Browsing Brage INN by Author "Avershina, Ekaterina"
Now showing items 1-12 of 12
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AMR-Diag: Neural network based genotype-to-phenotype prediction of resistance towards β-lactams in Escherichia coli and Klebsiella pneumoniae
Avershina, Ekaterina; Sharma, Priyanka; Taxt, Arne Michael; Singh, Harpreet; Frye, Stephan Alfons; Paul, Kolin; Kapil, Arti; Naseer, Mohammed Umaer; Kaur, Punit; Ahmad, Rafi (Peer reviewed; Journal article, 2021)Antibiotic resistance poses a major threat to public health. More effective ways of the antibiotic prescription are needed to delay the spread of antibiotic resistance. Employment of sequencing technologies coupled with ... -
Bifidobacterial Succession and Correlation Networks in a Large Unselected Cohort of Mothers and Their Children
Avershina, Ekaterina; Storrø, Ola; Øien, Torbjørn; Johnsen, Roar; Wilson, Robert; Egeland, Thore; Rudi, Knut (Journal article; Peer reviewed, 2013)Bifidobacteria are a major microbial component of infant gut microbiota, which is believed to promote health benefits for the host and stimulate maturation of the immune system. Despite their perceived importance, very ... -
Clinical Diagnostics of Bacterial Infections and Their Resistance to Antibiotics—Current State and Whole Genome Sequencing Implementation Perspectives
Avershina, Ekaterina; Khezri, Abdolrahman; Ahmad, Rafi (Peer reviewed; Journal article, 2023)Antimicrobial resistance (AMR), defined as the ability of microorganisms to withstand antimicrobial treatment, is responsible for millions of deaths annually. The rapid spread of AMR across continents warrants systematic ... -
Culture dependent and independent analyses suggest a low level of sharing of endospore-forming species between mothers and their children
Avershina, Ekaterina; Larsen, Marte Gro; Aspholm, Marina Elisabeth; Lindbäck, Toril; Storrø, Ola; Øien, Torbjørn; Johnsen, Roar; Rudi, Knut (Peer reviewed; Journal article, 2020)Spore forming bacteria comprise a large part of the human gut microbiota. However, study of the endospores in gut microbiota is limited due to difficulties of culturing and numerous unknown germination factors. In this ... -
Development of Bifidobacterium spp. in infants: Age dependent patterns and correlating factors
Avershina, Ekaterina (Master thesis, 2011)Bifidobacteria are a major microbial component of infant gut microbiota which is believed to promote health benefits for the host and stimulate the maturation of immune system. Despite the importance we know little ... -
Enhanced Raman techniques for infection diagnostics
Hanrahan, Niall; Lister, Adam; Highmore, Callum; Rajith, Leena; Avershina, Ekaterina; Ali, Jawad; Ahmad, Rafi; Webb, Jeremy; Mahajan, Sumeet (Peer reviewed; Journal article, 2022)In this paper we describe our recent work in multi-excitation surface enhanced Raman spectroscopy (MX-SERS), and its application for robust strain-level bacteria identification. The development of MX-SERS follows directly ... -
Exploring the brine microbiota of a traditional Norwegian fermented fish product (Rakfisk) from six different producers during two consecutive seasonal productions
Bjerke, Guro alette; Rudi, Knut; Avershina, Ekaterina; Moen, Birgitte; Blom, Hans; Axelsson, Lars Torsten (Peer reviewed; Journal article, 2019)The purpose of this study was to explore the microbiota of Norwegian fermented fish (rakfisk), a traditional product popular in the Norwegian market. Brine samples, collected from six producers during two subsequent years, ... -
Fighting Antibiotic Resistance in Hospital-Acquired Infections: Current State and Emerging Technologies in Disease Prevention, Diagnostics and Therapy
Avershina, Ekaterina; Shapovalova, Valeria; Shipulin, German (Peer reviewed; Journal article, 2021)Rising antibiotic resistance is a global threat that is projected to cause more deaths than all cancers combined by 2050. In this review, we set to summarize the current state of antibiotic resistance, and to give an ... -
Gut Microbiota in HIV Infection: Implication for Disease Progression and Management
Nwosu, Felix Chinweije; Avershina, Ekaterina; Wilson, Robert Charles; Rudi, Knut (Journal article; Peer reviewed, 2014)Survival rates among HIV patients have significantly improved since the introduction of antiretroviral therapy (ART) in HIV management. However, persistent disease progression and clinical complications in virally suppressed ... -
Hybrid Assembly Provides Improved Resolution of Plasmids, Antimicrobial Resistance Genes, and Virulence Factors in Escherichia coli and Klebsiella pneumoniae Clinical Isolates
Khezri, Abdolrahman; Avershina, Ekaterina; Ahmad, Rafi (Peer reviewed; Journal article, 2021)Emerging new sequencing technologies have provided researchers with a unique opportunity to study factors related to microbial pathogenicity, such as antimicrobial resistance (AMR) genes and virulence factors. However, the ... -
Plasmid Identification and Plasmid-Mediated Antimicrobial Gene Detection in Norwegian Isolates
Khezri, Abdolrahman; Avershina, Ekaterina; Ahmad, Rafi (Peer reviewed; Journal article, 2020)Norway is known for being one of the countries with the lowest levels of antimicrobial resistance (AMR). AMR, through acquired genes located on transposons or conjugative plasmids, is the horizontal transmission of genes ... -
Rapid identification of pathogens, antibiotic resistance genes and plasmids in blood cultures by nanopore sequencing
Taxt, Arne Michael; Avershina, Ekaterina; Frye, Stephan Alfons; Naseer, Mohammed Umaer; Ahmad, Rafi (Peer reviewed; Journal article, 2020)Bloodstream infections (BSI) and sepsis are major causes of morbidity and mortality worldwide. Blood culture-based diagnostics usually requires 1–2 days for identification of bacterial agent and an additional 2–3 days for ...