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https://www.readbyqxmd.com/read/27899155/comparative-sequence-analysis-of-cyclospora-cayetanensis-apicoplast-genomes-originating-from-diverse-geographical-regions
#1
Hediye Nese Cinar, Yvonne Qvarnstrom, Yuping Wei-Pridgeon, Wen Li, Fernanda S Nascimento, Michael J Arrowood, Helen R Murphy, AhYoung Jang, Eunje Kim, RaeYoung Kim, Alexandre da Silva, Gopal R Gopinath
BACKGROUND: Cyclospora cayetanensis is an emerging coccidian parasite that causes endemic and epidemic diarrheal disease called cyclosporiasis, and this infection is associated with consumption of contaminated produce or water in developed and developing regions. Food-borne outbreaks of cyclosporiasis have occurred almost every year in the USA since the 1990s. Investigations of these outbreaks are currently hampered due to lack of molecular epidemiological tools for trace back analysis...
November 29, 2016: Parasites & Vectors
https://www.readbyqxmd.com/read/27895408/molecular-detection-of-helicobacter-pylori-antibiotic-resistance-in-stool-vs-biopsy-samples
#2
Denise E Brennan, Joseph Omorogbe, Mary Hussey, Donal Tighe, Grainne Holleran, Colm O'Morain, Sinéad M Smith, Deirdre McNamara
AIM: To compare (1) demographics in urea breath test (UBT) vs endoscopy patients; and (2) the molecular detection of antibiotic resistance in stool vs biopsy samples. METHODS: Six hundred and sixteen adult patients undergoing endoscopy or a UBT were prospectively recruited to the study. The GenoType HelicoDR assay was used to detect Helicobacter pylori (H. pylori) and antibiotic resistance using biopsy and/or stool samples from CLO-positive endoscopy patients and stool samples from UBT-positive patients...
November 7, 2016: World Journal of Gastroenterology: WJG
https://www.readbyqxmd.com/read/27894993/new-adenoviruses-from-new-primate-hosts-growing-diversity-reveals-taxonomic-weak-points
#3
Dadáková Eva, Chrudimský Tomáš, Brožová Kristýna, Modrý David, Celer Vladimír, Hrazdilová Kristýna
The knowledge of the closest human relatives of human adenoviruses (AdVs) such as adenoviruses found in nonhuman primates is still limited, despite the growing importance of adenoviruses in vaccine development, gene and cancer therapy. We examined 153 stool samples of 17 non-human primate species and detected adenoviral DNA sequences of DNA polymerase (DPOL) gene in 54 samples (35 %), originating from 12 out of 17 primate species. We further sequenced 15 hexon gene fragments and based on the phylogenetic analysis we propose two new provisional species SAdV-H and SAdV-I...
November 25, 2016: Molecular Phylogenetics and Evolution
https://www.readbyqxmd.com/read/27891338/non-o157-h7-shiga-toxin-producing-diarrhoeagenic-escherichia-coli-stec-in-southern-india-a-tinderbox-for-starting-epidemic
#4
Shashank Purwar, Subrana Roy, Sharada Metgud
INTRODUCTION: Outbreaks due to non-O157:H7 Shiga toxin producing Escherichia coli (STEC) resulting in Haemolytic Uraemic Syndrome (HUS) have garnered much attention because of associated mortality transcending across continents and also because diarrhoea due to E.coli itself is rare in developed countries. The actual incidence of non-O157:H7 STEC in sporadic acute diarrhoea is not fully elucidated, both in developing as well as in developed countries. Due to larger extent of faecal-oral transmission in developing countries it is prudent to look for non-O157: H7 STEC in such epidemiological settings because of very high potential to spread across larger geographical regions and cause life threatening illness...
October 2016: Journal of Clinical and Diagnostic Research: JCDR
https://www.readbyqxmd.com/read/27888861/inflammatory-bowel-disease-in-digestive-disease-week-2016-advances-in-epidemiology-follow-up-treatment-monitoring-optimisation-and-individual-tailoring-and-colon-cancer-prevention
#5
Santiago García-López
In Digestive Disease Week 2016, interesting data were presented on the eventual role of certain foods in inflammatory bowel disease, although the value of these data is relative. Also of interest were epidemiological studies, of which several analysed the natural history of the disease. Some presentations dealt with the search for individual predictive factors, a pressing need in clinical practice. Unfortunately, some of the findings presented were of dubious value. A study suggesting that a simple parameter as increased blood monocytes could be a clear predictive factor of poor outcome could perhaps be highlighted (the results were striking but had multiple limitations)...
September 2016: Gastroenterología y Hepatología
https://www.readbyqxmd.com/read/27885465/multilocus-sequence-analysis-of-giardia-spp-isolated-from-patients-with-diarrhea-in-austria
#6
Mellesia F Lee, Herbert Auer, John F Lindo, Julia Walochnik
Giardia duodenalis is a protozoan parasite causing intestinal infections in a wide range of mammals. Two distinct assemblages, A and B, infect humans predominantly; however, both are believed to be generally zoonotic. Giardia strains associated with infections in Austria have not been investigated at the molecular level. In this study, 65 human stool samples microscopically positive for Giardia spp. were subjected to DNA isolation and nested PCR targeting fragments of the glutamate dehydrogenase (gdh), triose phosphate isomerase (tpi), and beta-gardin (bg) genes...
November 25, 2016: Parasitology Research
https://www.readbyqxmd.com/read/27884518/multi-target-stool-dna-test-clinical-performance-and-impact-on-yield-and-quality-of-colonoscopy-for-colorectal-cancer-screening
#7
David H Johnson, John B Kisiel, Kelli N Burger, Douglas W Mahoney, Mary E Devens, David A Ahlquist, Seth Sweetser
BACKGROUND & AIMS: Multi-target stool DNA testing (MT-sDNA) is now FDA-approved for average-risk CRC screening. Trials leading to its approval used blinded colonoscopy as the reference standard. In the post-approval screen setting, the clinical performance and impact of MT-sDNA on unblinded colonoscopy has not been described. We measured the impact that knowledge of a positive MT-sDNA test result has on colonoscopy yield and quality. METHODS: The unblinded group comprised all patients with positive MT-sDNA results on screening from 9/1/14-9/30/15 at a single tertiary center...
November 21, 2016: Gastrointestinal Endoscopy
https://www.readbyqxmd.com/read/27881416/metagenomics-of-two-severe-foodborne-outbreaks-provides-diagnostic-signatures-and-signs-of-co-infection-not-attainable-by-traditional-methods
#8
Andrew D Huang, Chengwei Luo, Angela Pena-Gonzalez, Michael R Weigand, Cheryl Tarr, Konstantinos T Konstantinidis
: Diagnostic testing for foodborne pathogens relies on culture-based techniques that are not rapid enough for real-time disease surveillance and do not give a quantitative picture of pathogen abundance or the response of the natural microbiome. Powerful sequence-based, culture-independent approaches such as shotgun metagenomics could sidestep these limitations, and potentially reveal a pathogen-specific signature on the microbiome that would have implications not only for diagnostics but also for better understanding disease progression and pathogen ecology...
November 23, 2016: Applied and Environmental Microbiology
https://www.readbyqxmd.com/read/27878230/rapid-and-sensitive-detection-of-plesiomonas-shigelloides-by-cross%C3%A2-priming-amplification-of-the-huga-gene
#9
Shuang Meng, Yi Wang, Yan Wang, Changyun Ye
Plesiomonas shigelloides (P. shigelloides) is implicated as an aetiological agent of human gastroenteritis in humans, for which reliable laboratory detection of P. shigelloides is clinically and epidemiologically desirable. A simple molecular method for rapid detection of P. shigelloides using cross‑priming amplification (CPA) has been developed, with hugA as the target. The hugA gene is required for haem iron utilisation and is critical for the survival and growth of P. shigelloides. The assay output was visualised as a colour change with no need to open the reaction tubes, and no false‑positive results were detected for the 33 non‑ P...
November 14, 2016: Molecular Medicine Reports
https://www.readbyqxmd.com/read/27866880/efficacy-of-sterile-fecal-filtrate-transfer-for-treating-patients-with-clostridium-difficile-infection
#10
Stephan J Ott, Georg H Waetzig, Ateequr Rehman, Jacqueline Moltzau-Anderson, Richa Bharti, Juris A Grasis, Liam Cassidy, Andreas Tholey, Helmut Fickenscher, Dirk Seegert, Philip Rosenstiel, Stefan Schreiber
BACKGROUND & AIMS: Fecal microbiota transplantation (FMT) is a highly effective therapy for recurrent Clostridium difficile infection (CDI). However, transferring undefined living bacteria entails uncontrollable risks for infectious and metabolic or malignant diseases, particularly in immunocompromised patients. We investigated whether sterile fecal filtrates (containing bacterial debris, proteins, antimicrobial compounds, metabolic products and oligonucleotides/DNA), rather than intact microorganisms, are effective in patients with CDI...
November 17, 2016: Gastroenterology
https://www.readbyqxmd.com/read/27864517/an-extensive-burden-of-giardiasis-associated-with-intestinal-schistosomiasis-and-anaemia-in-school-children-on-the-shoreline-of-lake-albert-uganda
#11
Hajri Al-Shehri, Michelle C Stanton, James E LaCourse, Aaron Atuhaire, Moses Arinaitwe, Aida Wamboko, Moses Adriko, Narcis B Kabatereine, J Russell Stothard
BACKGROUND: Water-borne parasitic diseases associated with poverty still blight the lives of African school children. In Uganda, intestinal schistosomiasis is still common along the shoreline of Lake Albert, despite ongoing control, and co-infection with giardiasis and malaria is poorly described. To shed light on putative interactions between diseases, a prospective cross-sectional parasitological survey was undertaken in five primary schools. METHODS: Stool samples from 254 school children, aged 5-10 years, were examined by microscopy and rapid diagnostic tests (RDTs), with additional real-time PCR assays for detection of Giardia DNA...
November 17, 2016: Transactions of the Royal Society of Tropical Medicine and Hygiene
https://www.readbyqxmd.com/read/27863183/evidence-for-immune-relevance-of-prevotella-copri-a-gut-microbe-in-patients-with-rheumatoid-arthritis
#12
Annalisa Pianta, Sheila Arvikar, Klemen Strle, Elise E Drouin, Qi Wang, Catherine E Costello, Allen C Steere
OBJECTIVE: Prevotella copri, an intestinal microbe, may over-expand in stool samples of patients with new-onset rheumatoid arthritis (NORA), but it is not yet clear whether the organism has immune relevance in RA pathogenesis. METHODS: HLA-DR-presented peptides (T cell epitopes) from P. copri were sought directly from patients' synovial tissue or peripheral blood mononuclear cells (PBMC) using tandem mass spectrometry, followed by testing the antigenicity of peptides or their source proteins using samples from RA patients or comparison groups...
November 18, 2016: Arthritis & Rheumatology
https://www.readbyqxmd.com/read/27863092/associations-between-changes-in-the-maternal-gut-microbiome-and-differentially-methylated-regions-of-diabetes-associated-genes-in-fetuses-a-pilot-study-from-a-birth-cohort-study
#13
Kaori Tachibana, Kenichi Sakurai, Masahiro Watanabe, Hidenobu Miyaso, Chisato Mori
Several intrauterine environmental factors may increase the future risk of type 2 diabetes. The microbiome can influence the balance between health and disease. However, the influence of the maternal gut microbiome on the future risk of diabetes in the fetus is unknown. The present study investigated the associations between maternal gut microbiome and differentially methylated regions of diabetes-associated genes in umbilical cord samples. This study included 10 pregnant participants from a birth cohort study...
November 18, 2016: Journal of Diabetes Investigation
https://www.readbyqxmd.com/read/27861635/multiplex-real-time-pcr-assay-targeting-eight-parasites-customized-to-the-korean-population-potential-use-for-detection-in-diarrheal-stool-samples-from-gastroenteritis-patients
#14
Eun Jeong Won, Soo Hyun Kim, Seung Jung Kee, Jong Hee Shin, Soon Pal Suh, Jong Yil Chai, Dong Wook Ryang, Myung Geun Shin
Intestinal parasitic diseases occur worldwide and can cause diarrhea or gastroenteritis; however, their diagnosis is quite difficult, especially in low-endemism countries. We developed a multiplex real-time PCR assay for detection of eight intestinal parasites and prospectively evaluated it for patients with gastroenteritis. The assay targeted Cryptosporidium parvum, Giardia lamblia, Entamoeba histolytica, Blastocystis hominis, Dientamoeba fragilis, Clonorchis sinensis, Metagonimus yokogawai, and Gymnophalloides seoi...
2016: PloS One
https://www.readbyqxmd.com/read/27860030/imbalance-of-bacteriome-profiles-within-the-finnish-diabetes-prediction-and-prevention-study-parallel-use-of-16s-profiling-and-virome-sequencing-in-stool-samples-from-children-with-islet-autoimmunity-and-matched-controls
#15
Ondrej Cinek, Lenka Kramna, Jake Lin, Sami Oikarinen, Katerina Kolarova, Jorma Ilonen, Olli Simell, Riitta Veijola, Reija Autio, Heikki Hyöty
BACKGROUND: We set out to explore associations between the stool bacteriome profiles and early-onset islet autoimmunity, taking into account the interactions with the virus component of the microbiome. METHODS: Serial stool samples were longitudinally collected from 18 infants and toddlers with early-onset islet autoimmunity (median age 17.4 months) followed by type 1 diabetes, and 18 tightly matched controls from the Finnish Diabetes Prediction and Prevention (DIPP) cohort...
November 17, 2016: Pediatric Diabetes
https://www.readbyqxmd.com/read/27858970/blastocystis-isolation-xenic-cultivation-and-cryopreservation
#16
C Graham Clark, C Rune Stensvold
Blastocystis is an intestinal parasite that is very easily isolated in culture from fresh stool samples. In fact, the parasite grows so readily in culture that short-term in vitro culture is sometimes used as a diagnostic tool in the absence of DNA-based methods. While axenizing Blastocystis cultures remains a significant challenge, the parasite can be propagated for several months in the presence of metabolically active bacteria (xenic culture). Hence, culture can be used for maintaining live Blastocystis strain libraries...
November 18, 2016: Current Protocols in Microbiology
https://www.readbyqxmd.com/read/27842559/dna-from-fecal-immunochemical-test-can-replace-stool-for-detection-of-colonic-lesions-using-a-microbiota-based-model
#17
Nielson T Baxter, Charles C Koumpouras, Mary A M Rogers, Mack T Ruffin, Patrick D Schloss
BACKGROUND: There is a significant demand for colorectal cancer (CRC) screening methods that are noninvasive, inexpensive, and capable of accurately detecting early stage tumors. It has been shown that models based on the gut microbiota can complement the fecal occult blood test and fecal immunochemical test (FIT). However, a barrier to microbiota-based screening is the need to collect and store a patient's stool sample. RESULTS: Using stool samples collected from 404 patients, we tested whether the residual buffer containing resuspended feces in FIT cartridges could be used in place of intact stool samples...
November 14, 2016: Microbiome
https://www.readbyqxmd.com/read/27832798/detection-of-the-first-g6p-14-human-rotavirus-strain-in-an-infant-with-diarrhoea-in-ghana
#18
Susan Damanka, Belinda Lartey, Chantal Agbemabiese, Francis E Dennis, Theophilus Adiku, Kofi Nyarko, Michael Ofori, George E Armah
BACKGROUND: Rotaviruses with G6P[14] specificity are mostly isolated in cattle and have been established as a rare cause of gastroenteritis in humans. This study reports the first detection of G6P[14] rotavirus strain in Ghana from the stool of an infant during a hospital-based rotavirus surveillance study in 2010. METHODS: Viral RNA was extracted and rotavirus VP7 and VP4 genes amplified by one step RT-PCR using gene-specific primers. The DNA was purified, sequenced and genotypes determined using BLAST and RotaC v2...
November 10, 2016: Virology Journal
https://www.readbyqxmd.com/read/27829823/a-new-lab-developed-real-time-pcr-assay-for-direct-detection-of-c-difficle-from-stool-sample-without-dna-extraction
#19
Brandon Li
Clostridium difficile is a major cause of nosocomial antibiotic-associated infectious diarrhea and pseudomembranous colitis. Detection of C. difficile by anaerobic bacterial culture and/or cytotoxicity assays has been largely replaced by rapid enzyme immunoassays (EIA). However, due to the lack of sensitivity of stool EIA, we developed a multiplex real-time PCR assay targeting the C. difficile toxin genes tcdB. stool samples from hospitalized pediatric patients suspected of having C. difficile-associated disease were prospectively collected...
September 2016: International Journal of Biomedical Science: IJBS
https://www.readbyqxmd.com/read/27829567/digital-quantification-of-gene-methylation-in-stool-dna-by-emulsion-pcr-coupled-with-hydrogel-immobilized-bead-array
#20
Yunlong Liu, Haiping Wu, Qiang Zhou, Qinxin Song, Jianzhong Rui, Bingjie Zou, Guohua Zhou
Aberrations of gene methylation in stool DNA (sDNA) is an effective biomarker for non-invasive colorectal cancer diagnosis. However, it is challenging to accurately quantitate the gene methylation levels in sDNA due to the low abundance and degradation of sDNA. In this study, a digital quantification strategy was proposed by combining emulsion PCR (emPCR) with hydrogel immobilized bead-array. The assay includes following steps: bisulfite conversion of sDNA, pre-amplification by PCR with specific primers containing 5' universal sequences, emPCR of pre-amplicons with beaded primers to achieve single-molecular amplification and identification of hydrogel embedding beads coated with amplicons...
October 22, 2016: Biosensors & Bioelectronics
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