpretationreasoningOnly carbonate green rust remained in the formate/sulfate system, while both carbonate and sulfate green rusts remained in the lactate/sulfate and NAG/sulfate systems, likely due to lower carbonate production in those systems.
“Only carbonate green rust remained in the formate/sulfate system, however both carbonate and sulfate green rusts remained in the lactate/sulfate, and NAG/sulfate systems, likely due to lower carbonate production in those systems.”
Quote in the paperSubstantial claimProbably not a substantial claim. It may state two separate claims as one.
PremisecitationFe(II) is a reductant for a wide range of contaminants, but its redox reactivity depends strongly on its speciation.
“Fe(II) is a reductant for a wide range of contaminants, however, the redox reactivity of Fe(II) depends strongly on its speciation [127-131].”
Quote in the paperSubstantial claim0 of 5 sources checked- cites [127] Elsner, 2004, Reactivity of Fe(II)-bearing minerals toward reductive transformation of organic contaminants, Environ. Sci. Technol. source
- cites [128] Lee, 2003, Reductive capacity of natural reductants, Environ. Sci. Technol. source
- cites [129] Scheinost, 2008, Selenite reduction by mackinawite, magnetite and siderite: XAS characterization of nanosized redox products, Environ. Sci. Technol. source
- cites [130] Scheinost, 2008, X-ray absorption and photoelectron spectroscopy investigation of selenite reduction by FeII-bearing minerals, J. Contam. Hydrol. source
- cites [131] Kelly, 2010, XAFS investigation of the interactions of UVI with secondary mineralization products from the bioreduction of FeIII oxides, Environ. Sci. Technol. source
It may state two separate claims as one.
InterpretationcitationCarbonate green rust formed in chloride-amended systems, consistent with the affinity of pyroaurite-type layered double hydroxides for carbonate in the interlayer relative to chloride.
“Carbonate green rust formed in chloride-amended systems, consistent with the affinity of pyroaurite-type layered double hydroxides for carbonate in the interlayer relative to chloride [120].”
Quote in the paperSubstantial claim0 of 1 sources checked- cites [120] Refait, 1997, The anionic species competition in iron aqueous corrosion: Role of various green rust compounds, Corros. Sci. source
It may state two separate claims as one.
Interpretationown dataNAG was not consumed independent of Fe(III) reduction, suggesting S. putrefaciens CN32 does not ferment NAG.
“NAG was not consumed independent of Fe(III) reduction suggesting that S. putrefaciens CN32 does not ferment NAG.”
Quote in the paperSubstantial claimProbably not a substantial claim. The paper’s conclusions may not depend on it. It may state two separate claims as one.
PremisecitationLargely through the activity of DIRB, Fe(II) is typically one of the most abundant reductants present in aquatic and terrestrial environments under suboxic and anoxic conditions, often providing substantial redox buffering capacity.
“Largely through the activity of DIRB, Fe(II) is typically one of the most abundant reductants present in aquatic and terrestrial environments under suboxic and anoxic conditions [124-126], often providing substantial redox buffering capacity to these systems.”
Quote in the paperNot a substantial claim0 of 3 sources checked- cites [124] Hochella, 1990, Oxidative and reductive dissolution of minerals, Mineral-Water Interface Geochemistry
- cites [125] Heron, 1995, Impact of sediment-bound iron on redox buffering in a landfill leachate polluted aquifer (Vejen, Denmark), Environ. Sci. Technol. source
- cites [126] Hofstetter, 1998, Characterization of predominant reductants in an anaerobic leachate-contaminated aquifer by nitroaromatic probe compounds, Environ. Sci. Technol. source
Probably not a substantial claim. The paper’s conclusions may not depend on it.
PremisecitationLimited reduction of Fe(III) was also observed during DIR of γ-FeOOH by S. putrefaciens CIP 8040T with H2 as electron donor.
“Limited reduction of Fe(III) was also observed during DIR of γ-FeOOH by S. putrefaciens CIP 8040 T with H2 as the electron donor [76].”
Quote in the paperNot a substantial claim0 of 1 sources checked- cites [76] Zegeye, 2005, Formation of hydroxysulfate green rust 2 as a single iron(II-III) mineral in microbial culture, Geomicrobiol. J. source
It may state two separate claims as one.
InterpretationreasoningAs carbonate accumulates from oxidation of organic electron donors, carbonate green rust forms as carbonate is preferred over sulfate in the interlayer.
“However, as carbonate accumulates from the oxidation of the organic electron donors, carbonate green rust forms as carbonate is preferred over sulfate in the interlayer.”
Quote in the paperSubstantial claim
The authors state this as an assumption.
The Pd-catalyzed H2/AQDS abiotic system is a valid abiotic surrogate for microbial reduction of lepidocrocite.
“Moreover, substantially higher levels of Fe(II) were observed in the abiotic system containing Pd catalyst as an abiotic surrogate for microbial reduction of lepidocrocite (either by direct reduction or indirect reduction involving AQDS as an electron shuttle).”
The paper relies on this without support.
The calculated range of possible bicarbonate activities represents the conditions in the experiments.
“As the concentration of HCO 3 -was not measured directly during the experiments, a range of possible a[HCO 3 -] was calculated and used to create separate Eh-pH diagrams to examine the effect of the range of a[HCO 3 -] on the stability of secondary iron minerals.”
The paper relies on this without support.
Acetate is not used by S. putrefaciens CN32 as an electron donor for DIR.
“Acetate is not used by S. putrefaciens CN32 as an electron donor for DIR, but it may have used some acetate as a C source (as could a portion of the lactate consumed).”
The paper relies on this without support.
The abiotic H2/Pd/AQDS system is a valid surrogate for microbial Fe(III) reduction, such that its lack of thermodynamic limitation implies no thermodynamic limitation in the biotic systems.
“the abiotic control (i.e., H 2 /Pd/AQDS as a surrogate for microbial reduction) suggests that there was no thermodynamic limitation on the system.”
Self-check
Percentages, sums and reported differences re-computed from the paper’s own numbers.
Each contradiction between two passages listed here was confirmed by an independent check.
Mineral substrates assigned to the wrong bacterial strains
MinorThe introduction assigns akaganeite to Shewanella sp. HN-41 and ferrihydrite to S. putrefaciens W3-18-1. The discussion reverses those assignments.
“Siderite was also the sole secondary mineral formed during the bioreduction of ferrihydrite and akaganeite by Shewanella sp.HN-41 and S. putrefaciens W3-18-1, respectively, with pyruvate as the electron donor [52,53].”
“The bioreduction of akaganeite (β-FeOOH) by Shewanella sp.HN-41 resulted in the formation of magnetite, siderite, and a combination of magnetite and siderite when lactate, pyruvate, and formate, respectively, were provided as electron donors [52].Salas et al. [53] reported formation of siderite, green rust, and a combination of green rust and magnetite during DIR of ferrihydrite by Shewanella putrefaciens W3-18-1”
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The reduction of aqueous Au 3+ by sulfide minerals and green rust phases
Heasman, D. M., Sherman, D. Μ., & Ragnarsdottir, K. V. (2003) · American Mineralogist · doi:10.2138/am-2003-5-602 · Cited by 23
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Self-citationThe formation of green rust induced by tropical river biofilm components
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Self-citationReduction of ferric green rust by Shewanella putrefaciens
Jorand, F. P. A., Zegeye, A., Landry, F. K. A., & Ruby, C. (2007) · Letters in Applied Microbiology · doi:10.1111/j.1472-765x.2007.02225.x · Cited by 20
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Key role of the kinetics of γ-FeOOH bioreduction on the formation of Fe(II–III) minerals
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Self-citationKinetic Analysis of the Bacterial Reduction of Goethite
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O’Loughlin, E. J., Boyanov, M. I., & Kemner, K. (2021) · Minerals · doi:10.3390/min11030316 · Cited by 46
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Metadata
- Authors
- O’Loughlin, E. J., Gorski, C. A., Flynn, T. M., & Scherer, M. M.
- Affiliations
- Argonne National Laboratory (US)
- University of Iowa (US)
- Corresponding author
- O’Loughlin, Edward J.
- Venue
- Minerals
- Publisher
- MDPI AG
- Published
- 2019-07-14
- Volume
- 9
- Issue
- 7
- Pages
- 434
- ISSN
- 2075-163X (ISSN-L)
- OpenAlex
- W2960398279
- Semantic Scholar
- e99794f5744065afad71e130adcd6156c38808bd
- Cited by
- 28
- References
- 150
- Citations by year
- 2026: 2 · 2025: 3 · 2024: 2 · 2023: 3 · 2022: 6 · 2021: 9 · 2020: 3
- FWCI
- 1.81
- Type
- journal article
- Language
- en
- Open access
- gold
- dx.doi.org
- Licence
- Locations
- Minerals (publishedVersion, cc-by)
- OSTI OAI (U.S. Department of Energy Office of Scientific and Technical Information) (submittedVersion)
- DOAJ (DOAJ: Directory of Open Access Journals) (submittedVersion, cc-by-sa)
- Funders
- Subsurface Biogeochemical Research Program, Office of the Biological and Environmental Research, Office of Science, U.S. Department of Energy (DE-AC02-06CH11357)
- Topics
- Physical Sciences › Environmental Science › Environmental Engineering › Microbial Fuel Cells and Bioremediation
- Physical Sciences › Environmental Science › Environmental Chemistry › Mine drainage and remediation techniques
- Physical Sciences › Earth and Planetary Sciences › Geophysics › Geomagnetism and Paleomagnetism Studies
- Keywords
- lepidocrocite, bioreduction, Shewanella putrefaciens CN32, dissimilatory iron-reducing bacteria, electron donors, secondary mineral formation, green rust, siderite, Fe(III) oxide reduction, pyruvate, lactate, formate, hydrogen, N-acetylglucosamine, acetate, biomineralization
About these checks
Registry, retraction, Cites and statistics results are computed, not judged, with one exception: a printed reference that no index lists is read once by a model before it counts as a citation error. Claims are extracted by a model and kept only when their quote appears verbatim in the text; each cited source is then checked, with a model’s help, for whether it says what the claim relies on. Those verdicts can be wrong — read the claim’s quote and the cited source before relying on one.
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