Ekaterina Avershina
YOU?
Author Swipe
View article: Microbiome signatures for detection of colorectal lesions in population-based FIT screening
Microbiome signatures for detection of colorectal lesions in population-based FIT screening Open
The gut microbiome has been linked to colorectal cancer (CRC) development, with microbe-based classifiers distinguishing between CRC patients and healthy controls. However, there is a lack of studies addressing the utility of the microbiom…
View article: Women and men exhibit distinct gut microbial profiles linked to colorectal cancer development
Women and men exhibit distinct gut microbial profiles linked to colorectal cancer development Open
Background The gut microbiome has emerged as a promising source of biomarkers to enhance early detection of colorectal cancer (CRC). However, sex-specific differences in gut microbial profiles and their relationship to CRC risk remain unde…
View article: Challenges in capturing the mycobiome from shotgun metagenome data: lack of software and databases
Challenges in capturing the mycobiome from shotgun metagenome data: lack of software and databases Open
View article: The association between alcohol consumption and colorectal carcinogenesis is partially mediated by the gut microbiome
The association between alcohol consumption and colorectal carcinogenesis is partially mediated by the gut microbiome Open
Background Alcohol consumption is one of the major risk factors of colorectal cancer (CRC). However, the mechanisms underlying this relationship are not fully understood, particularly the potential role of gut microbes. Objective To study …
View article: Species-level verification of <i>Phascolarctobacterium</i> association with colorectal cancer
Species-level verification of <i>Phascolarctobacterium</i> association with colorectal cancer Open
We have previously demonstrated an association between increased abundance of Phascolarctobacterium and colorectal cancer (CRC) and adenomas in two independent Norwegian cohorts. Here we seek to verify our previous findings using new cohor…
View article: Species-level verification of Phascolarctobacterium association to colorectal cancer
Species-level verification of Phascolarctobacterium association to colorectal cancer Open
Background and aims: We have previously demonstrated an association between increased abundance of Phascolarctobacterium and colorectal cancer (CRC) and adenomas in two independent Norwegian cohorts. Here we seek to verify our previous fin…
View article: Exploring the gut DNA virome in fecal immunochemical test stool samples reveals associations with lifestyle in a large population-based study
Exploring the gut DNA virome in fecal immunochemical test stool samples reveals associations with lifestyle in a large population-based study Open
View article: Exploring the gut virome in fecal immunochemical test stool samples reveals novel associations with lifestyle in a large population-based study
Exploring the gut virome in fecal immunochemical test stool samples reveals novel associations with lifestyle in a large population-based study Open
Stool samples for fecal immunochemical tests (FIT) are collected in large numbers worldwide as part of colorectal cancer screening programs, but to our knowledge, the utility of these samples for virome studies is still unexplored. Employi…
View article: Exploring the gut virome in fecal immunochemical test stool samples reveals novel associations with lifestyle in a large population-based study
Exploring the gut virome in fecal immunochemical test stool samples reveals novel associations with lifestyle in a large population-based study Open
Stool samples for fecal immunochemical tests (FIT) are collected in large numbers worldwide as part of colorectal cancer screening programs, but to our knowledge, the utility of these samples for virome studies is still unexplored. Employi…
View article: Clinical Diagnostics of Bacterial Infections and Their Resistance to Antibiotics—Current State and Whole Genome Sequencing Implementation Perspectives
Clinical Diagnostics of Bacterial Infections and Their Resistance to Antibiotics—Current State and Whole Genome Sequencing Implementation Perspectives Open
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 changes in healthc…
View article: Enhanced Raman techniques for infection diagnostics
Enhanced Raman techniques for infection diagnostics Open
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 from our previous…
View article: Ultrafast and Cost-Effective Pathogen Identification and Resistance Gene Detection in a Clinical Setting Using Nanopore Flongle Sequencing
Ultrafast and Cost-Effective Pathogen Identification and Resistance Gene Detection in a Clinical Setting Using Nanopore Flongle Sequencing Open
Rapid bacterial identification and antimicrobial resistance gene (ARG) detection are crucial for fast optimization of antibiotic treatment, especially for septic patients where each hour of delayed antibiotic prescription might have lethal…
View article: Multi-excitation Raman Spectroscopy Complements Whole Genome Sequencing for Rapid Detection of Bacterial Infection and Resistance in WHO Priority Pathogens
Multi-excitation Raman Spectroscopy Complements Whole Genome Sequencing for Rapid Detection of Bacterial Infection and Resistance in WHO Priority Pathogens Open
Current methods for diagnosing acute and complex infections mostly rely on culture-based methods and, for biofilms, fluorescence in-situ hybridization. These techniques are labor-intensive and can take 2-4 days to return a test result, esp…
View article: Hybrid Assembly Provides Improved Resolution of Plasmids, Antimicrobial Resistance Genes, and Virulence Factors in Escherichia coli and Klebsiella pneumoniae Clinical Isolates
Hybrid Assembly Provides Improved Resolution of Plasmids, Antimicrobial Resistance Genes, and Virulence Factors in Escherichia coli and Klebsiella pneumoniae Clinical Isolates Open
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 use of whole-gen…
View article: Fighting Antibiotic Resistance in Hospital-Acquired Infections: Current State and Emerging Technologies in Disease Prevention, Diagnostics and Therapy
Fighting Antibiotic Resistance in Hospital-Acquired Infections: Current State and Emerging Technologies in Disease Prevention, Diagnostics and Therapy Open
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 overview of the emergi…
View article: Correction to: Early gut mycobiota and mother-offspring transfer
Correction to: Early gut mycobiota and mother-offspring transfer Open
View article: AMR-Diag: Neural network based genotype-to-phenotype prediction of resistance towards β-lactams in Escherichia coli and Klebsiella pneumoniae
AMR-Diag: Neural network based genotype-to-phenotype prediction of resistance towards β-lactams in Escherichia coli and Klebsiella pneumoniae Open
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 the use of trained …
View article: Plasmid Identification and Plasmid-Mediated Antimicrobial Gene Detection in Norwegian Isolates
Plasmid Identification and Plasmid-Mediated Antimicrobial Gene Detection in Norwegian Isolates Open
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 required for a giv…
View article: Early Gut Fungal and Bacterial Microbiota and Childhood Growth
Early Gut Fungal and Bacterial Microbiota and Childhood Growth Open
Introduction: Childhood growth is a sensitive marker of health. Animal studies show increased height and weight velocity in the presence of fungal as well as antibiotic supplement in feed. Human studies on early gut microbiota and a…
View article: Rapid identification of pathogens, antibiotic resistance genes and plasmids in blood cultures by nanopore sequencing
Rapid identification of pathogens, antibiotic resistance genes and plasmids in blood cultures by nanopore sequencing Open
View article: Culture dependent and independent analyses suggest a low level of sharing of endospore-forming species between mothers and their children
Culture dependent and independent analyses suggest a low level of sharing of endospore-forming species between mothers and their children Open
View article: Establishment of gut microbiota in infants from a large Norwegian cohort
Establishment of gut microbiota in infants from a large Norwegian cohort Open
Human gut microbiota, our so-called forgotten organ, is crucial for proper functioning of our body and for health maintenance. Although the topic of the gut microbiota establishment is very important, scientists still have limited knowledg…
View article: Exploring the Brine Microbiota of a Traditional Norwegian Fermented Fish Product (Rakfisk) from Six Different Producers during Two Consecutive Seasonal Productions
Exploring the Brine Microbiota of a Traditional Norwegian Fermented Fish Product (Rakfisk) from Six Different Producers during Two Consecutive Seasonal Productions Open
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, were used. The p…
View article: Low Maternal Microbiota Sharing across Gut, Breast Milk and Vagina, as Revealed by 16S rRNA Gene and Reduced Metagenomic Sequencing
Low Maternal Microbiota Sharing across Gut, Breast Milk and Vagina, as Revealed by 16S rRNA Gene and Reduced Metagenomic Sequencing Open
The maternal microbiota plays an important role in infant gut colonization. In this work we have investigated which bacterial species are shared across the breast milk, vaginal and stool microbiotas of 109 women shortly before and after gi…
View article: Breastfeeding-associated microbiota in human milk following supplementation with Lactobacillus rhamnosus GG, Lactobacillus acidophilus La-5, and Bifidobacterium animalis ssp. lactis Bb-12
Breastfeeding-associated microbiota in human milk following supplementation with Lactobacillus rhamnosus GG, Lactobacillus acidophilus La-5, and Bifidobacterium animalis ssp. lactis Bb-12 Open
Breastfeeding is one of the major factors affecting the early development of the infant gut microbiota, and weaning is associated with a shift in the gut microbiota toward a more adult composition. Through breastfeeding, infants receive bi…
View article: Diversity of vaginal microbiota increases by the time of labor onset
Diversity of vaginal microbiota increases by the time of labor onset Open
View article: Genetic diversity and mother-child overlap of the gut associated microbiota determined by reduced genome sequencing
Genetic diversity and mother-child overlap of the gut associated microbiota determined by reduced genome sequencing Open
The genetic diversity and sharing of the mother-child associated microbiota remain largely unexplored. This severely limits our functional understanding of gut microbiota transmission patterns. The aim of our work was therefore to use a no…
View article: Early gut mycobiota and mother-offspring transfer
Early gut mycobiota and mother-offspring transfer Open
View article: Additional file 3: of Early gut mycobiota and mother-offspring transfer
Additional file 3: of Early gut mycobiota and mother-offspring transfer Open
Concordance of fungal databases and final assignment. (XLSX 101 kb)
View article: Additional file 4: of Early gut mycobiota and mother-offspring transfer
Additional file 4: of Early gut mycobiota and mother-offspring transfer Open
Table of fungal species. (XLSX 18 kb)