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https://www.readbyqxmd.com/read/29342404/association-between-severity-of-liver-disease-frequency-of-helicobacter-pylori-infection-and-degree-of-gastric-lesion-in-egyptian-patients-with-hepatitis-b-virus-infection
#1
Amal A Mohamed, Amal A Elshimy, Abir O El Sadik, Elham Ezzat, Mona Nasar, Shereen S M Elshaer, Moataz M Sayed
The relationship between hepatitis B virus (HBV) infection, severity of liver disease, frequency of Helicobacter pylori infection, and degree of gastric lesions was not yet fully investigated in Egyptian patients. The present work was performed on 100 Egyptian patients with HBV from the National Hepatology and Tropical Medicine Institute and 70 healthy volunteers as control group. The participants were subjected to full medical history taking, clinical examination, and laboratory investigations. All patients were positive for HBV surface antigen (HBV sAg), HBV DNA, and negative for hepatitis C virus antibodies...
January 2018: American Journal of Tropical Medicine and Hygiene
https://www.readbyqxmd.com/read/29341983/diarrheagenic-escherichia-coli-and-acute-gastroenteritis-in-children-in-davidson-county-tennessee-united-states-a-case-control-study
#2
Aamer Imdad, Monique A Foster, Junaid Iqbal, Christopher Fonnesbeck, Daniel C Payne, Chengxian Zhang, James D Chappell, Natasha Halasa, Oscar G Gómez-Duarte
BACKGROUND: Diarrheagenic Escherichia coli (DEC) are an important cause of acute gastroenteritis in children; however, there is limited information available on the epidemiology, phylogenetics, serotyping, and antibiotic susceptibility of DEC in children in the United States. The aim of this study was to determine the molecular epidemiology of DEC among children with and without acute gastroenteritis in Davidson County, Tennessee. METHODS: This prospective, frequency matched, case-control study recruited subjects 15 days to 17 years of age and detected DEC with polymerase chain reaction from stool samples...
January 16, 2018: Pediatric Infectious Disease Journal
https://www.readbyqxmd.com/read/29335008/multi-omics-differentially-classify-disease-state-and-treatment-outcome-in-pediatric-crohn-s-disease
#3
Gavin M Douglas, Richard Hansen, Casey M A Jones, Katherine A Dunn, André M Comeau, Joseph P Bielawski, Rachel Tayler, Emad M El-Omar, Richard K Russell, Georgina L Hold, Morgan G I Langille, Johan Van Limbergen
BACKGROUND: Crohn's disease (CD) has an unclear etiology, but there is growing evidence of a direct link with a dysbiotic microbiome. Many gut microbes have previously been associated with CD, but these have mainly been confounded with patients' ongoing treatments. Additionally, most analyses of CD patients' microbiomes have focused on microbes in stool samples, which yield different insights than profiling biopsy samples. RESULTS: We sequenced the 16S rRNA gene (16S) and carried out shotgun metagenomics (MGS) from the intestinal biopsies of 20 treatment-naïve CD and 20 control pediatric patients...
January 15, 2018: Microbiome
https://www.readbyqxmd.com/read/29329749/assessment-of-the-diagnostic-performance-of-four-methods-for-the-detection-of-giardia-duodenalis-in-fecal-samples-from-human-canine-and-feline-carriers
#4
Flávia Fernandes de Mendonça Uchôa, Adriana Pittella Sudré, Sabrina Destri Emmerick Campos, Nádia Regina Pereira Almosny
Enteric parasitic diseases including giardiasis are of public health concern. Different methods are available for the diagnosis of this parasitic infection in fecal samples such as the identification of protozoan cysts and trophozoites by light microscopy, detection of specific antigens by ELISA, and amplification of DNA fragments by PCR. The present study aimed at assessing the performance of four laboratory tests for the detection of Giardia duodenalis in fecal specimens from three different host species with a previous diagnosis of giardiasis; canine, feline and human patients provided new stool samples to be retested for Giardia before initiating treatment with antiprotozoal drugs...
January 9, 2018: Journal of Microbiological Methods
https://www.readbyqxmd.com/read/29322463/selection-of-esbl-producing-e-coli-in-a-mouse-intestinal-colonization-model
#5
Frederik Boëtius Hertz, Karen Leth Nielsen, Niels Frimodt-Møller
Asymptomatic human carriage of antimicrobially drug-resistant pathogens prior to infection is increasing worldwide. Further investigation into the role of this fecal reservoir is important for combatting the increasing antimicrobial resistance problems. Additionally, the damage on the intestinal microflora due to antimicrobial treatment is still not fully understood. Animal models are powerful tools to investigate bacterial colonization subsequent to antibiotic treatment. In this chapter we present a mouse-intestinal colonization model designed to investigate how antibiotics select for an ESBL-producing E...
2018: Methods in Molecular Biology
https://www.readbyqxmd.com/read/29318461/ceftriaxone-promotes-the-emergence-of-ampc-overproducing-enterobacteriaceae-in-gut-microbiota-from-hospitalized-patients
#6
Victoire de Lastours, Tiphaine Goulenok, François Guérin, Hervé Jacquier, Cindy Eyma, Françoise Chau, Vincent Cattoir, Bruno Fantin
Epidemiological data suggest that ceftriaxone may promote the emergence of commensal AmpC-overproducing Enterobacteriaceae because of a high biliary excretion. We tested this hypothesis in hospitalized patients either treated by ceftriaxone alone or receiving no antibiotics. Hospitalized patients with no previous antibiotics or hospitalization in the last 3 months, treated only with ceftriaxone, were prospectively included. For each ceftriaxone-treated patient, a control patient receiving no antibiotics was included...
January 10, 2018: European Journal of Clinical Microbiology & Infectious Diseases
https://www.readbyqxmd.com/read/29318340/evaluating-protocols-for-porcine-faecal-microbiome-recollection-storage-and-dna-extraction-from-the-farm-to-the-lab
#7
Anixa Muiños-Bühl, Oscar González-Recio, María Muñoz, Cristina Óvilo, Juan García-Casco, Ana I Fernández
There is a growing interest in understanding the role of the gut microbiome on productive and meat quality-related traits in livestock species in order to develop new useful tools for improving pig production systems and industry. Faecal samples are analysed as a proxy of gut microbiota and here the selection of suitable protocols for faecal sampling and DNA isolation is a critical first step in order to obtain reliable results, even more to compare results obtained from different studies. The aim of the current study was to establish in a cost-effective way, using automated ribosomal intergenic spacer analysis technique, a protocol for porcine faecal sampling and storage at farm and slaughterhouse and to determine the most efficient microbiota DNA isolation kit among those most widely used...
January 9, 2018: Current Microbiology
https://www.readbyqxmd.com/read/29313389/multi-target-stool-dna-test-in-the-surveillance-of-inflammatory-bowel-disease-a-cross-sectional-cohort-study
#8
Pasquale Klepp, John B Kisiel, Milada Cvancarova Småstuen, Arne Røseth, Solveig N Andersen, Morten H Vatn, David A Ahlquist, Bjørn A Moum, Stephan Brackmann
BACKGROUND AND AIM: Colonoscopic surveillance is recommended in patients with longstanding inflammatory bowel disease (IBD) as they are at increased risk of colorectal cancer (CRC). Non-invasive surveillance may improve compliance and access. Multi-target stool DNA (MT-sDNA) has been validated for screening of sporadic CRC but has not been assessed in IBD. Our aim was to assess the performance of a MT-sDNA test in a real-life surveillance setting of patients with longstanding IBD. MATERIAL AND METHODS: A total of 192 IBD patients enrolled from two prospective cohorts submitted an EDTA buffered stool sample and underwent chromo- or white light colonoscopy...
January 9, 2018: Scandinavian Journal of Gastroenterology
https://www.readbyqxmd.com/read/29307989/gene-mutations-in-stool-from-gastric-and-colorectal-neoplasia-patients-by-next-generation-sequencing
#9
Omar Youssef, Virinder Sarhadi, Homa Ehsan, Tom Böhling, Monika Carpelan-Holmström, Selja Koskensalo, Pauli Puolakkainen, Arto Kokkola, Sakari Knuutila
AIM: To study cancer hotspot mutations by next-generation sequencing (NGS) in stool DNA from patients with different gastrointestinal tract (GIT) neoplasms. METHODS: Stool samples were collected from 87 Finnish patients diagnosed with various gastric and colorectal neoplasms, including benign tumors, and from 14 healthy controls. DNA was isolated from stools by using the PSP® Spin Stool DNA Plus Kit. For each sample, 20 ng of DNA was used to construct sequencing libraries using the Ion AmpliSeq Cancer Hotspot Panel v2 or Ion AmpliSeq Colon and Lung Cancer panel v2...
December 21, 2017: World Journal of Gastroenterology: WJG
https://www.readbyqxmd.com/read/29305057/comparison-of-dna-extraction-methods-for-human-gut-microbial-community-profiling
#10
Mi Young Lim, Eun-Ji Song, Sang Ho Kim, Jangwon Lee, Young-Do Nam
The human gut harbors a vast range of microbes that have significant impact on health and disease. Therefore, gut microbiome profiling holds promise for use in early diagnosis and precision medicine development. Accurate profiling of the highly complex gut microbiome requires DNA extraction methods that provide sufficient coverage of the original community as well as adequate quality and quantity. We tested nine different DNA extraction methods using three commercial kits (TianLong Stool DNA/RNA Extraction Kit (TS), QIAamp DNA Stool Mini Kit (QS), and QIAamp PowerFecal DNA Kit (QP)) with or without additional bead-beating step using manual or automated methods and compared them in terms of DNA extraction ability from human fecal sample...
December 21, 2017: Systematic and Applied Microbiology
https://www.readbyqxmd.com/read/29302628/intestinal-microsporidiosis-in-iran-infection-in-immune-compromised-and-immunocompetent-patients
#11
M Nooshadokht, I Sharifi, M A Mohammadi, M Pirestani, A Afgar, A Mahootchi, S Salari
Background and Purpose: Gastroenteritis and the clinical profile caused by Microsporidia, an opportunistic pathogen, may be severe in immunocompromised individuals, especially in AIDS patients. Conventionally, it is necessary to detect the small infective spores in stained smears. However, due to the limitations of the microscopy-based methods, several DNA-based methods such as polymerase chain reaction (PCR) have recently been developed to enhance diagnosis sensitivity. Therefore, we sought to evaluate the rate of infection in immunocompromised patients as compared with immunocompetent patients in Kerman, Iran...
March 2017: Advances in Medical Mycology (Iran)
https://www.readbyqxmd.com/read/29250605/successful-collection-of-stool-samples-for-microbiome-analyses-from-a-large-community-based-population-of-elderly-men
#12
Melanie Abrahamson, Elizabeth Hooker, Nadim J Ajami, Joseph F Petrosino, Eric S Orwoll
The relationship of the gastrointestinal microbiome to health and disease is of major research interest, including the effects of the gut microbiota on age related conditions. Here we report on the outcome of a project to collect stool samples on a large number of community dwelling elderly men using the OMNIgene-GUT stool/feces collection kit (OMR-200, DNA Genotek, Ottawa, Canada). Among 1,328 men who were eligible for stool collection, 982 (74%) agreed to participate and 951 submitted samples. The collection process was reported to be acceptable, almost all samples obtained were adequate, the process of sample handling by mail was uniformly successful...
September 2017: Contemporary Clinical Trials Communications
https://www.readbyqxmd.com/read/29244212/detection-of-enteric-and-non-enteric-adenoviruses-in-gastroenteritis-patients-bangladesh-2012-2015
#13
Mokibul Hassan Afrad, Tasnuva Avzun, Jahurul Haque, Warda Haque, Mohammad Enayet Hossain, Afm Rajibur Rahman, Shahnawaz Ahmed, Abu Syed Golam Faruque, Mohammed Ziaur Rahman, Mustafizur Rahman
BACKGROUND: Human adenoviruses (HAdVs) are common cause of nonbacterial acute gastroenteritis worldwide. Limited data exist on HAdVs molecular epidemiology associated with acute gastroenteritis in Bangladesh. OBJECTIVE: We describe the genetic diversity and epidemiology of HAdVs among hospitalized diarrhea patients, including HAdV genotypes, clinical symptoms and co-infecting enteric pathogens. STUDY DESIGN: Stool samples were collected from ongoing diarrhea surveillance during 2012-2015...
December 15, 2017: Journal of Medical Virology
https://www.readbyqxmd.com/read/29238331/sensitive-and-rapid-detection-of-the-plasmid-encoded-colistin-resistance-gene-mcr-1-in-enterobacteriaceae-isolates-by-loop-mediated-isothermal-amplification
#14
Dayang Zou, Simo Huang, Hong Lei, Zhan Yang, Yuxin Su, Xiaoming He, Qinghe Zhao, Yong Wang, Wei Liu, Liuyu Huang
The emergence of the plasmid-encoded colistin-resistance gene mcr-1 in Enterobacteriaceae represents a new threat to the treatment of infection in the clinical setting. A sensitive and rapid molecular method for detection of the mcr-1 gene in clinical isolates is needed to control the spread of this gene. In this study, we established a loop-mediated isothermal amplification (LAMP) assay for rapid detection of the mcr-1 gene. This assay was applied to cultured bacteria and spiked human stools. Real-time monitoring of turbidity and chromogenic visualization were used to assess the reaction results...
2017: Frontiers in Microbiology
https://www.readbyqxmd.com/read/29228024/detection-of-duo-schistosome-infection-from-filtered-urine-samples-from-school-children-in-zambia-after-mda
#15
Megan J Hessler, Austin Cyrs, Steven C Krenzke, El Shaimaa Mahmoud, Chummy Sikasunge, James Mwansa, Nilanjan Lodh
Schistosomiasis is one of the major Neglected Tropical Diseases (NTDs) in sub-Saharan Africa. In sub-Saharan Africa, two major human schistosome species namely Schistosoma mansoni and S. haematobium often occur sympatrically largely affecting children. Recognizing the public health impact of Schistosomiasis, the World Health Organization (WHO) is urging member states to regularly treat at least 75% and up to 100%, of all school-aged children at risk of morbidity. For control strategies based on targeted mass drug administration (MDA) to succeed it is essential to have a simple and sensitive test for monitoring the success of these interventions...
2017: PloS One
https://www.readbyqxmd.com/read/29225907/changes-in-the-gut-microbiota-composition-and-the-plasma-ghrelin-level-in-patients-with-helicobacter-pylori-infected-patients-with-eradication-therapy
#16
Hidetaka Yanagi, Ayumi Tsuda, Masashi Matsushima, Shunsuke Takahashi, Genki Ozawa, Yasuhiro Koga, Atsushi Takagi
Objective: To investigate the influence of antimicrobials on both the gut microbiota structure and the plasma ghrelin level using Helicobacter pylori-infected patients who underwent eradication therapy. Design: Twenty H. pylori-infected patients (mean age 68.3 years old) who underwent eradication therapy participated in the study. For the therapy, patients had 1 week of triple therapy consisting of amoxicillin, clarithromycin and proton-pump inhibitors. Stool and blood samples were obtained before (S1), immediately after (S2) and/or 3 months after (S3) the therapies...
2017: BMJ Open Gastroenterology
https://www.readbyqxmd.com/read/29225717/feasibility-of-quantifying-sdc2-methylation-in-stool-dna-for-early-detection-of-colorectal-cancer
#17
Tae Jeong Oh, Hyun Il Oh, Yang Yei Seo, Dongjun Jeong, Changjin Kim, Hyoun Woo Kang, Yoon Dae Han, Hyun Cheol Chung, Nam Kyu Kim, Sungwhan An
Background: Colorectal cancer (CRC) screening is the most efficient strategy to reduce disease-related mortality. Frequent aberrant DNA methylation is known to occur in selected genes and early during CRC development, which has emerged as a new epigenetic biomarker for early detection of CRC. Previously, we reported that we identified that CpG sites of SDC2 were aberrantly methylated in tumor tissues of most CRC patients through comprehensive methylation analysis and demonstrated a high potential of quantification of SDC2 methylation in blood for early detection of colorectal cancer...
2017: Clinical Epigenetics
https://www.readbyqxmd.com/read/29224163/methylation-sensitive-high-resolution-melting-ms-hrm
#18
Dianna Hussmann, Lise Lotte Hansen
Methylation-Sensitive High Resolution Melting (MS-HRM) is an in-tube, PCR-based method to detect methylation levels at specific loci of interest. A unique primer design facilitates a high sensitivity of the assays enabling detection of down to 0.1-1% methylated alleles in an unmethylated background.Primers for MS-HRM assays are designed to be complementary to the methylated allele, and a specific annealing temperature enables these primers to anneal both to the methylated and the unmethylated alleles thereby increasing the sensitivity of the assays...
2018: Methods in Molecular Biology
https://www.readbyqxmd.com/read/29214046/high-resolution-bacterial-16s-rrna-gene-profile-meta-analysis-and-biofilm-status-reveal-common-colorectal-cancer-consortia
#19
Julia L Drewes, James R White, Christine M Dejea, Payam Fathi, Thevambiga Iyadorai, Jamuna Vadivelu, April C Roslani, Elizabeth C Wick, Emmanuel F Mongodin, Mun Fai Loke, Kumar Thulasi, Han Ming Gan, Khean Lee Goh, Hoong Yin Chong, Sandip Kumar, Jane W Wanyiri, Cynthia L Sears
Colorectal cancer (CRC) remains the third most common cancer worldwide, with a growing incidence among young adults. Multiple studies have presented associations between the gut microbiome and CRC, suggesting a link with cancer risk. Although CRC microbiome studies continue to profile larger patient cohorts with increasingly economical and rapid DNA sequencing platforms, few common associations with CRC have been identified, in part due to limitations in taxonomic resolution and differences in analysis methodologies...
2017: NPJ Biofilms and Microbiomes
https://www.readbyqxmd.com/read/29207565/delivery-mode-and-the-transition-of-pioneering-gut-microbiota-structure-composition-and-predicted-metabolic-function
#20
Noel T Mueller, Hakdong Shin, Aline Pizoni, Isabel C Werlang, Ursula Matte, Marcelo Z Goldani, Helena A S Goldani, Maria G Dominguez-Bello
Cesarean (C-section) delivery, recently shown to cause excess weight gain in mice, perturbs human neonatal gut microbiota development due to the lack of natural mother-to-newborn transfer of microbes. Neonates excrete first the in-utero intestinal content (referred to as meconium) hours after birth, followed by intestinal contents reflective of extra-uterine exposure (referred to as transition stool) 2 to 3 days after birth. It is not clear when the effect of C-section on the neonatal gut microbiota emerges...
December 4, 2017: Genes
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