Review
Green & Sustainable Science & Technology
Pankaj Kumar Gupta, Hassana Ibrahim Mustapha, Bhaskar Singh, Yogesh Chandra Sharma
Summary: This paper reviews the feasibility of using neat biodiesel as a biostimulator in the treatment of diesel and biodiesel blends contaminated soil and groundwater resources. It suggests that the successive bioaugmentation with neat biodiesel as a biostimulant can achieve more than 98% degradation for petroleum compounds.
SUSTAINABLE ENERGY TECHNOLOGIES AND ASSESSMENTS
(2022)
Article
Environmental Sciences
Emilio Ritore, Bruno Coquelet, Carmen Arnaiz, Jose Morillo, Jose Usero
Summary: This study determined the most effective surfactants for remediating gasoline and diesel-contaminated soil by integrating soil texture and organic matter information. Anionic surfactants showed better removal rates for hydrocarbons compared to non-ionic surfactants, with results suggesting preferential desorption on different hydrocarbon ranges.
ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH
(2022)
Article
Environmental Sciences
Christina Leontari, Eleni Kastanaki, Ioannis Moukazis, Evangelos Gidarakos
Summary: This study focused on using thermal desorption to remediate contaminated soil from a refinery, and then utilizing the treated soil for geopolymer formation to produce useful building materials. Results showed that the geopolymer with 50% metakaolin and 50% remediated soil had negligible content of organic pollutants, the toxic metals were immobilized, and the strength increased, providing significant recycling benefits.
JOURNAL OF ENVIRONMENTAL MANAGEMENT
(2021)
Article
Environmental Sciences
Dexu Kong, Zhe Liu, Juan Wu
Summary: This study investigated the effect of combined utilization of urea and biochar on oil-contamination remediation in an eastern China oil-field soil. The results showed that the combined treatment reduced total petroleum hydrocarbons by 78.6% and enhanced soil enzyme activities and gene abundances related to pollutant degradation. Moreover, the treatment influenced soil microbial diversity, metabolite pathways, and the microbial network. The pot experiment confirmed the positive impact of the combined treatment on ryegrass growth. Overall, this research demonstrated the feasibility of using biochar and urea together for the remediation of oil-contaminated soil.
LAND DEGRADATION & DEVELOPMENT
(2023)
Article
Environmental Sciences
Luge Rong, Xuehao Zheng, Belay Tafa Oba, Chenbo Shen, Xiaoxu Wang, Hui Wang, Qing Luo, Lina Sun
Summary: The study found that inoculating Bacillus methylotrophicus and adding rhamnolipid can effectively degrade TPH in petroleum-contaminated soil. After remediation, the abundance of indigenous petroleum-degrading bacteria increased significantly, and the interaction among microorganisms can promote non-specific oxidases to remove TPH in soil.
Article
Environmental Sciences
Tong Zhang, Jujin Cheng, Hanyue Tan, Shuai Luo, Yuanyuan Liu
Summary: The study demonstrates that by separating soil particles by the size of 125 μm before elution, as high as 80% of petroleum hydrocarbons can be efficiently removed from contaminated soil using a surfactant mixture.
JOURNAL OF ENVIRONMENTAL MANAGEMENT
(2022)
Article
Environmental Sciences
Bo Tang, Haopu Xu, Fengmin Song, Hongguang Ge, Li Chen, Siyu Yue, Wushan Yang
Summary: Field experiments showed that both ordinary biochar and PEI modified biochar could effectively remediate Cd-contaminated soil, improve soil quality, and passivate Cd in soil. Compared to ordinary biochar, PEI modified biochar demonstrated a more significant passivation effect on Cd in soil.
ENVIRONMENTAL RESEARCH
(2022)
Article
Microbiology
Xuehao Zheng, Belay Tafa Oba, Chenbo Shen, Luge Rong, Bin Zhang, Ling Huang, Lujie Feng, Jiani Liu, Tiantian Du, Yujie Deng
Summary: This study established six different surfactant-enhanced microbial remediation treatments on petroleum hydrocarbon-contaminated soil. The results showed that rhamnolipid-enhanced Bacillus methylotrophicus remediation achieved the highest removal rate. The assembly process of bacterial communities was found to be impacted by deterministic factors, and a significant positive correlation was observed between the deterministic assembly process and the removal rate of petroleum hydrocarbons.
FRONTIERS IN MICROBIOLOGY
(2023)
Review
Green & Sustainable Science & Technology
Jun Lan, Fang Wen, Yongxiang Ren, Guangli Liu, Yi Jiang, Zimeng Wang, Xiuping Zhu
Summary: Petroleum contamination in soils is a global problem that seriously threatens environmental safety and human health. Recent studies have shown that bioelectrokinetic and bioelectrochemical remediation techniques are feasible and environmentally friendly methods for removing petroleum contaminants from soils. This review summarizes the progress and development of these technologies, including their working principles, removal efficiencies, influencing factors, and limitations. The potentials, challenges, and future perspectives of these technologies are also discussed to promote their widespread implementation on a large scale.
ENVIRONMENTAL SCIENCE AND ECOTECHNOLOGY
(2023)
Article
Materials Science, Multidisciplinary
Nuria Roca, Maite Garcia-Valles, Pura Alfonso
Summary: Contaminated soils from a metal smelting industry area were used to make glass by vitrification as a remediation technique, with main pollutants being Cu, Pb, and Zn. The appropriate ratio of soil and Na2CO3, as well as key crystallization temperatures obtained from thermal analysis, were crucial in the process. The effectiveness of the method was confirmed by the low leached element contents in the glass compared to European legislation limits.
Article
Environmental Sciences
Sang Hyun Kim, Heesoo Woo, Seongnam An, Jaeshik Chung, Seunghak Lee, Seungwoo Lee
Summary: This study assessed contaminated soils from two former military bases in South Korea to understand the factors influencing landfarming efficacy. The results showed that the distribution range and properties of unresolved complex mixture (UCM) played a critical role in determining the suitability of landfarming as a remedial option.
Article
Environmental Sciences
Yongjie Xue, Linfeng Chen, Lingyan Xiang, Yi Zhou, Teng Wang
Summary: A novel electromagnetic induction low temperature thermal desorption treatment (EMI LTTD) for petroleum hydrocarbons contaminated soil was investigated. Increasing the heating temperature significantly increased the removal rate of total petroleum hydrocarbons (TPH). The optimal conditions for potentially practical application were found to be a temperature of 216 degrees C, residence time of 21 min, and moisture content of 18%.
JOURNAL OF ENVIRONMENTAL MANAGEMENT
(2023)
Article
Environmental Sciences
Jidong Liang, Sha Gao, Zijun Wu, Huub H. M. Rijnaarts, Tim Grotenhuis
Summary: This study utilized DNA-stable isotope probing (SIP) to identify specific bacterial degraders in petroleum contaminated soil during natural attenuation (NA) and bioaugmentation (BA) processes. The results showed that BA played a significant role in PHE degradation, with remarkable alterations to microbial communities.
Review
Engineering, Environmental
Caroline Visentin, Adan William da Silva Trentin, Adeli Beatriz Braun, Antonio Thome
Summary: The nano scale zero valent iron (nZVI) is widely used in remediation processes, with a growing emphasis on sustainable remediation. A study identified nine nZVI production methods, with the milling method scoring the best in terms of environmental aspects and the ultrasonic wave method scoring the worst.
JOURNAL OF HAZARDOUS MATERIALS
(2021)
Article
Environmental Sciences
Mingxin Wang, Tianci Yang, Yaping Liao
Summary: The petroleum-contaminated soil (PCS) was treated by oxygen-limited pyrolysis and converted into carbonized soil (CS) as persulfate activator for efficient remediation and value-added reuse strategy. The effects of pyrolysis temperature and retention time on the remediation efficiency of PCS and the degradation efficiency of aniline (AN) by CS-activated persulfate oxidation system were investigated. The results showed that when the pyrolysis temperature is 500 degrees C and the retention time is 60 min, the total petroleum hydrocarbon removal rate of PCS reaches 99.46%.
WATER AIR AND SOIL POLLUTION
(2023)
Article
Chemistry, Multidisciplinary
Yong Woong Jun, Eddy Albarran, David L. Wilson, Jun Ding, Eric T. Kool
Summary: Mitochondrial function declines with aging and neurodegeneration, largely due to accumulated mutations in mtDNA from deficient DNA repair. A fluorescent probe, UBER, was used to visualize mitochondrial BER activity, showing increased repair under oxidative stress and time delay between stress onset and BER initiation. Cells lacking MTH1 exhibited elevated demand for BER activity during extended stress, while absence of OGG1 limited glycosylation capacity.
ANGEWANDTE CHEMIE-INTERNATIONAL EDITION
(2022)
Article
Chemistry, Multidisciplinary
Biswarup Jash, Eric T. Kool
Summary: In this study, we investigated the acylation reactivity of RNA 2'-OH groups and identified the strong influence of steric and inductive effects on the reaction. These findings provide insights into new strategies for enhancing conjugation and mapping of RNA.
CHEMICAL COMMUNICATIONS
(2022)
Article
Microbiology
Mericien Venzon, Ritika Das, Daniel J. Luciano, Julia Burnett, Hyun Shin Park, Joseph Cooper Devlin, Eric T. Kool, Joel G. Belasco, E. Jane Albert Hubbard, Ken Cadwell
Summary: Microbial byproducts play a crucial role in the reproductive development of nematodes by affecting their fertility and hatching abilities through alterations in arginine and aldehyde levels.
CELL HOST & MICROBE
(2022)
Meeting Abstract
Biochemistry & Molecular Biology
Emily M. Harcourt, Yong Woong Jun, David L. Wilson, Emily D. Ledgerwood, Eric T. Kool
Article
Biochemistry & Molecular Biology
Yujeong Lee, Yoshiyuki Onishi, Lisa McPherson, Anna M. Kietrys, Marian Hebenbrock, Yong Woong Jun, Ishani Das, Shanthi Adimoolam, Debin Ji, Michael G. Mohsen, James M. Ford, Eric T. Kool
Summary: Impaired DNA repair activity is associated with increased cancer rates. This study found that certain tyrosine kinase inhibitors, such as nilotinib, can activate the repair enzyme MTH1, which cleanses oxidatively damaged nucleotides. Structural optimization resulted in compounds that strongly activate MTH1 and decrease mutagenic nucleotides in cellular DNA. These findings suggest that MTH1 activators may be a promising strategy to suppress tumorigenesis in individuals with elevated cancer risks.
ACS CHEMICAL BIOLOGY
(2022)
Article
Multidisciplinary Sciences
Yong Woong Jun, Emily M. Harcourt, Lu Xiao, David L. Wilson, Eric T. Kool
Summary: This article presents a convenient and versatile method for general fluorescence labeling of DNAs. It utilizes deaminated DNA bases and aminooxy-substituted rotor dyes to mark label positions and trap AP sites, resulting in high emission intensities for fluorescence labeling of oligonucleotides and dsDNA.
NATURE COMMUNICATIONS
(2022)
Review
Chemistry, Multidisciplinary
Yong Woong Jun, Eric T. Kool
Summary: DNA repair enzymes play a significant role in protecting cellular DNA from damage and are closely associated with cancer and inflammation pathways. The development of new tools and methods has greatly contributed to the study of these enzymes and their potential applications in diagnostics and therapies. This article provides an overview of the development of chemical tools for studying DNA repair processes and discusses the insights gained from their application. The article also highlights the importance of future research in the field of biomedicine and human health.
ACCOUNTS OF CHEMICAL RESEARCH
(2022)
Article
Chemistry, Multidisciplinary
Lu Xiao, Linglan Fang, Sayantan Chatterjee, Eric T. Kool
Summary: RNA 2'-OH acylation is widely used for structure mapping and conjugation, and depends on selective reactions with unpaired nucleotides. We prepared a range of structurally diverse acylimidazole reagents and used deep sequencing to study their reactivity and selectivity in a variety of RNA structures. Our results demonstrate that the reagent scaffold significantly affects reactivity profiles and highlight new acylating agents with altered selectivity, including compounds that show elevated selectivity within loops and reduced off-target reactivity in loop closing base pairs. We also discovered a simple reagent that is cell permeable and can map RNA structure in the presence of protein contacts, and describe reagents with elevated selectivity within small loops for site-selective labeling.
JOURNAL OF THE AMERICAN CHEMICAL SOCIETY
(2023)
Article
Chemistry, Multidisciplinary
Sayantan Chatterjee, Ryuta Shioi, Eric T. Kool
Summary: The nucleophilic reactivity of RNA 2'-OH groups has been applied in various RNA-related processes. In this study, it is discovered that activated small-molecule sulfonyl species can retain their reactivity in water. Reactions with ribose 2'-OH show high yields, especially for aryl sulfonyltriazole species. Additionally, an azide-substituted sulfonyltriazole reagent is developed for labeling RNA via click chemistry.
ACS CENTRAL SCIENCE
(2023)
Article
Chemistry, Multidisciplinary
Yong Woong Jun, Melis Kant, Erdem Coskun, Takamitsu A. A. Kato, Pawel Jaruga, Elizabeth Palafox, Miral Dizdaroglu, Eric T. T. Kool
Summary: High-temperature cooking damages DNA in food, which can then enter the cellular DNA and lead to genetic risks.
ACS CENTRAL SCIENCE
(2023)
Article
Chemistry, Multidisciplinary
Linglan Fang, Lu Xiao, Yong Woong Jun, Yoshiyuki Onishi, Eric T. T. Kool
Summary: The presence of a hydroxyl group at the 2'-position in ribose makes RNA susceptible to hydrolysis. In this study, reversible 2'-OH acylation was presented as a general strategy to preserve RNA stability. High-yield polyacylation of 2'-hydroxyls effectively protected RNAs from degradation, and subsequent treatment with nucleophilic reagents removed acylation adducts and recovered a wide range of RNA functions.
Article
Chemistry, Multidisciplinary
Ryuta Shioi, Lu Xiao, Sayantan Chatterjee, Eric T. Kool
Summary: The reactivity of RNA 2'-OH groups with acylating agents has been studied for high-yield conjugation of RNA strands. This study focuses on the stereoselectivity of chiral acylimidazoles in RNA reactions. The results reveal that positional selectivity and reactivity vary greatly with local RNA macro-chirality, and the chirality of the reagents has a significant impact on their reactivity. This study demonstrates new chemical strategies for selective RNA modification and probing.
Article
Biochemical Research Methods
Reema Baskar, Amy F. Chen, Patricia Favaro, Warren Reynolds, Fabian Mueller, Luciene Borges, Sizun Jiang, Hyun Shin Park, Eric T. Kool, William J. Greenleaf, Sean C. Bendall
Summary: Master transcription factors regulate cell states by driving gene-expression programs, and their abundance affects cell fate at the chromatin level. InTAC-seq method allows the study of the relationship between protein abundance and gene regulation in cells.
CELL REPORTS METHODS
(2022)
Article
Biochemistry & Molecular Biology
Lu Xiao, Linglan Fang, Eric T. Kool
Summary: The reactivity of RNA 2'-OH acylation has been extensively studied in this research. The results show that there is a wide range of reactivity among single-stranded RNA sequences, with nearest neighbors playing a significant role. Interestingly, certain small loops exhibit much higher reactivity compared to single-stranded RNAs, which is attributed to conformational constraints.
CELL CHEMICAL BIOLOGY
(2022)
Article
Chemistry, Multidisciplinary
Sergio M. Marques, Michaela Slanska, Klaudia Chmelova, Radka Chaloupkova, Martin Marek, Spencer Clark, Jiri Damborsky, Eric T. Kool, David Bodnar, Zbynek Prokop
Summary: HaloTag labeling technology has revolutionized protein chemistry and cellular biology, and a systematic analysis of different ligands has led to the discovery of an optimal protein tag selection protocol, eliminating the need for expensive and complex protein engineering.
Article
Chemistry, Multidisciplinary
Alexander M. Prophet, Kritanjan Polley, Gary J. Van Berkel, David T. Limmer, Kevin R. Wilson
Summary: The oxidation kinetics of iodide by ozone at the air-water interface is studied in single microdroplets. Molecular simulations and kinetic modeling are used to understand the underlying multiphase mechanism.
Article
Chemistry, Multidisciplinary
Rong Zhang, Jiajing Lan, Fei Wang, Shumei Chen, Jian Zhang
Summary: By utilizing 1,1'-ferrocene dicarboxylic acid as a chelating and surface protection ligand, we have synthesized multi-nuclear indium oxide clusters with varying nuclear sizes, including heptanuclear and thirteen-nuclear clusters. These clusters possess labile coordination sites, allowing for structural modification and self-assembly, resulting in the formation of various cluster structures.
Article
Chemistry, Multidisciplinary
Hui Wang, Hui Liu, Mingsen Wang, Jiaheng Hou, Yongjun Li, Yuancheng Wang, Yingjie Zhao
Summary: Two supramolecular complexes were prepared using CBs and M1, and their single-crystal structures were analyzed by SCXRD. The unexpected 1:2 self-assembly structure between M1 and CB[8] was discovered for the first time. These complexes exhibit unique photophysical properties and provide valuable information about the structure and photophysical properties of supramolecular complexes.
Article
Chemistry, Multidisciplinary
Chang-Hee Lee, Sookil Park, Sanggil Kim, Ji Young Hyun, Hyun Soo Lee, Injae Shin
Summary: The epidermal growth factor receptor (EGFR) is a cell-surface glycoprotein involved in cell proliferation and tumor development. This study used a fluorescently labeled EGFR to investigate its time-dependent endocytosis in live cells and found that appended glycans affect EGFR internalization. Additionally, the study detected sialic acid residues attached to EGFR on the live cell surface using FRET-based imaging. This research provides valuable insights into the cellular functions of EGFR.
Article
Chemistry, Multidisciplinary
Subhankar Sahu, Lokesh Kumar, Sumita Das, Dipti Gupta, Ruchi Anand
Summary: This study proposes a strategy that combines organic electronics with biosensor scaffolds to create a compact device for monitoring environmental aromatic pollution. By coupling biosensing protein MopR with an organic electrochemical transistor (OECT), a sensor module capable of efficient detection of phenol was designed. Exclusive phenol detection with minimal loss of sensitivity could be achieved in complex pollutant mixtures and real environmental samples.
Review
Chemistry, Multidisciplinary
Changseok Lee, Hyung-Joon Kang, Sungwoo Hong
Summary: The formation of C-N bonds through hydroamination reactions catalyzed by nickel hydrides has been a topic of recent interest. This approach offers a way to efficiently transform a variety of alkene and alkyne substrates into compounds enriched with C-N bonds. The review provides a concise overview of the underlying reaction mechanisms and aims to stimulate further progress in NiH-catalytic techniques and catalyst design.
Article
Chemistry, Multidisciplinary
Yueci Wu, Lu-Lu Sun, Hai-Hao Han, Xiao-Peng He, Weiguo Cao, Tony D. James
Summary: Drug-induced liver injury (DILI) is a common cause of acute liver failure in the USA and Europe, but most cases can be recovered or prevented by discontinuing the offending drug. Recent research has found that peroxynitrite (ONOO-) can be used as a potential indicator for early diagnosis of DILI, and there is an urgent need to establish a method to detect and track peroxynitrite in DILI cases. In this study, a FRET-based nano fluorescent probe CD-N-I was developed, which showed high selectivity and sensitivity in detecting peroxynitrite. The probe successfully detected exogenous peroxynitrite in live cells and endogenous peroxynitrite in APAP-induced liver injury of HepG2 cells.
Article
Chemistry, Multidisciplinary
Dmitry L. Lipilin, Mikhail O. Zubkov, Mikhail D. Kosobokov, Alexander D. Dilman
Summary: This article describes a direct photocatalytic method for the thiolation of unprotected acids, which was previously challenging. By using a thionocarbonate reagent with an N-O bond, the efficient conversion of carboxylic acids to thiols is achieved.
Article
Chemistry, Multidisciplinary
Jason Malenfant, Lucille Kuster, Yohann Gagne, Kouassi Signo, Maxime Denis, Sylvain Canesi, Mathieu Frenette
Summary: Raman microscopy can reveal compound-specific vibrational fingerprints without sample preparation. The combination of efficient theoretical calculations and a user-friendly software can accurately predict peak positions and provide match scores to assist with structure determination.
Article
Chemistry, Multidisciplinary
Jayoh A. Hernandez, Paul S. Micus, Sean Alec Lois Sunga, Luca Mazzei, Stefano Ciurli, Gabriele Meloni
Summary: Essential trace metals play crucial roles in the survival and virulence of bacterial pathogens. Helicobacter pylori requires nickel for colonization and persistence in the stomach, and NixA is an essential nickel transporter in this process. This study characterizes the selectivity and electrogenic nature of NixA-mediated nickel transport.
Article
Chemistry, Multidisciplinary
Tarali Devi, Kuheli Dutta, Jennifer Deutscher, Stefan Mebs, Uwe Kuhlmann, Michael Haumann, Beatrice Cula, Holger Dau, Peter Hildebrandt, Kallol Ray
Summary: This study emphasizes the importance of subtle electronic changes and secondary interactions in the stability of biologically relevant metal-dioxygen intermediates. It also shows that the role of the chloride ligand in stabilizing the Fe-III-(OOBu)-Bu-t moiety can extend to other anions, including the thiolate ligand.
Article
Chemistry, Multidisciplinary
Jacqueline R. Santhouse, Jeremy M. G. Leung, Lillian T. Chong, W. Seth Horne
Summary: By studying the folding kinetics and mechanism of the BdpA sequence, researchers found that altering the backbone connectivity can affect protein folding. This suggests that protein mimetic chains have a significant degree of plasticity in transitioning between unfolded and folded states.
Article
Chemistry, Multidisciplinary
Divanshu Gupta, Ralf Einholz, Holger F. Bettinger
Summary: This study presents the first direct spectroscopic evidence of a cyclic seven-membered iminoborane. Compared to linear amino-iminoboranes, this cyclic iminoborane exhibits weakened bond strength and lower Lewis acidity value. The study suggests that the reduced ring strain of cyclic iminoborane prevents nitrogen fixation but allows facile (2 + 2) cycloaddition reaction with C2H4.
Article
Chemistry, Multidisciplinary
Renny Mathew, Aniruddha Mazumder, Praveen Kumar, Julie Matula, Sharmarke Mohamed, Petr Brazda, Mahesh Hariharan, Brijith Thomas
Summary: This study reveals the packing arrangement of partially disordered nitro-perylenediimide (NO2-PDI) using a synergistic approach that combines 3D ED, ssNMR, and DFT techniques. By overcoming these challenges, this methodology opens up new avenues for material characterization, driving exciting advancements in the field.
