Article
Biochemistry & Molecular Biology
Anshul Sharma, Neha Sharma, Deepshikha Gupta, Hae-Jeung Lee, Young-Seo Park
Summary: This study identified and analyzed the genomic features of four Leuconostoc strains, revealing their genetic diversity and differences. The results showed a significant number of shared genes among the strains but varying gene content. Additionally, the study elucidated the oligosaccharide utilization and folate biosynthesis pathways in Leuconostoc spp. These findings provide valuable information for the exploitation and utilization of these strains.
COMPUTATIONAL AND STRUCTURAL BIOTECHNOLOGY JOURNAL
(2022)
Article
Food Science & Technology
Constanza M. Lopez, Gabriele Rocchetti, Alessandra Fontana, Luigi Lucini, Annalisa Rebecchi
Summary: This study found that lactic acid bacteria (LAB) could enhance the functional properties of bread as a starter culture. Different LAB strains showed distinct metabolic activities, and the commercial Weissella cibaria exhibited a unique amino acid metabolism.
FOOD RESEARCH INTERNATIONAL
(2022)
Article
Biochemistry & Molecular Biology
Anshul Sharma, Neha Sharma, Deepshikha Gupta, Hae-Jeung Lee, Young-Seo Park
Summary: Leuconostoc strains have great biotechnological potential due to their genomic features. In this study, the genomic diversity of four Leuconostoc strains was analyzed, revealing the sharing and differences of genes among the strains. The study also provided insights into the distribution of carbohydrate-active enzyme genes and genes with unknown functions, as well as the oligosaccharide utilization and folate biosynthesis pathways in Leuconostoc strains.
COMPUTATIONAL AND STRUCTURAL BIOTECHNOLOGY JOURNAL
(2022)
Article
Microbiology
Ana Agustina Bengoa, Maria Teresa Duenas, Alicia Prieto, Graciela L. Garrote, Analia G. Abraham
Summary: The study evaluated the effect of fermentation temperature on the characteristics of EPS produced in milk by L. paracasei strains and its impact on the rheological properties of fermented products. Additionally, the protective effect of EPS against Salmonella infection was assessed. The results showed that fermentation temperature led to changes in EPS characteristics and affected the rheological properties of fermented milks. EPS also exhibited a protective effect against Salmonella infection. Therefore, selecting the appropriate strain and fermentation conditions can improve the technological properties of fermented milks and potentially protect against intestinal pathogens.
FRONTIERS IN MICROBIOLOGY
(2023)
Article
Biotechnology & Applied Microbiology
Roniya Thapa Magar, Seung Yeup Lee, Hyo Jeong Kim, Seon-Woo Lee
Summary: Bacteriophages have the potential to be promising alternative pesticides against bacterial diseases in crops. This study found that RpT1 and RpY2 phages effectively controlled bacterial wilt in tomato plants. The density, timing, and use of adjuvants of phages can influence their biocontrol efficacy.
APPLIED MICROBIOLOGY AND BIOTECHNOLOGY
(2022)
Article
Chemistry, Multidisciplinary
Magdalena Jancheva, Thomas Boettcher
Summary: Bacteriophages have a significant impact on microbial hosts and communities, with the majority being latent prophages integrated into host genomes. Research has found that Pseudomonas aeruginosa uses a trigger factor to manipulate the lysogenic to lytic switch in Staphylococcus aureus, selectively inducing the production of one prophage. The discovery highlights a noncanonical mechanism controlled by intracellular oxidation levels and provides insights into metabolite-mediated microbe-prophage interactions, paving the way for selective small molecule manipulation of prophage activity.
JOURNAL OF THE AMERICAN CHEMICAL SOCIETY
(2021)
Article
Virology
Pavel Alexyuk, Andrey Bogoyavlenskiy, Madina Alexyuk, Kuralay Akanova, Yergali Moldakhanov, Vladimir Berezin
Summary: This study investigated six lytic E. coli bacteriophages isolated from wastewater, which showed the ability to suppress the growth of pathogenic E. coli strains. These bacteriophages had a wide host range, and a cocktail formed from them exhibited long storage period and high efficiency in treating bacterial infections.
Article
Biotechnology & Applied Microbiology
Aparna Nair, Renuka Vyawahare, Krishna Khairnar
Summary: The novel bacteriophage En5822 isolated from the environment shows high lytic activity, specificity, and biofilm reduction capability against Enterobacter cloacae. Its genomic and physical attributes make it a potential alternative antimicrobial for treating drug-resistant infections.
JOURNAL OF APPLIED MICROBIOLOGY
(2022)
Article
Microbiology
Gregory S. Canfield, Anushila Chatterjee, Juliel Espinosa, Mihnea R. Mangalea, Emma K. Sheriff, Micah Keidan, Sara W. McBride, Bruce D. McCollister, Howard C. Hang, Breck A. Duerkop
Summary: Enterococcus faecium, a commensal of the human intestine, has evolved into a hospital-adapted, multidrug-resistant pathogen. Bacteriophages, natural predators of bacteria, show potential as therapeutics against MDR E. faecium infections, despite the unknown molecular events governing their interactions. While phage resistance may emerge, it is shown that lytic phages could effectively synergize with antibiotics to slow or inhibit E. faecium growth.
ANTIMICROBIAL AGENTS AND CHEMOTHERAPY
(2021)
Article
Microbiology
Robby Concha-Eloko, Pilar Barberan-Martinez, Rafael Sanjuan, Pilar Domingo-Calap
Summary: The emergence of antibiotic-resistant bacteria is a serious threat to global health, and new treatments are needed. This study presents three new Klebsiella phages with a broad host range, which hold potential for combating infections by multiple capsular types of Klebsiella pneumoniae.
MICROBIOLOGY SPECTRUM
(2023)
Article
Microbiology
Tae Woong Whon, Hyun Sik Kim, Na-Ri Shin, Hojun Sung, Min-Soo Kim, Joon Yong Kim, Woorim Kang, Pil Soo Kim, Dong-Wook Hyun, Hoon Je Seong, Woo Jun Sul, Seong Woon Roh, Jin-Woo Bae
Summary: Neonatal calf diarrhea is a major cause of economic loss for cattle producers worldwide, with multifactorial etiology making disease control challenging. The study reveals microbial compositional and functional dysbiosis in the gut of diarrheic calves, potentially contributing to the onset of diarrhea. Additionally, it suggests that prolonged expansion of nontoxigenic Enterobacteriaceae in the gut may play a role in the development of calf diarrhea.
Article
Virology
S. Rigvava, I Kusradze, I. Tchgkonia, N. Karumidze, T. Dvalidze, M. Goderdzishvili
Summary: Enterococcus spp. is a common commensal microorganism, but some strains can cause opportunistic infections in humans. The spread of multi-resistant bacterial strains has renewed interest in phage therapy as a potential treatment for Enterococcus faecium infections.
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
Virology
Ismahen Akremi, Maya Merabishvili, Mouna Jlidi, Adel Haj Brahim, Manel Ben Ali, Anis Karoui, Rob Lavigne, Jeroen Wagemans, Jean-Paul Pirnay, Mamdouh Ben Ali
Summary: This study isolated and identified four lytic Pseudomonas aeruginosa bacteriophages, which showed activity against a wide range of P. aeruginosa strains under various temperature and pH conditions. The phages had high sequence identity to Pseudomonas phage PAK_P1 and were assigned to the Pakpunavirus genus. This research contributes to establishing phage therapy as an alternative strategy for managing multidrug-resistant P. aeruginosa infections in Tunisia.
Article
Chemistry, Analytical
Ying Chen, Honglin Yang, Shuai Luo, Lin Wang, Shuguang Lu, Zhifeng Fu
Summary: As a multidrug-resistant pathogen, Acinetobacter baumannii is a common nosocomial bacteria. Researchers have developed an engineering protein called ETFP Gp50 as a high-performance recognition probe for wide-spectrum detection and efficient diagnosis of A. baumannii. The protein showed 100% recognition rate and can be used for quantification of A. baumannii in complex sample matrix with high flexibility and low false-negative rate.
ANALYTICAL CHEMISTRY
(2022)
Article
Ecology
Anders Brunse, Ling Deng, Xiaoyu Pan, Yan Hui, Josue L. Castro-Mejia, Witold Kot, Duc Ninh Nguyen, Jan Bojsen-Moller Secher, Dennis Sandris Nielsen, Thomas Thymann
Summary: This study demonstrated that fecal filtrate transplantation (FFT) is more effective in preventing NEC compared to fecal microbiota transplantation (FMT), without any recognizable side effects. Oro-gastric FFT completely prevented NEC, increased viral diversity, and reduced the relative abundance of specific bacteria phylum in the ileal mucosa.
Review
Neurosciences
S. F. Schoch, J. L. Castro-Mejia, L. Krych, B. Leng, W. Kot, M. Kohler, R. Huber, G. Rogler, L. Biedermann, J. C. Walser, D. S. Nielsen, S. Kurth
Summary: This study reveals the interrelationship between sleep habits, gut microbiota, and the maturation of brain and behavior during infancy. The findings suggest that adequate sleep and age-appropriate gut microbiota in infancy may promote health across the lifespan.
PROGRESS IN NEUROBIOLOGY
(2022)
Article
Virology
Sabrina Sprotte, Torben S. Rasmussen, Gyu-Sung Cho, Erik Brinks, Rene Lametsch, Horst Neve, Finn K. Vogensen, Dennis S. Nielsen, Charles M. A. P. Franz
Summary: In this study, a potential pathogenic bacteriophage PMBT5 infecting Eggerthella lenta was isolated and characterized. The double-layer agar method was adapted to anaerobic conditions for the isolation of phage PMBT5 from sewage. The phage belongs to the Siphoviridae family and has a distinct morphology with an isometric head, flexible noncontractile tail, and a 45 nm tail fiber. Genome sequencing revealed 44 predicted protein-encoding genes, and comparison with human virome metagenomes showed similarity to two distantly related phages.
Article
Chemistry, Multidisciplinary
Christina Schubert, Sabina Fischer, Kathrin Dorsch, Lutz Tessmer, Joerg Hinrichs, Zeynep Atamer
Summary: There is a bidirectional interaction between the gut microbiota and human health. Researchers have investigated an encapsulation method using alginate, calcium ions, and milk proteins to protect bacteriophages and release them in the gut. By inserting the capsules into food matrices, probiotics can be consumed along with the bacteriophages to repopulate the gut and contribute to better health.
APPLIED SCIENCES-BASEL
(2022)
Article
Biochemistry & Molecular Biology
Tue Kjaergaard Nielsen, Laura Milena Forero-Junco, Witold Kot, Sylvain Moineau, Lars Hestbjerg Hansen, Leise Riber
Summary: RNA and DNA modifications are common in all organisms and play various roles. Recent advancements in sequencing techniques have led to increased interest in studying nucleotide modifications. The use of third generation sequencing platforms allows direct detection of modified bases. These modifications are particularly prevalent in bacteriophage genomes, where they primarily function to protect DNA from degradation.
Article
Virology
Katrine Wacenius Skov Alanin, Nikoline S. S. Olsen, Amaru Miranda Djurhuus, Alexander Byth Carstens, Tue Kjaergaard Nielsen, Natalia Wagner, Rene Lametsch, Frederik Bak, Rosanna Catherine Hennessy, Mette Haubjerg Nicolaisen, Witold Kot, Lars Hestbjerg Hansen
Summary: Despite the importance of viral communities, phages are not well-studied. Current genomic databases lack high-quality phage genome sequences linked to specific bacteria. In this study, three Erwinia billingiae phages were isolated from organic household waste. Based on sequence similarity, they are proposed to represent three new genera within different viral families, highlighting the need for further exploration in this field.
ARCHIVES OF VIROLOGY
(2023)
Article
Ecology
Torben Solbeck Rasmussen, Anna Kirstine Koefoed, Ling Deng, Musemma K. Muhammed, Genevieve M. Rousseau, Witold Kot, Sabrina Sprotte, Horst Neve, Charles M. A. P. Franz, Axel Kornerup Hansen, Finn Kvist Vogensen, Sylvain Moineau, Dennis Sandris Nielsen
Summary: The CRISPR-Cas system of Eggerthella lenta has been shown to target and cleave foreign DNA in vitro and acquire new immunities in vivo using gnotobiotic mice. However, this system only provides partial immunity in the gut.
Article
Microbiology
Saeideh Sadat Fatemizadeh, Lukasz Krych, Josue L. L. Castro-Mejia, Denitsa Vladimirova Stefanova, Witold Kot, Mohammad Bagher Habibi Najafi, Dennis Sandris Nielsen
Summary: The complete genome sequences of three Lactiplantibacillus plantarum strains (M8, M17, and M19) isolated from Iranian motal cheese were reported using a combination of short- and long-read sequencing. The estimated sizes of the genomes were 3.3, 3.3, and 3.5 Mbp with a GC content of approximately 44.5%.
MICROBIOLOGY RESOURCE ANNOUNCEMENTS
(2023)
Article
Virology
Katrine Wacenius Skov Alanin, Nikoline S. Olsen, Amaru Miranda Djurhuus, Alexander Byth Carstens, Tue Kjaergaard Nielsen, Magnus Mulbjerg Rothgardt, Andreas Marieboe Russel, Natalia Wagner, Rene Lametsch, Frederik Bak, Rosanna Catherine Hennessy, Mette Haubjerg Nicolaisen, Lars Hestbjerg Hansen, Witold Kot
Summary: In this study, four novel plaque-forming Curtobacterium phages, named Reje, Penoan, Parvaparticeps, and Pize, were isolated, and two novel Curtobacterium strains were used as propagation hosts. Based on the low nucleotide intergenomic similarity (< 32.4%) with any phage in the NCBI database, the establishment of the four genera, Rejevirus, Pizevirus, Penoanvirus, and Parvaparticepsvirus, in the class of Caudoviricetes is proposed.
ARCHIVES OF VIROLOGY
(2023)
Correction
Chemistry, Multidisciplinary
Christina Schubert, Sabina Fischer, Kathrin Dorsch, Lutz Tessmer, Joerg Hinrichs, Zeynep Atamer
APPLIED SCIENCES-BASEL
(2023)
Article
Microbiology
Sandra Meinich Juhl, Karen Angeliki Krogfelt, Witold Kot, Dennis Sandris Nielsen, Lukasz Krych
Summary: This study used 16S rRNA gene amplicon sequencing to analyze the microbial profile of 94 used nasogastric tubes collected from a neonatal intensive care unit. The results showed that the most common Gram-negative bacteria in the tubes were Enterobacteriaceae, Klebsiella, and Serratia, while the most common Gram-positive bacteria were staphylococci and streptococci. The microbial profile of the tubes was mainly determined by individual-specific bacteria and was not influenced by the duration of use, but strongly influenced by the environment.
Article
Chemistry, Applied
Jessica Filla, Annabelle Nodin, Joerg Hinrichs
Summary: WPPC is a complex that can replace fat and enhance creaminess in products. It is formed by whey protein and pectin through pH adjustment and thermomechanical treatment. This study found that in the industrial production environment, a suitable pH range of 4.75 to 5.5 can be used to control the particle size of WPPC by adjusting the pH of whey protein and pectin, achieving a high perceived creaminess in different product matrices.
FOOD HYDROCOLLOIDS
(2023)
Article
Infectious Diseases
Tue Kjaergaard Nielsen, Caroline S. Winther-Have, Iben Margrete Thomsen, Robert W. Jackson, Mojgan Rabiey, Rosanna Catherine Hennessy, Frederik Bak, Witold Kot, Mette Haubjerg Nicolaisen, Alexander Byth Carstens, Lars Hestbjerg Hansen
Summary: Plant pathogenic Pseudomonas species acquire their pathogenicity genes through horizontal gene transfer, which play important roles in host infection. This study found that in Pseudomonas infecting European horse chestnut trees, the pathogenicity genes are mainly located on plasmids and frequently undergo mobilization.
INFECTION GENETICS AND EVOLUTION
(2023)
Meeting Abstract
Clinical Neurology
S. Kurth, S. Schoch, J. Castro-Mejia, L. Krych, B. Leng, W. Kot, M. Kohler, R. Huber, G. Rogler, L. Biedermann, J-C Walser, D. Nielsen
JOURNAL OF SLEEP RESEARCH
(2022)