Article
Virology
Cyril J. Versoza, Abigail A. Howell, Tanya Aftab, Madison Blanco, Akarshi Brar, Elaine Chaffee, Nicholas Howell, Willow Leach, Jackelyn Lobatos, Michael Luca, Meghna Maddineni, Ruchira Mirji, Corinne Mitra, Maria Strasser, Saige Munig, Zeel Patel, Minerva So, Makena Sy, Sarah Weiss, Susanne P. Pfeifer
Summary: Bacteriophages infecting bacteria of the genus Gordonia have diverse applications in agriculture, biotechnology, and medicine. The putative host ranges of these bacteriophages were predicted using computational genomic inferences. The results suggest potential use of BiggityBass and its close relatives in phage therapy and wastewater treatment strategies.
Article
Veterinary Sciences
Hyun-Gwan Lee, Yoo-Bhin Kim, Sang-Hyeok Lee, Jun-Ok Moon, Jong-Pyo Chae, Yu-Jin Kim, Kyung-Woo Lee
Summary: The study aimed to evaluate the antibacterial effects of bacteriophages (BPs) in broiler chickens challenged with Clostridium perfringens. The results showed that dietary encapsulated or powdered BPs reversed the C. perfringens-induced increase in crypt depth and reduced C. perfringens counts in the cecum. Chickens fed with encapsulated BPs also had higher serum IgA levels.
VETERINARY SCIENCES
(2022)
Article
Food Science & Technology
Rui Andre Nunes Dos Santos, Jiryes Abdel-Nour, Cathy McAuley, Sean C. Moore, Narelle Fegan, Edward M. Fox
Summary: Clostridium perfringens is an important bacterial species to public and animal health. This study characterized C. perfringens isolates from dairy farm systems and identified various virulence and antimicrobial resistance markers. The findings highlight the significance of farm hygiene in ensuring food safety of associated dairy products.
INTERNATIONAL JOURNAL OF FOOD MICROBIOLOGY
(2022)
Article
Biotechnology & Applied Microbiology
Nisha Rathor, Chandan Kumar Thakur, Bimal Kumar Das, Rama Chaudhry
Summary: This study aimed to isolate and characterize a lytic bacteriophage against drug-resistant Pseudomonas aeruginosa. The results showed that the Pseudomonas phage AIIMS-Pa-A1 is a novel member of the Autographiviridae family, truly lytic in nature for drug-resistant P. aeruginosa. It has promising potential for future therapeutic intervention to treat drug-resistant P. aeruginosa infections.
JOURNAL OF APPLIED MICROBIOLOGY
(2022)
Article
Microbiology
Anny Camargo, Enzo Guerrero-Araya, Sergio Castaneda, Laura Vega, Maria X. Cardenas-Alvarez, Cesar Rodriguez, Daniel Paredes-Sabja, Juan David Ramirez, Marina Munoz
Summary: In this study, the genetic diversity and phylogenetic relatedness of C. perfringens were assessed using 372 genomes from multiple locations and sources. The results showed that C. perfringens is present in various host species and environments, and exhibits a wide range of virulence factors and antibiotic resistance markers.
FRONTIERS IN MICROBIOLOGY
(2022)
Article
Microbiology
Renae R. Geier, Thomas G. Rehberger, Alexandra H. Smith
Summary: Clostridium perfringens is an opportunistic pathogenic bacterium that infects both animals and humans, with its genomes encoding a diverse array of toxins and virulence proteins. The distribution of toxins and virulence proteins in different hosts varies, giving the species the capability to cause disease in a wide variety of hosts.
FRONTIERS IN MICROBIOLOGY
(2021)
Article
Gastroenterology & Hepatology
Soo Young Cho, Heeyoun Hwang, Yun-Hee Kim, Byong Chul Yoo, Nayoung Han, Sun-Young Kong, Min-Jeong Baek, Kyung-Hee Kim, Mi Rim Lee, Jae Gwang Park, Sung-Sik Han, Woo Jin Lee, Charny Park, Jong Bae Park, Jin Young Kim, Sang-Jae Park, Sang Myung Woo
Summary: Through comprehensive analysis of genomic, transcriptomic, proteomic, and phosphoproteomic data from 102 iCC patients, three clinically supported subtypes were identified (stem-like, poorly immunogenic, and metabolism), and an organoid model was constructed for therapeutic testing. The ALDH1A1 inhibitor NCT-501 showed synergy with nanoparticle albumin-bound-paclitaxel in the organoid model for the stem-like subtype. Dysregulations in oncometabolites were associated with different clinical outcomes in the stem-like and metabolism subtypes. The poorly immunogenic subtype exhibited non-T-cell tumor infiltration. Integrated multiomics analysis reproduced the 3 subtypes and revealed heterogeneity in iCC.
Article
Microbiology
Mostafa Y. Abdel-Glil, Prasad Thomas, Joerg Linde, Keith A. Jolley, Dag Harmsen, Lothar H. Wieler, Heinrich Neubauer, Christian Seyboldt
Summary: The study established a publicly available genome-wide multilocus sequence-typing (MLST) scheme for Clostridium perfringens. The cgMLST scheme showed high congruence with the core genome-based single-nucleotide-polymorphism typing and provided greater discrimination than classical MLST methods. The scheme was confirmed to be usable for outbreak analysis and can be used for broad-based and standardized epidemiological studies.
MICROBIOLOGY SPECTRUM
(2021)
Article
Biotechnology & Applied Microbiology
Kapudeep Karmakar, Saurabh Kumar, Dipankar Roy, Mohini Singh, Vaishnavi Kolte, Ashok Choudhury, Gaurav Sharma
Summary: This study analyzed the CRISPR-Cas diversity in the genomes of common free-living nitrogen-fixing Azotobacter spp. The results showed that strains of Azotobacter vinelandii and Azotobacter chroococcum harbor a large number of spacers. The stability of the repeat sequence structure may be correlated with the number of spacers acquired by the CRISPR loci.
LETTERS IN APPLIED MICROBIOLOGY
(2023)
Article
Multidisciplinary Sciences
Xiaoli Wang, Xiaoyu Huang, Qiaoli Yang, Zunqiang Yan, Pengfei Wang, Xiaoli Gao, Ruirui Luo, Shuangbao Gun
Summary: This study identified differentially expressed proteins in piglet spleen in response to C. perfringens type C infection using a quantitative proteomic analysis. The results showed that these proteins may play important roles in the immune defense process of piglet spleen against C. perfringens infection. The findings contribute to understanding the protein expression pattern and developing strategies for preventing and controlling pig diarrhea disease.
Article
Evolutionary Biology
Muhammed R. Durak, Hilal Ozkilinc
Summary: This study determined the extent of structural variants (SVs) and single-nucleotide polymorphisms (SNPs) for two plant pathogenic fungi species - Monilinia fructicola and Monilinia laxa - for the first time. The genomes of M. fructicola were found to be more variant-rich compared to M. laxa. The characterization of SVs and SNPs in this study provides new research questions regarding the variants within and between these two fungal species.
GENOME BIOLOGY AND EVOLUTION
(2023)
Article
Veterinary Sciences
Raveendra R. Kulkarni, Carissa Gaghan, Kaitlin Gorrell, Oscar J. Fletcher
Summary: This study characterized the lymphoid immune responses in different tissues of broiler chickens infected with four netB+ C. perfringens strains. The results showed that more virulent strains induced higher levels of pro-inflammatory and anti-inflammatory gene expression. The expression patterns of inflammatory and anti-inflammatory responses also varied in different tissues.
Article
Biotechnology & Applied Microbiology
Minggen Cheng, Dongmei Pei, Lian He, Qiang Fei, Xin Yan
Summary: Methanotrophs have attracted increasing attention due to their important role in methane cycling and industrial potential. Genome-wide experimental approaches have accelerated the understanding and engineering of these bacteria. However, there is still a lack of fundamental knowledge about these methane-consuming microorganisms, which undermines our understanding.
APPLIED AND ENVIRONMENTAL MICROBIOLOGY
(2023)
Article
Genetics & Heredity
Victoria Mesa, Marc Monot, Laurent Ferraris, Michel Popoff, Christelle Mazuet, Frederic Barbut, Johanne Delannoy, Bruno Dupuy, Marie-Jose Butel, Julio Aires
Summary: This study provides the closed genome assembly and functional annotation of Clostridium neonatale ATCC BAA-265(T) reference strain. Pan-genome, core-genome, and accessory genome analyses reveal the genetic diversity and plasticity of C. neonatale genomes. The findings contribute to the understanding of the biological capabilities of this species.
MICROBIAL GENOMICS
(2022)
Article
Multidisciplinary Sciences
Netta Shemesh, Juman Jubran, Shiran Dror, Eyal Simonovsky, Omer Basha, Chanan Argov, Idan Hekselman, Mehtap Abu-Qarn, Ekaterina Vinogradov, Omry Mauer, Tatiana Tiago, Serena Carra, Anat Ben-Zvi, Esti Yeger-Lotem
Summary: The authors demonstrate that the human chaperone system consists of ubiquitous core chaperones and tissue-specific variable chaperones, and perturbation of which leads to tissue-specific phenotypes. The core chaperones are significantly more abundant across tissues and important for cell survival, forming tissue-specific functional networks. This functional organization is established in development and declines with age, highlighting the importance of understanding tissue-specific differences in protein folding capacities.
NATURE COMMUNICATIONS
(2021)
Article
Virology
Anastasia Popova, Mikhail M. Shneider, Vera P. Myakinina, Vasily A. Bannov, Mikhail Edelstein, Evgenii O. Rubalskii, Andrey Aleshkin, Nadezhda K. Fursova, Nikolay V. Volozhantsev
ARCHIVES OF VIROLOGY
(2019)
Article
Microbiology
Nikolay V. Volozhantsev, Anna M. Shpirt, Angelina A. Kislichkina, Alexander S. Shashkov, Vladimir V. Verevkin, Nadezhda K. Fursova, Yuriy A. Knirel
RESEARCH IN MICROBIOLOGY
(2020)
Article
Infectious Diseases
Nadezhda K. Fursova, Evgeny Astashkin, Nina Gabrielyan, Tatiana S. Novikova, Galina N. Fedyukina, Madina Kh Kubanova, Nadezhda M. Esenova, Sofia O. Sharapchenko, Nikolay V. Volozhantsev
MICROBIAL DRUG RESISTANCE
(2020)
Article
Infectious Diseases
Nikolay V. Volozhantsev, Anna M. Shpirt, Alexander I. Borzilov, Ekaterina V. Komisarova, Valentina M. Krasilnikova, Alexander S. Shashkov, Vladimir V. Verevkin, Yuriy A. Knirel
Article
Biochemical Research Methods
Kristina Oney, Melody Koo, Chayan Roy, Songyang Ren, Barbara Qurollo, Nicholas B. Juhasz, Elton J. R. Vasconcelos, Brian Oakley, Pedro P. V. P. Diniz
Summary: This study investigated the effectiveness of a commercial microbial enrichment kit in improving the detection levels of vector-borne pathogens (VBPs) in canine blood samples. The results showed that while the kit did not enhance the detection of VBPs, it significantly reduced the presence of host DNA in the samples.
JOURNAL OF MICROBIOLOGICAL METHODS
(2021)
Article
Microbiology
Roman B. Gorodnichev, Nikolay V. Volozhantsev, Valentina M. Krasilnikova, Ivan N. Bodoev, Maria A. Kornienko, Nikita S. Kuptsov, Anastasia Popova, Galina Makarenko, Alexander Manolov, Pavel Slukin, Dmitry A. Bespiatykh, Vladimir V. Verevkin, Egor A. Denisenko, Eugene E. Kulikov, Vladimir A. Veselovsky, Maja Malakhova, Ivan A. Dyatlov, Elena N. Ilina, Egor A. Shitikov
Summary: The study isolated and characterized three virulent bacteriophages that specifically infect and lyse multidrug-resistant Klebsiella pneumoniae with K23 capsule type. These phages contained receptor-binding proteins with polysaccharide depolymerase enzymatic activity, demonstrating potential for antimicrobial therapy.
FRONTIERS IN MICROBIOLOGY
(2021)
Article
Biochemistry & Molecular Biology
Alena Y. Drobiazko, Anastasia A. Kasimova, Peter V. Evseev, Mikhail M. Shneider, Evgeniy I. Klimuk, Alexander S. Shashkov, Andrei S. Dmitrenok, Alexander O. Chizhov, Pavel V. Slukin, Yuriy P. Skryabin, Nikolay V. Volozhantsev, Konstantin A. Miroshnikov, Yuriy A. Knirel, Anastasia V. Popova
Summary: This study bioinformatically predicted and recombinantly produced several depolymerases encoded in the prophage regions of Acinetobacter baumannii genomes. These identified depolymerases showed multi-domain structures and were similar or identical to proteins in other A. baumannii genomes. The study also determined the specificity of two depolymerases to capsular polysaccharides (CPSs) of A. baumannii, and showed their potential as antibacterials against corresponding A. baumannii K types.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2022)
Article
Virology
Nikolay V. Volozhantsev, Alexander I. Borzilov, Anna M. Shpirt, Valentina M. Krasilnikova, Vladimir V. Verevkin, Egor A. Denisenko, Tatyana I. Kombarova, Alexander S. Shashkov, Yuriy A. Knirel, Ivan A. Dyatlov
Summary: Bacteriophages and phage depolymerases have the potential to be alternatives to antibiotics for treating Klebsiella pneumoniae infections. The depolymerase Dep_kpv74 can effectively degrade the capsular polysaccharides of K2 type Klebsiella pneumoniae without adverse effects or toxicity. The phage KpV74 has a therapeutic effect only for specific strains of Klebsiella pneumoniae, while the depolymerase is effective in both cases.
Article
Microbiology
Nikolay V. Volozhantsev, Vladimir V. Verevkin, Valentina M. Krasilnikova, Angelina A. Kislichkina, Anastasia V. Popova
Summary: We present the genome sequence of bacteriophage KpS110, a phage that specifically infects Klebsiella pneumoniae, a drug-resistant encapsulated bacterium known for causing severe community-acquired and hospital-acquired infections. The complete genome of KpS110 consists of 156,801 base pairs and contains 201 open reading frames. Comparative analysis revealed its closest relationship to phages belonging to the Ackermannviridae family in terms of genome and proteome.
MICROBIOLOGY RESOURCE ANNOUNCEMENTS
(2023)
Article
Agriculture, Dairy & Animal Science
Raja Chalghoumi, Mohamed Mohamed, Ayattollah Alkhazen, Brian Oakley
LARGE ANIMAL REVIEW
(2020)
Article
Multidisciplinary Sciences
Gustavo A. Ramirez, Ella Richardson, Jory Clark, Jitendra Keshri, Yvonne Drechsler, Mark E. Berrang, Richard J. Meinersmann, Nelson A. Cox, Brian B. Oakley
Article
Microbiology
Jitendra Keshri, Rocio Ramirez, Raja Chalghoumi, Johnna K. Garrish, Bruce S. Seal, Brian B. Oakley
MICROBIOLOGY RESOURCE ANNOUNCEMENTS
(2020)
Article
Microbiology
Jitendra Keshri, Rocio Ramirez, Mark E. Berrang, Brian B. Oakley
MICROBIOLOGY RESOURCE ANNOUNCEMENTS
(2020)
Article
Microbiology
Jitendra Keshri, Rocio Ramirez, Molly K. Svendsen, Haley R. Keillor, Madeline L. Moss, Haley J. Jordan, Kristina M. Smith, Patrick N. Ball, Bruce S. Seal, Mark E. Berrang, Brian B. Oakley
MICROBIOLOGY RESOURCE ANNOUNCEMENTS
(2020)
Article
Microbiology
Nikolay V. Volozhantsev, Angelina A. Kislichkina, Tatiana N. Mukhina, Nadezhda K. Fursova
MICROBIOLOGY RESOURCE ANNOUNCEMENTS
(2020)