Article
Microbiology
Shuqian Hu, Xiang Li, Xin Yin, Runmeng Li, Ruiyang Zhang, Junhao Zang, Yin Liu
Summary: This study developed a species-specific method for identification and classification of Pseudomonas based on ITS sequences combined with next-generation sequencing (NGS).
Article
Microbiology
Li-An Wang, Yu-Chuan Chuang, Ting-Kuang Yeh, Kuan-Pei Lin, Chi-Jan Lin, Po-Yu Liu
Summary: This is the first reported case in Taiwan of an AIDS patient with concurrent Cryptococcus neoformans meningitis and Talaromyces amestolkiae lymphadenopathy. DNA sequencing was used to differentiate the species of T. amestolkiae. This case emphasizes the importance of suspicion for co-infections and the use of appropriate diagnostic tools.
Article
Microbiology
Fernando Martinez-Hernandez, Fabiola Sanchez-Aguillon, Joel Martinez-Ocana, Nelly Raquel Gonzalez-Arenas, Mirza Romero-Valdovinos, Eduardo Lopez-Escamilla, Pablo Maravilla, Guiehdani Villalobos
Summary: This study evaluated the genetic variability of the ITS region and pfor A gene of Trichomonas vaginalis from female patients and explored its implications in the host-parasite relationship. Results showed two main clusters in the ITS haplotypes and suggested that pfor A could be used as a marker for confirming trichomonads genus and species.
Article
Food Science & Technology
Alice Giusti, Enrica Ricci, Laura Gasperetti, Marta Galgani, Luca Polidori, Francesco Verdigi, Roberto Narducci, Andrea Armani
Summary: This study aimed to build an ITS gene dataset to aid the Italian Health Service in mushroom identification. By retrieving and filtering ITS sequences from GenBank and BOLD databases, as well as collecting wild specimens, a dataset of 5977 sequences was successfully established to support regional poisoning cases.
Article
Mycology
Junichiro Hiruma, Honoka Nojo, Hitoshi Tsuchihashi, Hiromitsu Noguchi, Masataro Hiruma, Kazutoshi Harada, Rui Kano
Summary: In this study, T. interdigitale isolates were obtained from Japanese patients and their ITS types were investigated. The results showed that all 29 isolates belong to ITS type II, while one clinical isolate of T. mentagrophytes was similar to ITS type II*. Additionally, a terbinafine-resistant strain of T. interdigitale also belonged to ITS type II.
Article
Immunology
Gobena Ameni, Alebachew Messele Kebede, Aboma Zewude, Musse Girma Abdulla, Rahel Asfaw, Mesfin Mamo Gobena, Martina Kyalo, Francesca Stomeo, Balako Gumi, Teshale Sori
Summary: This study conducted a phylogenetic analysis of Histoplasma capsulatum isolated from cases of epizootic lymphangitis (EL) in horses in central Ethiopia and evaluated their relationship with isolates from other countries and clades. By analyzing the internal transcribed spacer (ITS) region of rRNA genes, the study identified different clades of H. capsulatum and revealed that the Ethiopian isolates were closely related to isolates from Latin America and Eurasia, but distantly related to isolates from North America.
FRONTIERS IN CELLULAR AND INFECTION MICROBIOLOGY
(2022)
Article
Plant Sciences
Mitja Krizman, Jernej Jakse
Summary: The wild Foeniculum vulgare populations from the region of Istria were studied through genetic and chemical analyses. Significant differences were observed in both chemical profiles and genetic traits among populations. The combined use of chemical and genetic analyses proved to be a more comprehensive approach for genetic variation analysis.
Article
Biology
Fahad A. Al-Dhabaan
Summary: Crude oil biodegrading fungal strains were isolated from polluted soil in the Khurais oil field in Saudi Arabia, with Aspergillus niger showing the highest degradation and CO2 emission capability. These findings suggest the potential of using Aspergillus niger as a bio-remediation agent for recovering ecosystems contaminated by crude oil.
SAUDI JOURNAL OF BIOLOGICAL SCIENCES
(2021)
Article
Microbiology
Wael A. Fathy, Natascha Techen, Khaled N. M. Elsayed, Ehab A. Essawy, Eman Tawfik, Khairiah Mubarak Alwutayd, Mohamed S. Abdelhameed, Ola Hammouda, Samir A. Ross
Summary: The absence of proper identification and documentation of microalgae is a common concern in the field of applied phycology, algal physiology, and biochemistry publications. A promising solution lies in employing DNA barcoding techniques and establishing comprehensive databases of reference sequences. This study focuses on the molecular characterization and strain identification of Tetraselmis and Chlorella species using the internal transcribed spacer (ITS) barcode approach.
FRONTIERS IN MICROBIOLOGY
(2023)
Article
Veterinary Sciences
D. Endrawati, E. Kusumaningtyas
Summary: This study compared the molecular profiles of Trichophyton mentagrophytes and Microsporum canis based on the digestion of ITS fragments with different restriction enzymes. The results showed distinct digestion products between the two fungi, suggesting a specific RFLP marker for species identification of dermatophytes fungi.
JURNAL ILMU TERNAK DAN VETERINER
(2021)
Article
Environmental Sciences
Ameny Farhat, Jihen Elleuch, Faten Ben Amor, Mohamed Barkallah, Kirsty F. Smith, Idriss Ben Neila, Slim Abdelkafi, Imen Fendri
Summary: In this study, a real-time PCR (qPCR) method targeting the toxic dinoflagellate K. veneficum was developed. This highly specific method allows for accurate detection and quantification of the species in marine environments.
ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH
(2022)
Article
Food Science & Technology
Hela Gargouri, Nizar Moalla, Hassen Hadj Kacem
Summary: The study recommends using PCR-RFLP and PCR techniques for meat species detection, detecting multiple animal species and identifying 10 animal species in daily meat analysis.
EUROPEAN FOOD RESEARCH AND TECHNOLOGY
(2021)
Article
Plant Sciences
Dana Suteu, Ioan Bacila, Adrian-Ilie Stoica, Zoltan R. Balazs, Mihai Puscas, Gheorghe Coldea
Summary: The Carpathians, an important hotspot for plant diversity and historical migrations, have been overlooked in phylogeographical studies. This study focuses on Eritrichium nanum in the Carpathians, revealing two major allopatric lineages with a genetic break in the Southern Carpathians.
NOTULAE BOTANICAE HORTI AGROBOTANICI CLUJ-NAPOCA
(2023)
Article
Microbiology
Amol M. Sawant, Vishwambar D. Navale, Koteswara Rao Vamkudoth
Summary: In this study, 80 strains of Penicillium chrysogenum/rubens were screened for PenV production, with 28 strains capable of producing PenV. By monitoring and optimizing fermentation parameters, the production of PenV can be further improved.
Article
Infectious Diseases
Li-Na Guo, Shu-Ying Yu, Yao Wang, Ya-Li Liu, Ying Yuan, Si-Meng Duan, Wen-Hang Yang, Xin-Miao Jia, Ying Zhao, Meng Xiao, Xiu-Li Xie, Hong-Tao Dou, Po-Ren Hsueh, Ying-Chun Xu
Summary: Morphologically identified Penicillium and Talaromyces marneffei isolates were collected from clinical sources, and species were confirmed using sequencing. Most Penicillium isolates were Penicillium oxalicum, while Talaromyces isolates were mainly Talaromyces funiculosus and Talaromyces stollii. Antifungal susceptibility varied among species, with echinocandins showing the lowest minimum effective concentrations for most species.
INTERNATIONAL JOURNAL OF ANTIMICROBIAL AGENTS
(2021)
Article
Orthopedics
Nathalie Pruijn, Floor M. van Diek, Jacques F. Meis, Nienke M. Kosse, Oscar Dorrestijn
Summary: The study found that the incidence of C. acnes infections was around 42% in patients with and without artificial material after shoulder surgery. Risk factors identified were age and BMI. Low-grade C. acnes infections should be considered in patients with unexplained persistent complaints following shoulder surgery.
ARCHIVES OF ORTHOPAEDIC AND TRAUMA SURGERY
(2021)
Article
Infectious Diseases
Myrte Tielemans, Mireille van Westreenen, Corne Klaassen, Hannelore M. Gotz
Summary: This study investigated the effect of confirmatory testing on Neisseria gonorrhoeae (Ng) positivity in a population visiting a sexual health clinic in Rotterdam. Confirming urogenital and anorectal samples reduced Ng positivity rates, especially for women. The lack of a gold standard for Ng infection confirmation presents a dilemma in public health settings: choosing between missed diagnoses or overtreatment.
SEXUALLY TRANSMITTED INFECTIONS
(2022)
Article
Immunology
Elena De Carolis, Federica Marchionni, Marilisa La Rosa, Jacques F. Meis, Anuradha Chowdhary, Brunella Posteraro, Maurizio Sanguinetti
Summary: The present study aimed to implement MALDI-TOF mass spectrometry for species-level identification of C. auris isolates and develop a fast resistance detection assay. The MS-based assay showed potential for rapid diagnosis and appropriate treatment of patients with C. auris infection.
FRONTIERS IN CELLULAR AND INFECTION MICROBIOLOGY
(2021)
Article
Infectious Diseases
Erlangga Yusuf, Manuela Tompa, Nikolaos Strepis, Corne H. W. Klaassen, Wil H. F. Goessens
Summary: In this study, we collected 104 meropenem-nonsusceptible A. baumannii isolates from a University Hospital in Romania. We found that these isolates exhibited a high level of resistance to multiple antimicrobial agents, indicating the presence of extensive antimicrobial resistance mechanisms. Whole-genome sequencing revealed the prevalence of the bla(OXA-24) gene and the association of ST502 sequence type with bla(OXA-24) in these isolates. Tobramycin and colistin were identified as potential therapeutic options.
MICROBIAL DRUG RESISTANCE
(2022)
Article
Microbiology
Dimard E. Foudraine, Camiel N. M. Aarents, Agnes A. Wattel, Ria van Boxtel, Nikolaos Strepis, Marian T. ten Kate, Annelies Verbon, Theo M. Luider, Corne H. W. Klaassen, John Hays, Lennard J. M. Dekker, Jan Tommassen, Wil H. F. Goessens
Summary: Extended-Spectrum beta-Lactamases (ESBL) and AmpC beta-lactamases can inhibit the activity of carbapenem antibiotics by preventing their interaction with penicillin-binding proteins. When present in high concentrations along with decreased antibiotic influx, they can confer carbapenem resistance in Enterobacterales. A targeted LC-MS/MS method was developed to detect beta-lactamases and porins in Escherichia coli, providing potential clinical value in the early detection of non-carbapenemase-producing carbapenem-resistant E. coli.
FRONTIERS IN MICROBIOLOGY
(2022)
Article
Public, Environmental & Occupational Health
Adrienne S. van der Schoor, Juliette A. Severin, Anna S. van der Weg, Nikolaos Strepis, Corne H. W. Klaassen, Johannes P. C. van den Akker, Marco J. Bruno, Johanna M. Hendriks, Margreet C. Vos, Anne F. Voor In 't Holt
Summary: Transitioning to 100% single-occupancy rooms did not decrease ESBL-E acquisition, but did significantly decrease the number of intra-hospital patient transfers. The latter was associated with lower odds on ESBL-E acquisition. ESBL-E carriers remained largely unidentified through clinical samples.
ANTIMICROBIAL RESISTANCE AND INFECTION CONTROL
(2022)
Article
Public, Environmental & Occupational Health
Anne F. Voor in 't Holt, Adrienne S. van der Schoor, Kees Mourik, Nikolaos Strepis, Corne H. W. Klaassen, Margreet C. Vos, Juliette A. Severin
Summary: This study investigated the travel history and behavior of patients and their correlation to highly resistant microorganism (HRMO) carriage upon hospital admission. It found that half of the admitted patients had traveled abroad in the last year, with only a small percentage traveling outside Europe. The majority of patients were aware of the risk of HRMO carriage during international travel and supported screening strategies to minimize the risk of introducing HRMO.
ANTIMICROBIAL RESISTANCE AND INFECTION CONTROL
(2022)
Article
Microbiology
Dimard E. Foudraine, Lennard J. M. Dekker, Nikolaos Strepis, Stan J. Nispeling, Merel N. Raaphorst, Wendy Kloezen, Piet Colle, Annelies Verbon, Corne H. W. Klaassen, Theo M. Luider, Wil H. F. Goessens
Summary: A multiplex-targeted liquid chromatography-tandem mass spectrometry (LC-MS/MS) assay was developed and validated for the rapid and accurate detection of resistance mechanisms in Escherichia coli or Klebsiella pneumoniae complex from positive blood cultures. The assay showed high agreement with whole-genome sequencing results and correctly predicted the majority of susceptible and non-susceptible phenotypes.
FRONTIERS IN MICROBIOLOGY
(2022)
Article
Microbiology
Manisha Goyal, Andreu Coello Pelegrin, Magali Jaillard, Yulia Rosa Saharman, Corne H. W. Klaassen, Henri A. Verbrugh, Juliette A. Severin, Alex van Belkum
Summary: This study demonstrates the importance of detailed whole genome sequencing analysis for highly refined epidemiological analysis of carbapenem non-susceptible Pseudomonas aeruginosa. The analysis revealed variations in transmission and acquisition of CNPA strains among patients, as well as the correlation between genomic sequence changes and the distribution of antibiotic resistance and virulence genes.
FRONTIERS IN MICROBIOLOGY
(2022)
Correction
Public, Environmental & Occupational Health
Adrienne S. van der Schoor, Juliette A. Severin, Anna S. van der Weg, Nikolaos Strepis, Corne H. W. Klaassen, Johannes P. C. van den Akker, Marco J. Bruno, Johanna M. Hendriks, Margreet C. Vos, Anne Voor F. In 't Holt
ANTIMICROBIAL RESISTANCE AND INFECTION CONTROL
(2022)
Article
Immunology
Sammy Huygens, Albert Dunbar, Jochem B. Buil, Corne H. W. Klaassen, Paul E. Verweij, Karin van Dijk, Nick de Jonge, Jeroen J. W. M. Janssen, Walter J. F. M. van der Velden, Bart J. Biemond, Aldert Bart, Anke H. W. Bruns, Pieter-Jan A. Haas, Astrid M. P. Demandt, Guy Oudhuis, Peter von dem Borne, Martha T. van der Beek, Saskia K. Klein, Peggy Godschalk, Lambert F. R. Span, Douwe F. Postma, Greetje A. Kampinga, Johan Maertens, Katrien Lagrou, Toine Mercier, Ine Moors, Jerina Boelens, Dominik Selleslag, Marijke Reynders, Willemien Zandijk, Jeanette K. Doorduijn, Jan J. Cornelissen, Alexander F. A. D. Schauwvlieghe, Bart J. A. Rijnders
Summary: This prospective multicenter study showed that real-time resistance testing may limit the impact of azole resistance on mortality. An isolated positive polymerase chain reaction assay was not associated with mortality. Its place in the current EORTC/MSGERC definitions should be reconsidered.
CLINICAL INFECTIOUS DISEASES
(2023)
Article
Infectious Diseases
Linda J. J. Wammes, Anne F. Voor in F. 't Holt, Corne H. W. Klaassen, Margreet C. C. Vos, Nelianne J. J. Verkaik, Juliette A. Severin
Summary: This study aimed to improve the sensitivity of detecting vancomycin-resistant Enterococcus faecium (VRE) transmission and determine the time from presumed exposure to detectable colonization. Retrospective analysis of 9 VRE outbreaks showed that using the first three out of five rectal swabs identified 89% of all secondary cases, compared to only 64% with the first swab. In addition, taking one or more rectal swabs around day 9 after presumed exposure was found to be the most effective screening approach.
EUROPEAN JOURNAL OF CLINICAL MICROBIOLOGY & INFECTIOUS DISEASES
(2023)
Article
Public, Environmental & Occupational Health
Adrienne S. van der Schoor, Juliette A. Severin, Corne H. W. Klaassen, Diederik Gommers, Marco J. Bruno, Johanna M. Hendriks, Anne F. Voor in 't Holt, Margreet C. Vos
Summary: This study aimed to compare the environmental contamination with highly resistant microorganisms (HRMO) between an old hospital building and a new hospital building, and to investigate the environmental contamination in the new building after relocation. The results showed a significant decrease in HRMO contamination in the new building, which is important for hospital design and construction considerations.
INTERNATIONAL JOURNAL OF HYGIENE AND ENVIRONMENTAL HEALTH
(2023)
Article
Multidisciplinary Sciences
Jannette Pirzadian, Anne F. Voor In 't Holt, Mehjabeen Hossain, Corne H. W. Klaassen, Inge de Goeij, Heidy H. H. T. Koene, Lonneke G. M. Bode, Margreet C. Vos, Juliette A. Severin
Summary: In healthcare environments, sinks are recognized as reservoirs for multidrug-resistant bacteria. This study implemented an intervention to install sink drain plugs as barriers against transmission of VIM-PA from drain reservoirs. Results showed a significant reduction in VIM-PA positivity after the intervention, but recolonization was observed over time.
Article
Multidisciplinary Sciences
Adrienne S. van der Schoor, Juliette A. Severin, Corne H. W. Klaassen, Johannes P. C. van den Akker, Marco J. Bruno, Johanna M. Hendriks, Margreet C. Vos, Anne F. Voor F. In 't Holt
Summary: Timely identification of patients carrying multidrug-resistant microorganisms is crucial to prevent nosocomial spread. This study compared the yield of a universal screening strategy upon admission to the current risk assessment combined with risk-based screening, showing that universal screening identified significantly more carriers in a low endemic setting.
