Article
Microbiology
Wei Xiang, Shan Hong, Yanfen Xue, Yanhe Ma
Summary: Rhodococcus sp. strain CH91 has the ability to use long-chain n-alkanes as its sole carbon source and two new genes (alkB1 and alkB2) encoding AlkB-type alkane hydroxylase were identified. The study found that both alkB1 and alkB2 genes are important for the degradation of C16-C36 n-alkanes, with alkB2 playing a more significant role than alkB1.
Article
Environmental Sciences
Ju Hye Baek, Kyung Hyun Kim, Yunhee Lee, Sang Eun Jeong, Hyun Mi Jin, Baolei Jia, Che Ok Jeon
Summary: A new bacterium, Rhodococcus sp. S2-17, was isolated from contaminated sediment and found to have the ability to completely degrade the emerging organic pollutant benzophenone-3 (BP-3). Through various analyses and studies, the catabolic pathway and genes involved in BP-3 degradation were identified. It was discovered that strain S2-17 may degrade BP-3 by recruiting the cytochrome P450 complex and alpha/beta hydrolase enzymes.
ENVIRONMENTAL POLLUTION
(2022)
Article
Environmental Sciences
Zhengnan Long, Xiuguo Wang, Yingjun Wang, Huawei Dai, Changhao Li, Yongfei Xue, Yanfei Deng, Houpu Zhang, Yunlong Yu, Hua Fang
Summary: A novel bacterium Rhodococcus sp. CX-1 was isolated from contaminated soil, capable of efficiently degrading carbendazim as its sole source of carbon and energy. The degradation rate of carbendazim was highest at 40 degrees C and pH 7.0 for strain CX-1. Transcriptome analysis predicted two different pathways for carbendazim degradation.
SCIENCE OF THE TOTAL ENVIRONMENT
(2021)
Article
Environmental Sciences
Gang Zhao, Yanan Wu, Xu Wang, Meng Chen, Li Li
Summary: Plasmid-mediated bioaugmentation can effectively remove recalcitrant contaminants, with different contaminants exerting varying degrees of influence on the spread of catabolic plasmids within activated sludge bacteria. High levels of dibenzo-p-dioxin led to a significant increase in the proportion of transconjugants bearing catabolic plasmids. The contaminants also increased levels of ROS and extracellular LDH, indicating their toxicity and impact on cell membrane permeability in bacteria.
ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH
(2022)
Article
Microbiology
Fei Yu, Wenqi Luo, Yuyang Li, Shanshan Meng, Xianbin Lin, Lele Li, Xueying Ye, Hui Wang, Tao Peng, Tongwang Huang, Zhong Hu
Summary: In this study, a Rhodococcus strain capable of transforming HBCDs was isolated and seven potential transformation products were identified. The toxicity of these low-level transformation products should not be ignored.
CURRENT MICROBIOLOGY
(2022)
Article
Environmental Sciences
Hongming Liu, Shiyan Liu, Huijun Liu, Mengna Liu, Xiaye Yin, Peng Lu, Qing Hong, Aimin Liu, Rui Wan, Shangping Fang
Summary: The widely used pesticide pretilachlor has been contaminating the environment for many years. This study investigated the ability of Rhodococcus sp. B2 to degrade pretilachlor in soil and found that it can drive the enrichment of potential pretilachlor-degrading bacteria. The results suggest that strain B2 has the potential to remediate pretilachlor-contaminated soils.
SCIENCE OF THE TOTAL ENVIRONMENT
(2023)
Article
Multidisciplinary Sciences
Irina B. Ivshina, Anastasiia V. Krivoruchko, Maria S. Kuyukina, Tatyana A. Peshkur, Colin J. Cunningham
Summary: This study investigated the mechanisms of hydrophilic chemical dissolution-crystallization, inhibition of crystallization by phenylurea compounds, and phase transition of aggregates. The results showed that the hydrophilic chemical dissolution-crystallization activity was influenced by the concentration of hydrophilic groups, pH value, and temperature in the solution. Phenylurea compounds could inhibit the growth of crystals in the solution by forming hydrogen bonds with the crystal surface. In addition, temperature changes also had an impact on the phase transition of aggregates. Overall, these findings provide a theoretical basis and experimental evidence for the application of hydrophilic chemical dissolution-crystallization.
SCIENTIFIC REPORTS
(2022)
Article
Engineering, Environmental
Hongyun Nie, Maiqian Nie, Zhenjun Diwu, Lei Wang, Han Yan, Xuerui Bai
Summary: The study optimized the immobilization of R. qingshengii strain FF on PEF surface and demonstrated its high efficiency in degrading TPH in mimic PW, showing the potential of using immobilized R. qingshengii strain FF in treating real PW.
JOURNAL OF HAZARDOUS MATERIALS
(2021)
Article
Environmental Sciences
Kejian Tian, Qi Meng, Shuaiguo Li, Menghan Chang, Fanxing Meng, Yue Yu, Han Li, Qing Qiu, Junhua Shao, Hongliang Huo
Summary: Steroid estrogens are found in water sources and soils, posing serious threats to human health and ecological safety. This study investigates the role of actinomycetes in degrading E2 through the 4,5-seco pathway, shedding light on the functions of specific genes involved in the process.
ENVIRONMENTAL POLLUTION
(2022)
Article
Biotechnology & Applied Microbiology
Magdalena Mulet, Margarita Gomila, Jorge Lalucat, Rafael Bosch, Ramon Rossello-Mora, Elena Garcia-Valdes
Summary: Strains 19SMN4T and ST27MN3, isolated from marine sediments, were classified as Pseudomonas stutzeri genomovar 4 but were found to be distinct from any classified Stutzerimonas. Phylogenomic analysis revealed that they represent a new species, Stutzerimonas decontaminans, closely related to Stutzerimonas songnenensis and Stutzerimonas perfectomarina. The proposed type strain is 19SMN4T (=CCUG44593T = DSM6084T = LMG18521T).
SYSTEMATIC AND APPLIED MICROBIOLOGY
(2023)
Article
Biotechnology & Applied Microbiology
Bin Zou, Ying Huang, Pan-Pan Zhang, Xiao-Ming Ding, Huub J. M. Op den Camp, Zhe-Xue Quan
Summary: The study investigates the horizontal gene transfer of CuMMO and SDIMO genes in Rhodococcus, demonstrating the ability of the recipient to utilize ethane and propane. This transfer enhances the alkane oxidation processes in bacteria, showcasing the role of plasmids in enzyme-mediated biogeochemical processes. This research highlights the importance of genetic exchange in evolutionary adaptations of microbial metabolism.
APPLIED AND ENVIRONMENTAL MICROBIOLOGY
(2021)
Article
Engineering, Environmental
Shusheng Zhang, Zijing An, Xiaomei Su, Aiqin Hou, Leilei Liu, Lihua Zhang, Qiuyang He, Faqian Sun, Zupei Lei, Hongjun Lin, Jiahou Lai
Summary: The resuscitated strain Pseudomonas sp. SAS26 showed high phenol-degrading ability in high salinity conditions, making it an important candidate for treating high-saline phenolic wastewater.
JOURNAL OF ENVIRONMENTAL CHEMICAL ENGINEERING
(2023)
Article
Multidisciplinary Sciences
Arianna Penzo, Marion Dubarry, Clementine Brocas, Myriam Zheng, Raphael M. Mangione, Mathieu Rougemaille, Coralie Goncalves, Ophelie Lautier, Domenico Libri, Marie-Noelle Simon, Vincent Geli, Karine Dubrana, Benoit Palancade
Summary: Nuclear pore complexes (NPCs) are associated with the accumulation of genotoxic R-loop structures, and their relocation is triggered by R-loop accumulation. R-loop-dependent repositioning involves interactions with the ssDNA-binding protein RPA and NPC-associated factors. Preventing R-loop-dependent relocation leads to lethality, while tethering to NPCs attenuates R-loop-dependent genetic instability.
NATURE COMMUNICATIONS
(2023)
Article
Environmental Sciences
Zhen Han, Qihua Lin, Shusheng Zhang, Xinru Zhou, Si Li, Faqian Sun, Chaofeng Shen, Xiaomei Su
Summary: The study found that the resuscitated strain LS1 has the potential to degrade polychlorinated biphenyls (PCBs), with better performance in degrading PCB 18 and 52. LS1 exhibited lower efficiency in degrading PCB 77. Additionally, LS1 can survive and remain culturable in PCB-contaminated soil for up to 70 days.
SCIENCE OF THE TOTAL ENVIRONMENT
(2023)
Article
Biotechnology & Applied Microbiology
Shi-Kai Deng, Ning-Yi Zhou
Summary: A new 4C2NP degrader NyZ417 was isolated and identified as a member within Cupriavidus genus, which utilized 4C2NP as the sole nitrogen source for growth and degraded it through an oxidative pathway. The monooxygenase encoding gene onpA(NyZ417) from its complete genome was confirmed to be involved in 4C2NP biotransformation. This study not only elucidated a functional gene for 4C2NP degradation but also provides a foundation for cleaning up 4C2NP residues in the environment.
INTERNATIONAL BIODETERIORATION & BIODEGRADATION
(2021)
Review
Microbiology
Shahbaz Raza, Jungman Kim, Michael J. Sadowsky, Tatsuya Unno
Summary: Despite the challenges in identifying sources of fecal bacteria in complex environments, advancements in qPCR and next generation sequencing technologies have shifted microbial source tracking towards culture independent methods. Metagenomic tools can provide deep insight into host specific fecal markers, while machine learning algorithms can offer statistically robust and automated platforms for optimization of resources. The successful application of machine learning models in various fields suggests that they may serve as a better alternative to traditional microbial source tracking approaches in the future.
JOURNAL OF MICROBIOLOGY
(2021)
Article
Environmental Sciences
Felipe F. C. Souza, Prince P. Mathai, Theotonio Pauliquevis, Eduardo Balsanelli, Fabio O. Pedrosa, Emanuel M. Souza, Valter A. Baura, Rose A. Monteiro, Leonardo M. Cruz, Rodrigo A. F. Souza, Meinrat O. Andreae, Cybelli G. G. Barbosa, Isabella Hrabe de Angelis, Beatriz Sanchez-Parra, Christopher Poehlker, Bettina Weber, Emil Ruff, Rodrigo A. Reis, Ricardo H. M. Godoi, Michael J. Sadowsky, Luciano F. Huergo
Summary: The Amazon rainforest plays a significant role in primary biological aerosol emissions globally, with aerosols modulating ecosystem dynamics and influencing climate. Seasonal changes in temperature, humidity, and precipitation are primary drivers of compositional changes in the Amazon aerosol microbiome. The diverse aerosol microbiota of the Amazon Rainforest is primarily impacted by seasonal changes in temperature and humidity.
SCIENCE OF THE TOTAL ENVIRONMENT
(2021)
Article
Multidisciplinary Sciences
Christopher Staley, Hossam Halaweish, Carolyn Graiziger, Matthew J. Hamilton, Amanda J. Kabage, Alison L. Galdys, Byron P. Vaughn, Kornpong Vantanasiri, Raj Suryanarayanan, Michael J. Sadowsky, Alexander Khoruts
Summary: This study compared the engraftment potential of freeze-dried microbiota administered via colonoscopy versus oral administration, finding that colonoscopic FMT resulted in quicker donor engraftment and specific increases in certain bacterial families. Further optimization of oral capsule FMT may improve engraftment efficiency and clinical efficacy.
SCIENTIFIC REPORTS
(2021)
Article
Environmental Sciences
Reda A. Abou-Shanab, Cara M. Santelli, Michael J. Sadowsky
Summary: The study showed that certain soil bacteria can enhance the availability of arsenic in soil, thus increasing arsenic uptake by Pteris vittata plants. Specific bacterial strains significantly improved arsenic uptake by P. vittata, leading to higher bioconcentration factors and potential use in large-scale soil remediation.
INTERNATIONAL JOURNAL OF PHYTOREMEDIATION
(2022)
Article
Geosciences, Multidisciplinary
Weibo Kong, Fuyuan Su, Qian Zhang, Satoshi Ishii, Michael J. Sadowsky, Samiran Banerjee, Mingan Shao, Liping Qiu, Xiaorong Wei
Summary: This study in the Loess Plateau of China reveals that soil erosion and deposition have significant impacts on bacterial communities and multifunctionality. Erosion reduces bacterial richness and multifunctionality, but deposition can alleviate these negative effects. The study suggests that sustainable soil management and restoration of degraded lands can benefit from understanding the interactions between erosion, deposition, bacterial communities, and soil multifunctionality.
Article
Environmental Sciences
Jeonghwan Jang, Valery E. Forbes, Michael J. Sadowsky
Summary: This study discovered the presence of Cutibacterium acnes strains in the gut microbiota of the marine polychaete Capitella teleta. These strains produce propionate and vitamin B-12, which are essential microbial metabolites for the host. C. acnes, as a member of the worm's core functional microbiota, is likely favored by the host gut environment.
SCIENCE OF THE TOTAL ENVIRONMENT
(2022)
Review
Environmental Sciences
Warish Ahmed, Stuart L. Simpson, Paul M. Bertsch, Kyle Bibby, Aaron Bivins, Linda L. Blackall, Silvia Bofill-Mas, Albert Bosch, Joao Brandao, Phil M. Choi, Mark Ciesielski, Erica Donner, Nishita D'Souza, Andreas H. Farnleitner, Daniel Gerrity, Raul Gonzalez, John F. Griffith, Pradip Gyawali, Charles N. Haas, Kerry A. Hamilton, Hapuarachchige Chandithal Hapuarachchi, Valerie J. Harwood, Rehnuma Haque, Greg Jackson, Stuart J. Khan, Wesaal Khan, Masaaki Kitajima, Asja Korajkic, Giuseppina La Rosa, Blythe A. Layton, Erin Lipp, Sandra L. McLellan, Brian McMinn, Gertjan Medema, Suzanne Metcalfe, Wim G. Meijer, Jochen F. Mueller, Heather Murphy, Coleen C. Naughton, Rachel T. Noble, Sudhi Payyappat, Susan Petterson, Tarja Pitkanen, Veronica B. Rajal, Brandon Reyneke, Fernando A. Roman, Joan B. Rose, Marta Rusinol, Michael J. Sadowsky, Laura Sala-Comorera, Yin Xiang Setoh, Samendra P. Sherchan, Kwanrawee Sirikanchana, Wendy Smith, Joshua A. Steele, Rosalie Subburg, Erin M. Symonds, Phong Thai, Kevin Thomas, Josh Tynan, Simon Toze, Janelle Thompson, Andy S. Whiteley, Judith Chui Ching Wong, Daisuke Sano, Stefan Wuertz, Irene Xagoraraki, Qian Zhang, Amity G. Zimmer-Faust, Orin C. Shanks
Summary: Monitoring pathogens like SARS-CoV-2 in wastewater using RT-PCR is effective for public health information, but there is a lack of standardized protocols for wastewater surveillance. Key strategies for improving accuracy include QA/QC measures, representative sampling, virus concentration, and clear data interpretation guidelines.
SCIENCE OF THE TOTAL ENVIRONMENT
(2022)
Article
Environmental Sciences
Joao Brandao, Chelsea Weiskerger, Elisabete Valerio, Tarja Pitkanen, Paivi Merilainen, Lindsay Avolio, Christopher D. Heaney, Michael J. Sadowsky
Summary: Beach sand and water are both important for human health and their microbiology has been studied for decades. The World Health Organization recently recommended including recreational beach sands in monitoring for enterococci and Fungi. Global climate change is affecting beach microbial contamination, and the changing world and human travel contribute to the spread of endemic allochthonous microbiota. In the future, alternative microbial standards will be necessary to ensure the health of beach users from both sand and water contaminants.
INTERNATIONAL JOURNAL OF ENVIRONMENTAL RESEARCH AND PUBLIC HEALTH
(2022)
Correction
Microbiology
Prince P. Mathai, Muruleedhara N. Byappanahalli, Nicholas S. Johnson, Michael J. Sadowsky
FRONTIERS IN MICROBIOLOGY
(2021)
Article
Biodiversity Conservation
Qian Zhang, Macarena M. Araya, Marcia Astorga-Elo, Gabriela Velasquez, Joaquin I. Rilling, Marco Campos, Michael J. Sadowsky, Milko A. Jorquera, Jacquelinne J. Acuna
Summary: Plant microbiota associated with pioneer plants in the Central Volcanic Zone of Andes play a crucial role in their growth and adaptation to harsh conditions. This study analyzed the composition and potential functions of rhizobacteria in Parastrephia quadrangularis plants from three volcanoes in the Atacama Desert. The results showed that Actinobacteria, Proteobacteria, Acidobacteria, and Bacteroidetes were the most abundant phyla. Each plant recruited specific rhizobacterial communities independently of the volcano slope. The predicted functions mainly involved chemoheterotrophy, nitrogen cycling, and symbiosis.
Article
Nutrition & Dietetics
Levi Teigen, Prince P. Mathai, Sharon Lopez, Michael Matson, Baila Elkin, Daria Kozysa, Amanda J. Kabage, Matthew Hamilton, Byron P. Vaughn, Michael J. Sadowsky, Alexander Khoruts
Summary: This study aimed to determine the effect of short-term plant- and animal-based eating patterns on ex vivo fecal H2S production in healthy human volunteers. The results showed that compared to animal-based diet, plant-based diet resulted in lower H2S production in most healthy individuals, although there were substantial individual variations. Taxonomic differences were observed between responders and non-responders, suggesting potential individualized H2S responsiveness to diet.
CLINICAL NUTRITION
(2022)
Article
Biodiversity Conservation
Weibo Kong, Xiaorong Wei, Yonghong Wu, Mingan Shao, Qian Zhang, Michael J. Sadowsky, Satoshi Ishii, Peter B. Reich, Gehong Wei, Shuo Jiao, Liping Qiu, Liling Liu
Summary: Afforestation can effectively rehabilitate degraded ecosystems, but it may deplete deep soil moisture, which in turn affects soil microbial community and functionality. This study found that afforestation significantly impacted soil bacterial community and functionality in a semi-arid region of China's Loess Plateau, particularly in the deep soil layers. Afforestation led to reduced bacterial diversity and functionality, increased sensitivity to changes in soil moisture, and decreased sustainability of the ecosystems. These negative impacts on deep soils are crucial for assessing the eco-environmental effects of afforestation and ensuring the sustainability of forest ecosystems in semi-arid and arid climates.
GLOBAL CHANGE BIOLOGY
(2022)
Article
Environmental Sciences
Liping Qiu, Weibo Kong, Hansong Zhu, Qian Zhang, Samiran Banerjee, Satoshi Ishii, Michael J. Sadowsky, Jianlun Gao, Changzeng Feng, Jingjing Wang, Chunliang Chen, Tianhui Lu, Mingan Shao, Gehong Wei, Xiaorong Wei
Summary: This study investigated the diversity, composition, and co-occurrence networks of rhizosphere bacteria and fungi in six halophytes and bulk soils in a semiarid inland saline ecosystem. The results showed that the enhanced association between fungi and bacteria increased the complexity of microbial co-occurring networks in halophytic rhizosphere, contributing to higher microbial functions in this saline ecosystem.
SCIENCE OF THE TOTAL ENVIRONMENT
(2022)
Article
Biochemistry & Molecular Biology
Yuyin Zhou, Zheting Bi, Matthew J. Hamilton, Li Zhang, Rui Su, Michael J. Sadowsky, Sabita Roy, Alexander Khoruts, Chi Chen
Summary: This study investigated the metabolic changes induced by FMT in rCDI patients through metabolomic analysis of urine samples. The results showed that the concentration of p-cresol sulfate in urine rapidly increased, making it a potential therapeutic indicator for the effectiveness of antibiotics and FMT.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2023)
Review
Microbiology
Hao Wang, Gary W. Feyereisen, Ping Wang, Carl Rosen, Michael J. Sadowsky, Satoshi Ishii
Summary: This study investigated the effects of bioaugmentation and biostimulation on the microbiomes and nitrate removal rates of woodchip bioreactors (WBRs). The results showed that introducing denitrifying bacteria and adding acetate can enhance the nitrate removal efficiency of WBRs. Additionally, the study found that denitrifiers are unevenly distributed in WBRs.
MICROBIOLOGY SPECTRUM
(2023)