Article
Gastroenterology & Hepatology
Linlin Cai, Yunting Xie, Liangting Shao, Haijing Hu, Xinglian Xu, Huhu Wang, Guanghong Zhou
Summary: This study identified a bacterial small RNA called SaaS playing a key role in the intestinal pathogenesis of Salmonella Enteritidis. SaaS promoted bacterial colonization in the cecum and colon, damaged the mucosal barrier, altered gut microbiota, and regulated intestinal inflammation through the P38-JNK-ERK MAPK signaling pathway. These findings highlight the importance of SaaS in the virulence of Salmonella Enteritidis in the gut.
Article
Microbiology
Lin-lin Cai, Yun-ting Xie, Hai-jing Hu, Xing-lian Xu, Hu-hu Wang, Guang-hong Zhou
Summary: This study found that Salmonella adhesive-associated sRNA (SaaS) plays a critical role in the virulence phenotype of Salmonella Enteritidis. It is activated in the simulated intestinal environment and regulates the expression of virulence target genes. SaaS promotes invasion of epithelial cells while suppressing macrophage overgrowth and destruction. Its deletion significantly reduces mortality and attenuates bacterial dissemination and systemic inflammation.
MICROBIOLOGY SPECTRUM
(2023)
Article
Food Science & Technology
Rui Dong, Xiaojie Qin, Shoukui He, Xiujuan Zhou, Yan Cui, Chunlei Shi, Yiping He, Xianming Shi
Summary: The study revealed that DsrA plays a crucial role in promoting oxidative stress resistance in S. Typhimurium by regulating the expression of antioxidant enzymes and maintaining intracellular redox balance.
Article
Infectious Diseases
Dominika Houserova, Donovan J. Dahmer, Shivam V. Amin, Valeria M. King, Emmaline C. Barnhill, Mike E. Zambrano, Meghan A. Dean, Aline Crucello, Kevin M. Aria, Michael P. Spector, Glen M. Borchert
Summary: The study revealed the important role of noncoding RNA in coordinating gene expression under environmental stress. Evidence suggests that small RNA are key drivers of Salmonella stress response. By refining the definition of sRNAs and identifying previously unannotated sRNAs, the study found that these new sRNAs have significant differential expression during carbon starvation. Deletion of one dynamically expressed sRNA during C-starvation impaired the Salmonella stress response, confirming its involvement in stress survival.
Article
Microbiology
Rui Dong, Yuan Liang, Shoukui He, Yan Cui, Chunlei Shi, Yiping He, Xianming Shi
Summary: This study identified a novel target (pflB) of small RNA DsrA and demonstrated its regulatory mechanism in S. Typhimurium. The interaction between DsrA and pflB mRNA could greatly contribute to the regulation of central carbon metabolism and intracellular redox balance in S. Typhimurium.
MICROBIOLOGY SPECTRUM
(2022)
Article
Microbiology
Ya Wang, Yanli Teng, Juan Geng, Jinzhao Long, Haiyan Yang, Guangcai Duan, Shuaiyin Chen
Summary: The study investigated the functional roles of Hfq in Shigella sonnei by constructing an hfq deletion mutant. The results showed that the hfq deletion mutant was more sensitive to antibiotics and had impaired virulence. Transcriptome analyses supported the phenotype of the hfq mutant and predicted eleven novel Hfq-dependent sRNAs potentially involved in the regulation of antibiotic resistance and/or virulence in S. sonnei.
RESEARCH IN MICROBIOLOGY
(2023)
Article
Fisheries
Moamer A. H. Ahmed, Jiabao Ma, Shuai Shao, Qiyao Wang, Rongjing Xu, Kaiyu Yin
Summary: In this study, it was discovered that a PDZ-domain-containing protease (Prc) regulated the expression of esrB and T3/T6SSs in different manners at different growth stages. Additionally, Prc mediated the regulation of environmental acidic signals on the expression of esrB. Mutation of esrA impaired E. piscicida virulence expression irrespective of the ambient acidic signals. These findings provide a comprehensive understanding of the virulence regulation upon sensing the environmental acidic signals in bacterial pathogens.
Article
Immunology
Guillaume Menard, Astrid Rouillon, Gevorg Ghukasyan, Mathieu Emily, Brice Felden, Pierre-Yves Donnio
Summary: Utilizing a G. mellonella infection model allows for rapid and effective research on the roles of Staphylococcus aureus sRNAs during infection, providing important insights into the involvement of sRNAs as transcriptional regulators in staphylococcal virulence.
FRONTIERS IN CELLULAR AND INFECTION MICROBIOLOGY
(2021)
Article
Microbiology
Coral Pardo-Este, Diego Lorca, Juan Castro-Severyn, Gabriel Krueger, Luis Alvarez-Thon, Phillippi Zepeda, Yoelvis Sulbaran-Bracho, Alejandro Hidalgo, Mario Tello, Franck Molina, Laurence Molina, Francisco Remonsellez, Eduardo Castro-Nallar, Claudia Saavedra
Summary: This study aimed to isolate and characterize Salmonella Infantis strains from a poultry meat farm in Santiago, Chile, finding genetic variations among the strains with discrete correlations to the source of the samples along the production line. The pan-genome consisted of 4854 total gene clusters, with 53.9% belonging to the core-genome.
Article
Immunology
Joyce E. Karlinsey, Angela M. Fung, Norah Johnston, Howard Goldfine, Stephen J. Libby, Ferric C. Fang
Summary: Cyclopropanation of membrane lipids enhances stress resistance and virulence in Salmonella bacteria.
INFECTION AND IMMUNITY
(2022)
Article
Veterinary Sciences
Binjie Chen, Xianchen Meng, Jie Ni, Mengping He, Yanfei Chen, Pengpeng Xia, Heng Wang, Siguo Liu, Guoqiang Zhu, Xia Meng
Summary: Research shows that two RyhB paralogs of Salmonella enterica serovar Enteritidis can upregulate Type III secretion system (T3SS) effectors, affecting the bacteria's invasion into intestinal epithelial cells, and thereby impacting its virulence.
VETERINARY RESEARCH
(2021)
Article
Veterinary Sciences
Zhongxing Wang, Rui Chen, Fufang Xia, Min Jiang, Dongyu Zhu, Yuting Zhang, Jianjun Dai, Xiangkai Zhuge
Summary: This study explores the role of ProQ, an RNA binding protein, in the biofilm formation and virulence of avian pathogenic Escherichia coli (APEC). The deletion of ProQ significantly compromised the biofilm-forming ability and virulence of APEC, reducing its capacity for bloodstream infection and effective adherence to and persistence within host cells. The study reveals a direct interaction between ProQ and a small RNA (sRNA) called RyfA, suggesting RyfA as a novel ProQ-associated sRNA. The findings provide insights into the regulatory elements that determine APEC virulence and biofilm development.
VETERINARY RESEARCH
(2023)
Review
Cell Biology
Siva R. Uppalapati, Andres Vazquez-Torres
Summary: The metal ion manganese (Mn2+) is important for both hosts and bacterial pathogens. Hosts restrict Mn2+ to combat bacterial infection, while pathogens have mechanisms to counteract this restriction. Mn2+ serves as a cofactor in antioxidant defense and central metabolism. Bacterial pathogens prefer Mn2+-cofactored enzymes during oxidative stress. Mn2+ catalyzes metabolic pathways that provide outputs related to Salmonella's resistance against reactive oxygen species generated during the respiratory burst.
FRONTIERS IN CELL AND DEVELOPMENTAL BIOLOGY
(2022)
Article
Immunology
N. Y. Elizabeth Chau, Deyanira Perez-Morales, Wael Elhenawy, Victor H. Bustamante, Yong E. Zhang, Brian K. Coombes, Igor E. Brodsky
Summary: The stringent response, mediated by nucleotide alarmones (p)ppGpp, plays a crucial role in metabolic reprogramming and regulation of virulence programs in pathogenic bacteria like Salmonella enterica serovar Typhimurium. This response is essential for bacterial survival and resistance to complement-mediated killing in human serum. The findings also highlight the importance of (p)ppGpp and nucleotide hydrolase PpnN in promoting bacterial fitness and conferring resistance to complement killing.
INFECTION AND IMMUNITY
(2021)
Editorial Material
Microbiology
Cheryl A. Nickerson, Audrie A. Medina-Colorado, Jennifer Barrila, George Poste, C. Mark Ott
Summary: Microbiological research has made significant discoveries about how life responds to non-terrestrial environments, such as the International Space Station. As human space exploration transitions to longer deep-space missions, microorganisms will continue to play a critical role in astronaut health, habitat sustainability, and mission success.
NATURE MICROBIOLOGY
(2022)
Article
Environmental Sciences
Jean-Sebastien Beaulne, Samir R. Mishra, Mrutyunjay Suar, Ananta Narayan Panda, Gurdeep Rastogi, Ajit Kumar Pattnaik, Vishakha Raina, Timothy M. Vogel
INTERNATIONAL JOURNAL OF SEDIMENT RESEARCH
(2020)
Article
Plant Sciences
Susrita Sahoo, Soumya Ranjan Mahapatra, Bikram Kumar Parida, Parminder Kaur Narang, Satyajit Rath, Namrata Misra, Mrutyunjay Suar
PLANT AND CELL PHYSIOLOGY
(2020)
Article
Immunology
Susmita Das, Shilpa Ray, Aryashree Arunima, Bikash Sahu, Mrutyunjay Suar
Article
Environmental Sciences
Paritosh Patel, Pritam Kumar Panda, Puja Kumari, Puneet Kumar Singh, Aditya Nandi, M. A. Mallick, Biswadeep Das, Mrutyunjay Suar, Suresh K. Verma
ECOTOXICOLOGY AND ENVIRONMENTAL SAFETY
(2020)
Article
Biotechnology & Applied Microbiology
Susrita Sahoo, Soumya R. Mahapatra, Nayanika Das, Bikram K. Parida, Satyajit Rath, Namrata Misra, Mrutyunjay Suar
ALGAL RESEARCH-BIOMASS BIOFUELS AND BIOPRODUCTS
(2020)
Article
Biochemistry & Molecular Biology
Nishant Kumar Pandey, Garima Verma, Gajraj Singh Kushwaha, Mrutyunjay Suar, Neel Sarovar Bhavesh
Article
Biochemistry & Molecular Biology
Budheswar Dehury, Vishakha Raina, Namrata Misra, Mrutyunjay Suar
Summary: Recent studies have shown the role of ACE2 in mediating SARS-CoV-2 entry into host cells and the impact of mutations on molecular interactions. Computational simulations and experimental analyses provide detailed insight into the crucial interaction between RBD and ACE2.
JOURNAL OF BIOMOLECULAR STRUCTURE & DYNAMICS
(2021)
Article
Multidisciplinary Sciences
Daniel Ryan, Laura Jenniches, Sarah Reichardt, Lars Barquist, Alexander J. Westermann
NATURE COMMUNICATIONS
(2020)
Article
Multidisciplinary Sciences
Sabyasachi Dash, Muthukumar Balasubramaniam, Freddyson J. Martinez-Rivera, Arthur Godino, Emily G. Peck, Srinivas Patnaik, Mrutyunjay Suar, Erin S. Calipari, Eric J. Nestler, Fernando Villalta, Chandravanu Dash, Jui Pandhare
SCIENTIFIC REPORTS
(2020)
Review
Biochemistry & Molecular Biology
Daniel Ryan, Gianluca Prezza, Alexander J. Westermann
Summary: The review focuses on RNA-based regulatory mechanisms in the phylum Bacteroidetes, specifically in the most abundant bacterial genus in the human gut, Bacteroides spp. Recent case reports on riboswitches, mRNA leaders, cis- and trans-encoded small RNAs, and a survey of CRISPR-Cas systems across Bacteroidetes are discussed. The review also highlights the existing gaps and open questions in Bacteroidetes RNA research.
BIOLOGICAL CHEMISTRY
(2021)
Article
Microbiology
Aryashree Arunima, Sunil Kumar Swain, Saumya Darshana Patra, Susmita Das, Nirmal Kumar Mohakud, Namrata Misra, Mrutyunjay Suar
Summary: The protein YdeI plays a crucial role in stress response and virulence of S. Enteritidis, as its deletion resulted in decreased survival under various stresses and reduced invasion and intracellular survival abilities. Transcriptional regulation of YdeI by PhoP was demonstrated, indicating its importance in the pathogenesis of Salmonella.
JOURNAL OF BACTERIOLOGY
(2021)
Article
Biology
Rajiv Kangabam, Susrita Sahoo, Arpan Ghosh, Riya Roy, Yumnam Silla, Namrata Misra, Mrutyunjay Suar
Summary: The COVID-19 pandemic has impacted over 215 countries and territories with a total of 60,187,347 cases and 17,125,719 currently infected patients as of November 25, 2020. Various countries are actively working on developing vaccines and therapeutic drugs for this novel virus strain, utilizing advancements in high-throughput sequence technologies and bioinformatics. Studies using bioinformatics methods have provided a comprehensive understanding of the molecular and biochemical basis of infection, viral-host interactions, functional annotation of important viral proteins, and evolutionary divergence across different strains. Additionally, modern immunoinformatic approaches are being used to target antigenic epitopes from SARS-CoV-2 for accelerated vaccine development.
COMPUTERS IN BIOLOGY AND MEDICINE
(2021)
Article
Biology
Susrita Sahoo, Soumya Ranjan Mahapatra, Bikram Kumar Parida, Satyajit Rath, Budheswar Dehury, Vishakha Raina, Nirmal Kumar Mohakud, Namrata Misra, Mrutyunjay Suar
Summary: DBCOVP is the first manually curated, web-based resource providing comprehensive information on structural virulent glycoproteins from coronavirus genomes. The database offers various sequence-structural properties for users to browse and analyze information in different ways, as well as predicted T-cell and B-cell epitopes that may play a significant role in immune responses. The database also provides an easy-to-use interface with built-in tools for a variety of analyses, making it an important resource for coronavirus research and vaccine development.
COMPUTERS IN BIOLOGY AND MEDICINE
(2021)
Article
Biochemistry & Molecular Biology
Gianluca Prezza, Daniel Ryan, Gohar Maedler, Sarah Reichardt, Lars Barquist, Alexander J. Westermann
Summary: This study investigates the functional roles of noncoding RNA in gut bacteria through comparative genomics, focusing on Bacteroides thetaiotaomicron as a representative member. While technical hurdles hinder analogous analyses in anaerobic gut microbiota, computational tools and comparative genomics can provide insight into RNA biology. The research demonstrates the power of RNA informatics in studying anaerobic microbiota members.
MOLECULAR MICROBIOLOGY
(2022)
Article
Immunology
Aryashree Arunima, Sunil Kumar Swain, Shilpa Ray, Birendra Kumar Prusty, Mrutyunjay Suar
Article
Biochemistry & Molecular Biology
Siva Santhiya Arul, Brinda Balakrishnan, Savithri S. Handanahal, Sangita Venkataraman
Summary: Viral nanoparticles are self-assembling delivery systems used for vaccines and therapeutic agents. They have improved biocompatibility and are widely used in various biomedical applications. However, large-scale production of VNPs still faces challenges.
Article
Biochemistry & Molecular Biology
Wisely Chua, Carl O. Marsh, Si En Poh, Winston LC. Koh, Melody Li Ying Lee, Li Fang Koh, Xin-Zi Emily Tang, Peter See, Zheng Ser, Shi Mei Wang, Radoslaw M. Sobota, Thomas L. Dawson Jr, Yik Weng Yew, Steven Thng, Anthony J. O'Donoghue, Hazel H. Oon, John E. Common, Hao Li
Summary: In this study, the gene expression of enzymes secreted by Malassezia globosa in the skin was investigated using targeted RNA sequencing. The study found that the expression of these enzymes is regulated by the fungus's environment and differs significantly from healthy skin sites. Additionally, a pseudoprotease MGL_3331 was identified to elicit an immune reaction in patients with atopic dermatitis. This highlights the importance of studying fungal proteins in physiologically relevant environments and their role in host immunity.
Article
Biochemistry & Molecular Biology
Belisa Parmeggiani, Marian Flores Signori, Cristiane Cecatto, Marina Rocha Frusciante, Manuela Bianchin Marcuzzo, Debora Guerini Souza, Rafael Teixeira Ribeiro, Bianca Seminotti, Diogo Onofre Gomes de Souza, Cesar Augusto Joa o Ribeiro, Moacir Wajner, Guilhian Leipnitz
Summary: Non ketotic hyperglycinemia (NKH) is a disorder caused by mutations in the genes encoding glycine cleavage system proteins, leading to severe neurodegeneration and white matter alterations. The study found that glycine affects myelin structure, glutamatergic system, and induces oxidative stress in neonatal rats and MO3.13 oligodendroglial cells.
Review
Biochemistry & Molecular Biology
Marie Rose Ndella Thiaw, Pascal Gantet
Summary: Mini zinc fingers play important roles in plant development, including control of cell division and expansion, meristem state transition, and growth and organ development. They have diverse modes of action, such as direct gene activation, interaction with specific transcription factors, and aggregation of protein complexes for chromatin remodeling. Further research is needed to explore their wider range of biological functions and their involvement in biotic and abiotic stress responses.
Article
Biochemistry & Molecular Biology
Shao-Jui Lai, Takahiro Kameda, Maasa Morita, Yuka Yamagata, Kaoruko Nishizaka, Yuna Horiuchi, Yukihiro Kobayashi, Yoko Usami, Jun-Jen Liu, Takeshi Kasama, Minoru Tozuka, Ryunosuke Ohkawa
Summary: In this study, the co-modification and impact of chymase and MPO on HDL were investigated. Sequential treatment with MPO and chymase generated two novel apoA-I fragments from HDL, one of which has a specific immunological property and can be used to predict patients with normal HDL-C levels and cardiovascular diseases.
Article
Biochemistry & Molecular Biology
Xiao-Mi Sun, Asami Yoshida, Takuya Ishii, Yan-Rong Jiang, Yi-Li Gao, Mikinori Ueno, Katsuya Hirasaka, Kiyoshi Osatomi
Summary: This study found that infection with the causative bacteria of edwardsiellosis, Edwardsiella tarda NUF251, leads to the production of superoxide radicals, causing oxidative stress. The research on the Jfsod1 gene suggests that the transcription factor NF-IL6 plays a significant role in upregulating the transcriptional activity of the gene in response to oxidative stress induced by NUF251 infection.
Article
Biochemistry & Molecular Biology
Shane M. Carey, Sean P. Kearns, Matthew E. Millington, Gregory S. Buechner, Beda E. Alvarez Jr, Leily Daneshian, Brendan Abiskaroon, Maksymilian Chruszcz, Edward L. D'Antonio
Summary: The importance of F337 in TcGlcK was investigated using the hole mutagenesis approach, revealing its key interactions with aromatic tail groups in inhibitor molecules. Mutants retaining activity and structural similarity were obtained, suggesting the possibility of TcHxK existing as a monomer lacking the F337 residue. Similar D-glucosamine inhibitors may bind less strongly to TcHxK due to the absence of van der Waals contacts from residue side chains.
Article
Biochemistry & Molecular Biology
Catia Barria, Diogo Athayde, Guillem Hernandez, Leonor Fonseca, Jorge Casinhas, Tiago N. Cordeiro, Margarida Archer, Cecilia M. Arraiano, Jose A. Brito, Rute G. Matos
Summary: Ribonucleases play a crucial role in RNA regulation by processing, degrading, and quality controlling cellular transcripts. Campylobacter jejuni, the main cause of human gastroenteritis, relies on the exoribonuclease PNPase (CjPNP) for low-temperature survival, virulence factor synthesis, and swimming, cell adhesion/invasion, and chick colonization abilities. The crystallographic structure of CjPNP, along with SAXS analysis, confirms its trimeric arrangement and provides insight into domain arrangement and flexibility. Mutations in highly conserved residues reveal unexpected RNA degradation activity even under conditions favoring polymerization. These findings have significant implications for the development of strategies to combat C. jejuni infections.
Article
Biochemistry & Molecular Biology
Elvira R. Shaykhutdinova, Maria S. Severyukhina, Inna V. Kholoshenko, Elena A. Gondarenko, Irina V. Shelukhina, Elena V. Kryukova, Alina M. Ismailova, Elena S. Sadovnikova, Igor A. Dyachenko, Arkady N. Murashev, Victor I. Tsetlin, Yuri N. Utkin
Summary: Evidence suggests that activating nicotinic acetylcholine receptors (nAChRs) can reduce cardiac injury caused by ischemia and reperfusion. In this study, the expression of a4, a6, and a132 nAChR subunits in the rat heart's left ventricle was demonstrated. The nAChR agonists cytisine and varenicline, commonly used for nicotine addiction treatment, were found to significantly reduce myocardial ischemia-reperfusion injury, with varenicline showing greater protection. The presence of a4132, a7, and/or a6132-containing receptors suggests that the protective effect of varenicline may be mediated by these subunits. These findings indicate a potential new use for cytisine and varenicline as cardioprotective agents.
Article
Biochemistry & Molecular Biology
Xinhai Xiong, Wenjie Chen, Cheng Chen, Qi Wu, Chaopeng He
Summary: This article summarizes the important roles of Cx43 in disease development from the perspective of subcellular localization and provides new ideas for Cx43 as a therapeutic target and the search for related pathological mechanisms.
Article
Biochemistry & Molecular Biology
Veronica Bastos, Simone Pascoal, Kamila Lopes, Marcia Mortari, Helena Oliveira
Summary: Cancer, especially melanoma, is a major global health problem due to its metastatic capacity, treatment resistance, and high mortality rates. The Chartergellus-CP1 peptide isolated from Chartergellus communis wasp venom showed selective cytotoxicity towards melanoma cell lines, inducing apoptosis, cell cycle impairment, and intracellular ROS increase.
Article
Biochemistry & Molecular Biology
Charlotte Claeyssen, Nathan Bulangalire, Bruno Bastide, Onnik Agbulut, Caroline Cieniewski-Bernard
Summary: Maintenance of striated muscle tissue relies on a dynamic network of protein-protein interactions. Desmin intermediate filaments play a crucial role in heart and skeletal muscle by maintaining cell structure and contributing to various cellular processes. The assembly of desmin intermediate filaments requires aB-crystallin, which is involved in multiple cellular functions.
Article
Biochemistry & Molecular Biology
Dhritiman Dey, Adhiraj Dasgupta, Dipanjan Ghosh, Oindrila Bhattacharjee, Abhrajyoti Ghosh, Ayae Honda, Dhrubajyoti Chattopadhyay
Summary: This study successfully identified host factors that interact with Chandipura Virus (CHPV) and play a critical role in infection, including A2M, LRP1, and GRP78. Knocking out A2M has a severe effect on viral infection, indicating the potential role of these host proteins in viral entry into host cells.
Article
Biochemistry & Molecular Biology
Anna Dotsenko, Igor Sinelnikov, Aleksandra Rozhkova, Ivan Zorov, Arkady Sinitsyn
Summary: Xylanases play important roles in various industrial applications, such as feed additives, pulp and paper bleaching, and the production of bread, food, and drinks. Xylanases from the GH10 family show high thermostability and resistance to protein inhibitors, making them promising candidates for these processes. This study successfully improved the thermostability and enzymatic activity of GH10 xylanase, which could enhance its effectiveness as a feed additive and during pulp and paper bleaching.
Article
Biochemistry & Molecular Biology
M. Jaquet, M. Bengue, K. Lambert, G. Carnac, D. Misse, C. Bisbal
Summary: Changes to our environment have led to the emergence of human pathogens such as chikungunya virus, which is now a major public health concern. In this study, the interconnection between skeletal muscle cells metabolism, their differentiation stage, and the infectivity of chikungunya virus was investigated. The results showed that chikungunya virus infectivity is dependent on cell differentiation and metabolism and that the virus interferes with cellular metabolism.