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https://www.readbyqxmd.com/read/28916375/bacterial-community-in-ancient-permafrost-alluvium-at-the-mammoth-mountain-eastern-siberia
#1
Anatoli Brouchkov, Marsel Kabilov, Svetlana Filippova, Olga Baturina, Victor Rogov, Valery Galchenko, Andrey Mulyukin, Oksana Fursova, Gennady Pogorelko
Permanently frozen (approx. 3.5Ma) alluvial Neogene sediments exposed in the Aldan river valley at the Mammoth Mountain (Eastern Siberia) are unique, ancient, and poorly studied permafrost environments. So far, the structure of the indigenous bacterial community has remained unknown. Use of 16S metagenomic analysis with total DNA isolation using DNA Spin Kit for Soil (MO-Bio) and QIAamp DNA Stool Mini Kit (Qiagen) has revealed the major and minor bacterial lineages in the permafrost alluvium sediments. In sum, 61 Operational Taxonomic Units (OTUs) with 31,239 reads (Qiagen kit) and 15,404 reads (Mo-Bio kit) could be assigned to the known taxa...
September 12, 2017: Gene
https://www.readbyqxmd.com/read/28902923/molecular-microbiological-and-clinical-characterization-of-clostridium-difficile-isolates-from-tertiary-care-hospitals-in-colombia
#2
Clara Lina Salazar, Catalina Reyes, Santiago Atehortua, Patricia Sierra, Margarita María Correa, Daniel Paredes-Sabja, Emma Best, Warren N Fawley, Mark Wilcox, Ángel González
In Colombia, the epidemiology and circulating genotypes of Clostridium difficile have not yet been described. Therefore, we molecularly characterized clinical isolates of C.difficile from patients with suspicion of C.difficile infection (CDI) in three tertiary care hospitals. C.difficile was isolated from stool samples by culture, the presence of A/B toxins were detected by enzyme immunoassay, cytotoxicity was tested by cell culture and the antimicrobial susceptibility determined. After DNA extraction, tcdA, tcdB and binary toxin (CDTa/CDTb) genes were detected by PCR, and PCR-ribotyping performed...
2017: PloS One
https://www.readbyqxmd.com/read/28877575/molecular-identification-of-diphyllobothrium-latum-from-a-pediatric-case-in-taiwan
#3
Yu-Chin An, Chia-Cheng Sung, Chih-Chien Wang, Hsin-Chung Lin, Kuang-Yao Chen, Fu-Man Ku, Ruei-Min Chen, Mei-Li Chen, Kuo-Yang Huang
Human diphyllobothriasis is a parasitic disease caused by ingestion of larvae (plerocercoids) in raw or undercooked fish and commonly found in temperate areas. Rare cases were reported in tropical or subtropical areas especially in children. The first documented case of pediatric diphyllobothriasis in Taiwan had been reported 11 years ago. Here, we report another 8-year-old girl case who presented with a live noodle-like worm hanging down from her anus, with no other detectable symptoms. We pulled the worm out and found the strobila being 260 cm in length...
August 2017: Korean Journal of Parasitology
https://www.readbyqxmd.com/read/28869156/molecular-diagnosis-of-potentially-human-pathogenic-enterocytozoon-bieneusi-and-encephalitozoon-species-in-exotic-birds-in-southwestern-iran
#4
Mehdi Tavalla, Masoumeh Mardani-Kateki, Rahman Abdizadeh, Shahrzad Soltani, Jasem Saki
Microsporidia are obligate intracellular parasites that produce spores. The infections caused by these parasites are mostly considered to be opportunistic in immunodeficient patients. Because of the zoonotic nature of microsporidia as well as the increasing prevalence of immunodeficiency diseases, the aim of this study was to evaluate the molecular diagnosis of Enterocytozoon bieneusi (E. bieneusi) and Encephalitozoon spp. in exotic birds in southwestern Iran. Initially, 816 stool specimens were collected and stained by modified trichrome (Weber) staining...
August 28, 2017: Journal of Infection and Public Health
https://www.readbyqxmd.com/read/28859960/molecular-detection-of-trypanosoma-cruzi-in-acai-pulp-and-sugarcane-juice
#5
Elaine Cristina de Mattos, Cristina da Silva Meira-Strejevitch, Maria Aparecida Moraes Marciano, Cristiane Castro Faccini, Angela Maria Lourenço, Vera Lucia Pereira-Chioccola
Chagas disease, caused by Trypanosoma cruzi affects about 6-8 million people worldwide. Although transmission by triatomine insects has been controlled, other means of transmission maintain the infection. These forms of transmission are responsible for introducing Chagas disease in other non-endemic countries of the world. Thus, Chagas disease, nowadays is a worldwide health problem. In Brazil, acai pulp and sugarcane juice have been associated with Chagas disease outbreaks. The difficulties in isolation of the parasite from foods are hampering source tracking which could allow the confirmation of an implicated food commodity in these outbreak investigations...
August 30, 2017: Acta Tropica
https://www.readbyqxmd.com/read/28831408/shotgun-metagenomic-data-on-the-human-stool-samples-to-characterize-shifts-of-the-gut-microbial-profile-after-the-helicobacter-pylori-eradication-therapy
#6
Eugenia A Boulygina, Maria I Markelova, Dilyara R Khusnutdinova, Maria N Siniagina, Sergey Yu Malanin, Rustam A Abdulkhakov, Sayar R Abdulkhakov, Vladislav M Chernov, Tatiana V Grigoryeva
The shotgun sequencing data presented in this report are related to the research article named "Gut microbiome shotgun sequencing in assessment of microbial community changes associated with H. pylori eradication therapy" (Khusnutdinova et al., 2016) [1]. Typically, the H. pylori eradication protocol includes a prolonged two-week use of the broad-spectrum antibiotics. The presented data on the whole-genome sequencing of the total DNA from stool samples of patients before the start of the eradication, immediately after eradication and several weeks after the end of treatment could help to profile the gut microbiota both taxonomically and functionally...
October 2017: Data in Brief
https://www.readbyqxmd.com/read/28826763/bifidobacterium-obtained-from-mother-s-milk-and-their-infant-stool-a-comparative-genotyping-and-antibacterial-analysis
#7
Morteza Eshaghi, Meysam Hasannejad Bibalan, Mahdi Rohani, Maryam Esghaei, Masoumeh Douraghi, Malihe Talebi, Mohammad Reza Pourshafie
Antibacterial activity of Bifidobacterium species has been considered as an important probiotic property for development of human gut immunity. This study was conducted to assess the genotypes and antibacterial activities of the native Bifidobacterium isolates obtained from the human's breast milk and the feces of their paired infants. Fifty-six samples from twenty-eight mothers' milk and paired infants feces were collected and cultured. Suspicious colonies were picked up and confirmed by phenotypic and molecular identifications...
August 18, 2017: Microbial Pathogenesis
https://www.readbyqxmd.com/read/28810737/identification-of-the-colicin-v-bacteriocin-gene-cluster-by-functional-screening-of-a-human-microbiome-metagenomic-library
#8
Louis J Cohen, Sun Han, Yun-Han Huang, Sean F Brady
The forces that shape human microbial ecology are complex. It is likely that human microbiota, similarly to other microbiomes, use antibiotics as one way to establish an ecological niche. In this study, we use functional metagenomics to identify human microbial gene clusters that encode for antibiotic functions. Screening of a metagenomic library prepared from a healthy patient stool sample led to the identification of a family of clones with inserts that are 99% identical to a region of a virulence plasmid found in avian pathogenic Escherichia coli...
August 21, 2017: ACS Infectious Diseases
https://www.readbyqxmd.com/read/28783216/sensitive-quantitative-naked-eye-biodetection-with-polyhedral-cu-nanoshells
#9
Jae-Ho Kim, Jeong-Eun Park, Mouhong Lin, Sungi Kim, Gyeong-Hwan Kim, SungJun Park, GwangPyo Ko, Jwa-Min Nam
One of the most heavily used methods in chemical and biological labeling, detection, and imaging is based on silver shell-based enhancement on Au nanoparticles (AuNPs) that is useful for amplifying Rayleigh scattering, colorimetric signal, surface-enhanced Raman scattering, and electrical signal, but poor structural controllability and nonspecific growth of silver shells have limited its applications, especially with respect to signal reproducibility and quantification. Here, a highly specific, well-defined Cu nanopolyhedral shell overgrowth chemistry is developed with the aid of polyethyleneimine (PEI) on AuNPs, and the use of this PEI-mediated Cu polyhedral nanoshell (CuP) chemistry is shown as a means of light-scattering signal enhancement for the development of naked-eye-based highly sensitive and quantitative detections of DNA and viruses...
August 7, 2017: Advanced Materials
https://www.readbyqxmd.com/read/28780245/prevalence-and-virulence-gene-profiling-of-enteroaggregative-escherichia-coli-in-malnourished-and-nourished-brazilian-children
#10
Alexandre Havt, Ila Fn Lima, Pedro Hqs Medeiros, Marco Af Clementino, Ana Ks Santos, Marília Smg Amaral, Herlice N Veras, Mara Mg Prata, Noélia L Lima, Alessandra Di Moura, Álvaro M Leite, Alberto M Soares, José Q Filho, Eric R Houpt, James P Nataro, Richard L Guerrant, Aldo Am Lima
The impact of enteroaggregative E. coli (EAEC) infection on childhood malnutrition and inflammation has been suggested, regardless of diarrhea. We investigated whether EAEC and its virulence-related genes (VRGs) are associated with malnutrition in a case-control study. Children aged 6-24 months from Brazil were enrolled as malnourished if weight-for-age Z-score (WAZ) ≤ -2 and nourished if WAZ > -1. Stools were cultured and examined for E. coli. DNA was extracted from fecal isolates and tested for EAEC by polymerase chain reaction (PCR)...
July 4, 2017: Diagnostic Microbiology and Infectious Disease
https://www.readbyqxmd.com/read/28777432/comparison-of-a-prototype-reverse-hybridization-assay-and-methylight-for-detection-of-sfrp2-promotor-methylation-in-fecal-dna
#11
Gernot Kriegshäuser, Dietmar Enko, Matthias Zitt, Michael Oberwalder, Christian Oberkanins, Dietmar Öfner, Robert Zeillinger, Hannes Maximilian Müller
BACKGROUND: This study aimed to evaluate the diagnostic performance of a novel nonquantitative methylation-specific reverse hybridization (MSRH) assay to detect secreted frizzled-related protein 2 (SFRP2) promotor methylation in fecal DNA. METHODS: SFRP2 promoter methylation was investigated in stool DNA isolated from 18 colorectal cancer (CRC) patients and 22 healthy controls using the MSRH assay based on methylation-specific DNA amplification followed by reverse hybridization of biotinylated amplicons to sequence-specific methylation detection probes, with MethyLight serving as a reference method...
July 26, 2017: International Journal of Biological Markers
https://www.readbyqxmd.com/read/28763566/metabolites-and-microbial-composition-of-stool-of-women-with-fecal-incontinence-study-design-and-methods
#12
Lily A Arya, Holly E Richter, Eric Jelovsek, Marie Gantz, Sara Cichowski, Halina Zyczynski, Keisha Dyer, Nazema Siddiqui, Cassandra Carberry, Corey Broeckling, Casey Morrow, Purna Kashyap, Susie Meikle
AIMS: This paper aims to report the rationale, design, and the specific methodology of an ongoing nested observational study that will determine the association of the metabolite and microbial composition of stool with fecal incontinence (FI). METHODS: Eligible cases are participants with FI enrolled in the Controlling Anal Incontinence in women by Performing Anal Exercises with Biofeedback or Loperamide (CAPABLe) trial, a Pelvic Floor Disorders Network trial across eight clinical centers in the United States...
August 1, 2017: Neurourology and Urodynamics
https://www.readbyqxmd.com/read/28761489/the-impact-of-different-copro-preservation-conditions-on-molecular-detection-of-cryptosporidium-species
#13
Iman Moawad Abdelsalam, Rania Mohammad Sarhan, Marmar Ahmed Hanafy
BACKGROUND: We aimed to evaluate different copro-preservation conditions along the duration of one month for a better outcome of molecular diagnosis of Cryptosporidium species. METHODS: Ten samples out of 380 fresh stool samples collected from patients with diarrhea proved positive after direct examination, concentration, staining and confirmed by immunochromatographic test. The study was conducted at the Diagnostic and Research Unit of Parasitic diseases, Faculty of Medicine, Ain Shams University at the time interval from July 2014 to December 2015...
April 2017: Iranian Journal of Parasitology
https://www.readbyqxmd.com/read/28761464/genetic-variation-of-giardia-lamblia-isolates-from-food-handlers-in-kashan-central-iran
#14
Hossein Hooshyar, Shahrbanou Ghafarinasab, Mohsen Arbabi, Mahdi Delavari, Sima Rasti
BACKGROUND: Based on genotyping study of human isolates of Giardia lamblia; humans are mainly infected by two assemblages A and B. The present study was carried out to determine the sub-assemblages of G. lamblia isolated from food handlers referred to Kashan health centers, central Iran, 2015. METHODS: In this cross-sectional study, 3653 stool samples collected from food-handlers that annually refer to health center for getting a health certification and examined microscopically for G...
January 2017: Iranian Journal of Parasitology
https://www.readbyqxmd.com/read/28761462/subtypes-distribution-and-frequency-of-blastocystis-sp-isolated-from-diarrheic-and-non-diarrheic-patients
#15
Nahid Jalallou, Shahrokh Iravani, Mostafa Rezaeian, Atefe Alinaghizade, Hamed Mirjalali
BACKGROUND: Blastocystis is one of the most common parasites, reported from both human and animals. This parasite is more prevalent in regions with low levels of hygiene, close contact with animal and unsuitable disposal systems. The aim of the study was to subtype Blastocystis sp., isolated from diarrheic and non-diarrheic patients using sequencing of 18S ribosomal DNA. METHODS: Totally, 300 stool samples were collected from diarrheic and nondiarrheic patients referred to Imam Reza Hospital, Tehran from Apr to Aug 2015...
January 2017: Iranian Journal of Parasitology
https://www.readbyqxmd.com/read/28761377/fecal-occult-blood-versus-dna-testing-indirect-comparison-in-a-colorectal-cancer-screening-population
#16
Hermann Brenner, Hongda Chen
BACKGROUND: A multitarget stool DNA test (MSDT) that showed higher sensitivity but lower specificity than a fecal immunochemical test (FIT) for hemoglobin in one recent study from the US and Canada, is increasingly used for colorectal cancer (CRC) screening, despite its ~20-fold higher costs compared to FITs. We aimed to assess diagnostic performance of a quantitative FIT in an independent study among participants of screening colonoscopy and to compare it with the previously reported performance of MSDT...
2017: Clinical Epidemiology
https://www.readbyqxmd.com/read/28760481/molecular-identification-and-phylogenetic-analysis-of-human-trichostrongylus-species-from-an-endemic-area-of-iran
#17
Meysam Sharifdini, Sedigheh Derakhshani, Safar Ali Alizadeh, Laleh Ghanbarzadeh, Hamed Mirjalali, Iraj Mobedi, Mehrzad Saraei
Human infections with Trichostrongylus species have been reported in most parts of Iran. The aim of this study was the identification, molecular characterization and phylogenetic analysis of human Trichostrongylus species based on ITS2 region of ribosomal DNA from Guilan Province, northern Iran. Stool samples were collected from rural inhabitants and examined by formalin-ether concentration and agar plate culture techniques. After anthelmintic treatment, male adult worms were collected from five infected cases...
July 29, 2017: Acta Tropica
https://www.readbyqxmd.com/read/28730505/stool-based-testing-for-colorectal-cancer-an-overview-of-available-evidence
#18
REVIEW
Kevin M Rank, Aasma Shaukat
PURPOSE OF REVIEW: The goal of this review is to summarize stool-based testing for colorectal cancer (CRC). The key questions answered in this review were the advantages and limitations of each available stool-based test for CRC and to examine their comparative efficacy. RECENT FINDINGS: Guaiac-based fecal occult blood testing (gFOBT) is no longer a relevant test for CRC screening. fecal immunochemical testing (FIT) tests, especially quantitative assays, are clearly a reliable stool-based test...
August 2017: Current Gastroenterology Reports
https://www.readbyqxmd.com/read/28728909/assessing-impacts-of-dna-extraction-methods-on-next-generation-sequencing-of-water-and-wastewater-samples
#19
Connie Walden, Franck Carbonero, Wen Zhang
Next Generation Sequencing (NGS) is increasingly affordable and easier to perform. However, standard protocols prior to the sequencing step are only available for few selected sample types. Here we investigated the impact of DNA extraction methods on the consistency of NGS results. Four commercial DNA extraction kits (QIAamp DNA Mini Kit, QIAamp DNA Stool Mini Kit, MO BIO Power Water Kit, and MO BIO Power Soil DNA Isolation Kit) were used on sample sources including lake water and wastewater, and sample types including planktonic and biofilm bacteria communities...
July 17, 2017: Journal of Microbiological Methods
https://www.readbyqxmd.com/read/28723708/subclinical-herpesvirus-shedding-among-hiv-1-infected-men-on-antiretroviral-therapy
#20
Arcadio Agudelo-Hernandez, Yue Chen, Arlene Bullotta, William G Buchanan, Cynthia R Klamar-Blain, Luann Borowski, Sharon A Riddler, Charles R Rinaldo, Bernard J C Macatangay
OBJECTIVE: We evaluated the subclinical shedding of six different herpesviruses in antiretroviral drug-treated HIV-positive [HIV(+)] MSM, and determined how this is associated with markers of inflammation and immune activation. METHODS: We obtained blood, semen, throat washing, urine, and stool from 15 antiretroviral-treated HIV-1-infected MSM with CD4 T-cell reconstitution, and 12 age-matched HIV-negative [HIV (-)] MSM from the Multicenter AIDS Cohort Study at four timepoints over 24 weeks to measure DNA levels of cytomegalovirus (CMV), Epstein-Barr virus (EBV), herpes simplex virus 1 and 2, human herpesvirus 6 (HHV6), and HHV8...
September 24, 2017: AIDS
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