Article
Environmental Sciences
Wei Yan, Wen Guo, Liying Wang, Chuanyong Jing
Summary: This study compared the effects of extracellular polymeric substances (EPS) on abiotic and biotic ferrihydrite transformation, revealing that EPS could inhibit secondary Fe mineral nucleation by complexing with Fe(III) intermediates while also accelerating biotic ferrihydrite bioreduction and constraining mineralization. The chemical properties of EPS, especially polar functional groups, play a crucial role in determining its effects on ferrihydrite biotransformation.
SCIENCE OF THE TOTAL ENVIRONMENT
(2021)
Article
Engineering, Environmental
Zhou Jiang, Mengjie Cui, Li Qian, Yongguang Jiang, Liang Shi, Yiran Dong, Junxia Li, Yanxin Wang
Summary: This study investigated the intermediates and stoichiometry between Fe(II) and IO3- reaction, as well as the relative contribution of abiotic and biotic IO3- reduction in the presence of Fe(III). The findings suggest that abiotic IO3- reduction by biogenic Fe(II) predominated under iron-rich conditions, while biotic IO3- reduction by DmsEFAB played a more dominant role under iron-poor conditions.
ENVIRONMENTAL SCIENCE & TECHNOLOGY
(2023)
Article
Microbiology
Li Wengang, Chen Fang, Zhong Rong, Chen Cuihong
Summary: This study found that biochar derived from wheat straw can accelerate the degradation of roxarsone and promote the growth of Shewanella oneidensis MR-1. The effects were enhanced with increasing pyrolysis temperature, as indicated by the changes in biochar properties such as specific surface area and condensation degree.
FRONTIERS IN MICROBIOLOGY
(2022)
Article
Engineering, Environmental
Yuan Li, Kai Liu, Rongrong Mao, Boya Liu, Lei Cheng, Xianyang Shi
Summary: This study examines the chemotactic behaviors of electroactive bacteria (EAB) Shewanella oneidensis MR-1 towards nitroaromatic compounds (NACs) and reveals the underlying molecular mechanism. The research also shows that external riboflavin enhances the chemotaxis response and bioavailability of NACs.
JOURNAL OF HAZARDOUS MATERIALS
(2022)
Article
Biochemical Research Methods
Kathryne C. Ford, Joshua A. M. Kaste, Yair Shachar-Hill, Michaela A. TerAvest
Summary: This study presents a pipeline for deleting a conditional essential gene from the genome of Shewanella oneidensis bacteria. The effects of gene deletions on cell growth and survival were analyzed using Flux Balance Analysis and gene knockdown experiments. The results indicate that the deleted gene is not essential for survival, providing a foundation for further genetic engineering.
ACS SYNTHETIC BIOLOGY
(2022)
Article
Biotechnology & Applied Microbiology
Alejandra Hernandez-Santana, Joseph M. Suflita, Mark A. Nanny
Summary: This study highlights the role of Shewanella oneidensis and its strains in the corrosion of steel through DET and H2 transfer mechanisms. The experiments demonstrate that S. oneidensis accelerates the corrosion rate of steel through DET, and the loss of DET capability significantly reduces the corrosion rate.
INTERNATIONAL BIODETERIORATION & BIODEGRADATION
(2022)
Article
Microbiology
Yicheng Wang, Jiale Fan, Yonglin Shen, Fan Ye, Zhiying Feng, Qianning Yang, Dan Wang, Xunchao Cai, Yanping Mao
Summary: The molecular mechanism of microbial bromate reduction and the genes involved in this process were identified in the study. It was found that Shewanella oneidensis MR-1 can reduce bromate to bromide under microaerobic conditions, and genes such as MtrB, MtrC, CymA, GspD, and DmsA are involved in this reduction. Similar genes were also found in other Shewanella species.
FRONTIERS IN MICROBIOLOGY
(2022)
Article
Green & Sustainable Science & Technology
Dan Luo, Hong Ding, Ting Guo, Xiangling Li, Tianshun Song, Jingjing Xie
Summary: Microbial electrosynthesis (MES) is an attractive technology for converting CO2 into chemicals. It was found in this study that using a conductive bio-abiotic composite as the cathode can enhance the rate and yield of hydrogen evolution reaction.
Article
Engineering, Chemical
Xizi Long, Hongrui Zhang, Xian Cao, Hui Wang, Kohei Shimokawa, Huimei Chi, Chengming Zhang, Akihiro Okamoto, Xianning Li
Summary: The research shows that Shewanella oneidensis MR-1 can oxidize manganese Mn(II) to form Mn2O3 nanoparticles, driven by cytochrome c reductase Complex III. Genomic analysis indicates that genes encoding Complex III were upregulated during the oxidation process, associated with the inability of mutants to oxidize.
SEPARATION AND PURIFICATION TECHNOLOGY
(2022)
Article
Chemistry, Multidisciplinary
Meihui Zhuo, Xiangchun Quan, Zhiqi Gao, Ruoyu Yin, Yanping Quan
Summary: In this study, incorporating conductive Fe into matured anaerobic granular sludge (AGS) through a biologically induced mineralization process was found to enhance methane (CH4) production. The presence of biogenic Fe in AGS improved the interspecies electron transfer (IET) and increased CH4 production. The electrochemical characterizations showed that biogenic Fe not only increased the capacitance and conductivity of AGS, but also enhanced the electrochemical activity of extracellular polymer substances (EPSs), facilitating direct IET between methanogens and syntrophic acidogens. The presence of biogenic Fe also increased the production of redox-active substances in EPS and the abundance of specific bacteria, further promoting IET and CH4 production. This study provides a novel biosynthesis strategy for enhancing the IET process and energy recovery of AGS.
ACS SUSTAINABLE CHEMISTRY & ENGINEERING
(2023)
Article
Environmental Sciences
Mengna Chen, Xi Xie, Yang Yang, Ban Gao, Jia Wang, Zuoming Xie
Summary: Substitution of aluminum inhibits the transformation of iron oxides and decreases the bio-reduction rate constants of ferrihydrite. The presence of aluminum leads to the formation of akaganeite instead of magnetite during the biological reduction process. These findings have implications for predicting contaminant migration in groundwater systems.
ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH
(2023)
Article
Environmental Sciences
Qian Li, Yunqing Huang, Yizhou Du, Xiaoli Feng, Jie Dong, Jing Zhu, Yaowen Li, Guowei Zhang, Danni Ding
Summary: This study aims to address the issues in practical application of azo dye biodecolorization, such as solid-liquid separation, sensitivity to toxic dyes, and reusability, by using a cell immobilization strategy. The results show that immobilized cells of Shewanella oneidensis MR-1 can effectively decolorize cationic red X-GRL under aerobic conditions. The biodecolorization process is influenced by various factors, but optimal conditions for X-GRL degradation are identified. Furthermore, the immobilized MR-1 cells demonstrate excellent reusability and long-term degradation activity, as well as a reduction in phytotoxicity of X-GRL.
WATER AIR AND SOIL POLLUTION
(2023)
Article
Biotechnology & Applied Microbiology
Atsumi Hirose, Atsushi Kouzuma, Kazuya Watanabe
Summary: Bioelectrochemical systems (BESs) utilize electrochemical interactions between electrochemically active bacteria (EAB) and electrodes, attracting considerable attention. Research suggests that hydrogen can promote specific bacteria's current generation and cell growth, while the cycling of hydrogen may hinder the quantitative evaluation of organic substrate-dependent current generation in BESs.
JOURNAL OF BIOSCIENCE AND BIOENGINEERING
(2021)
Article
Biochemical Research Methods
Yaru Chen, Meijie Cheng, Xueru Feng, Xiaolong Niu, Hao Song, Yingxiu Cao
Summary: This study developed CRISPR-Cas systems suitable for AT-rich sequences and demonstrated their potential for genome editing in S. oneidensis, including gene deletion, gene replacement, and gene insertion.
ACS SYNTHETIC BIOLOGY
(2022)
Article
Biochemical Research Methods
Yaru Chen, Xiaolong Niu, Meijie Cheng, Luxin Wang, Panxing Sun, Hao Song, Yingxiu Cao
Summary: In this study, a CRISPRa and CRISPRi system was developed for gene regulation in S.oneidensis, which significantly improved EET efficiency and accelerated dye degradation.
ACS SYNTHETIC BIOLOGY
(2022)
Article
Microbiology
Hugo Emiliano de Jesus, Renato S. Carreira, Simone S. M. Paiva, Carlos Massone, Alex Enrich-Prast, Raquel S. Peixoto, Jorge L. Mazza Rodrigues, Charles K. Lee, Craig Cary, Alexandre S. Rosado
Summary: The polar regions have low richness and diversity in plants and animals, with microbial diversity being crucial for the ecological chain. The Antarctic continent faces anthropogenic contamination and challenges in implementing clean recovery strategies due to temperature fluctuations. A study on oil-contaminated soil showed that nutrient-amended treatments under freeze-thaw cycles enhanced bacterial groups with biodegradation potential, providing a baseline for further studies on improving bioremediation strategies in environments affected by freeze-thaw cycles.
Article
Biotechnology & Applied Microbiology
Fernanda Jimenez Otero, Grayson L. Chadwick, Matthew D. Yates, Rebecca L. Mickol, Scott H. Saunders, Sarah M. Glaven, Jeffrey A. Gralnick, Dianne K. Newman, Leonard M. Tender, Victoria J. Orphan, Daniel R. Bond
Summary: A study on a strain of Geobacter sulfurreducens lacking four of five outer membrane cytochrome complexes found that its biofilm growth is faster and produces greater current density. This increased performance is attributed to denser cell packing close to the electrode and higher metabolic rates per cell, as indicated by increased rates of N-15 incorporation. Additionally, the engineered strain shows a higher rate of electron transfer through biofilms compared to the wild type, suggesting a streamlined electron transfer pathway for enhanced current production.
APPLIED AND ENVIRONMENTAL MICROBIOLOGY
(2021)
Article
Biotechnology & Applied Microbiology
Abhiney Jain, Benjamin M. Bonis, Jeffrey A. Gralnick
Summary: This study explores the possibility of protein-mediated and metabolic by-product-mediated Fe(II) oxidation in Marinobacter subterrani JG233. Results suggest that M. subterrani is unlikely to facilitate Fe(II) oxidation under microaerobic conditions. The observed Fe(II) oxidation phenotype is likely a result of oligo-heterotrophic activity, shifting the location of oxygen-mediated oxidized iron bands.
APPLIED AND ENVIRONMENTAL MICROBIOLOGY
(2021)
Article
Microbiology
Isabel R. Baker, Bridget E. Conley, Jeffrey A. Gralnick, Peter R. Girguis
Summary: Some bacteria and archaea have evolved the ability to use extracellular electron transfer (EET) as a means of energy metabolism. The MtrCAB system, which transfers electrons from metabolic substrates to electron acceptors outside the cell, has been found in a diverse range of bacteria. These findings highlight the broad relevance of EET to different taxa and biogeochemical cycles in our biosphere and provide a foundation for further research on its evolution and role in Earth's redox landscape.
Review
Biochemical Research Methods
Lina J. Bird, Biki B. Kundu, Tanya Tschirhart, Anna D. Corts, Lin Su, Jeffrey A. Gralnick, Caroline M. Ajo-Franklin, Sarah M. Glaven
Summary: Electroactive bacteria can produce or consume electrical current through extracellular electron transfer, enabling a range of technologies. Harnessing and controlling these pathways using bioengineering and synthetic biology may push the limits of established technologies. Recent advancements in genetic tools for manipulating electroactive bacteria offer new possibilities for future electrochemical applications.
ACS SYNTHETIC BIOLOGY
(2021)
Article
Biotechnology & Applied Microbiology
Nicholas W. Haas, Abhiney Jain, Zachary Hying, Sabrina J. Arif, Thomas D. Niehaus, Jeffrey A. Gralnick, Kathryn R. Fixen
Summary: The simultaneous use of carbon and reduced metals by bacteria in aquatic environments is widespread. Studying the mechanism of this process can enhance our understanding of biogeochemical cycles. Rhodopseudomonas palustris bacteria can use both light and organic compounds for energy and as a source of carbon and electrons. They can also use Fe(II) oxidation to promote higher growth yields when provided with an oxidized carbon compound. The regulatory mechanism for this process is dependent on the redox-sensing two-component system, RegSR.
APPLIED AND ENVIRONMENTAL MICROBIOLOGY
(2022)
Article
Biochemical Research Methods
Fengjie Zhao, Marko S. Chavez, Kyle L. Naughton, Christina M. Niman, Joshua T. Atkinson, Jeffrey A. Gralnick, Mohamed Y. El-Naggar, James Q. Boedicker
Summary: This study developed a technique using a light-induced genetic circuit to control the formation of bacterial biofilms, allowing for patterned biofilms on transparent electrodes with tunable conduction. The intrinsic conductivity of the biofilms was quantified and validated through electrochemical measurements and simulations, providing insights into a collision-exchange electron transport mechanism.
ACS SYNTHETIC BIOLOGY
(2022)
Article
Microbiology
Abhiney Jain, Madison J. Kalb, Jeffrey A. Gralnick
Summary: Components of two proposed electron transfer pathways from neutrophilic Fe(II) oxidizing bacteria were expressed in another microbial model, indicating that the electron transfer mechanism of these bacteria may be more complicated than previously thought.
Article
Microbiology
Abhiney Jain, Anaisa Coelho, Joana Madjarov, Catarina M. Paquete, Jeffrey A. Gralnick
Summary: Fe(II)-oxidizing bacteria are crucial in biogeochemical cycles and perform extracellular electron transfer through the Mto pathway. The electron transport proteins required for the growth of Sideroxydans species remain understudied, and there is debate about the functionality and directionality of these proteins.
Article
Microbiology
Taniya RoyChowdhury, Lisa M. Bramer, Joseph Brown, Young-Mo Kim, Erika Zink, Thomas O. Metz, Lee Ann McCue, Heida L. Diefenderfer, Vanessa Bailey
Summary: This study presents observations from a laboratory-controlled study on the impacts of extreme wetting and drying on a wetland soil microbiome. The results demonstrate the predictive power of soil metabolites for bacterial community structure formation.
Article
Microbiology
Andrew W. Grenfell, Peter J. Intile, John A. McFarlane, Dani C. Leung, Khalid Abdalla, Michael C. Wold, Eric D. Kees, Jeffrey A. Gralnick
Summary: Phages exert selective pressure on bacteria, influencing and shaping microbial populations. This study discovered a zebrafish-associated phage called Shewanella phage FishSpeaker, which uses outer membrane decaheme cytochrome OmcA and the flagellum to recognize and infect susceptible cells.
JOURNAL OF BACTERIOLOGY
(2023)
Article
Biochemical Research Methods
David J. Degnan, Kevin J. Zemaitis, Logan A. Lewis, Lee Ann McCue, Lisa M. Bramer, James M. Fulcher, Dusan Velickovic, Ljiljana Pasa-Tolic, Mowei Zhou
Summary: Due to its advantages, matrix-assisted laser desorption/ionization mass spectrometry (MALDI-MS) has become a popular method for identifying molecular isotope profiles in biological samples. However, MALDI-MS data often lack tandem MS fragmentation data, requiring the use of external databases for compound identification. Existing software tools for MALDI-MS are mainly designed for small molecules and cannot be easily adapted to protein data. This study introduces an R package called IsoMatchMS, which allows the automated annotation of MALDI-MS data for multiple data types and simplifies downstream analysis.
JOURNAL OF THE AMERICAN SOCIETY FOR MASS SPECTROMETRY
(2023)
Article
Microbiology
Madison J. Kalb, Andrew W. Grenfell, Abhiney Jain, Jane Fenske-Newbart, Jeffrey A. Gralnick
Summary: In this study, a recombineering workflow using five phage-encoded recombinases was developed to edit the genomes of three PGPR strains. By introducing point mutations, the maximum recombineering efficiencies were achieved. This work validates the potential of genetic manipulation in the Pseudomonas genus using these tools.
MICROBIOLOGY SPECTRUM
(2023)
Article
Biochemical Research Methods
Fengjie Zhao, Marko S. Chavez, Kyle L. Naughton, Christina M. Niman, Joshua T. Atkinson, Jeffrey A. Gralnick, Mohamed Y. El-Naggar, James Q. Boedicker
Summary: This study developed a facile technique for controlling the formation of electroactive biofilms by patterning conductive biofilms of Shewanella oneidensis through the regulation of aggregation protein expression. The technique has implications for both studying and harnessing bioelectronics.
ACS SYNTHETIC BIOLOGY
(2022)
Article
Microbiology
Isabel R. Baker, Bridget E. Conley, Jeffrey A. Gralnick, Peter R. Girguis
Summary: The study reveals that genes encoding the EET system MtrCAB are widespread in diverse bacteria, highlighting the ubiquity and potential impact of EET in our biosphere. These genes have been mainly disseminated through horizontal transfer, with changes observed in different lineages indicating adaptations to changing environments.