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Microbiome

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https://www.readbyqxmd.com/read/28817707/microbiome-mediated-neutrophil-recruitment-via-cxcr2-and-protection-from-amebic-colitis
#1
Koji Watanabe, Carol A Gilchrist, Md Jashim Uddin, Stacey L Burgess, Mayuresh M Abhyankar, Shannon N Moonah, Zannatun Noor, Jeffrey R Donowitz, Brittany N Schneider, Tuhinur Arju, Emtiaz Ahmed, Mamun Kabir, Masud Alam, Rashidul Haque, Patcharin Pramoonjago, Borna Mehrad, William A Petri
The disease severity of Entamoeba histolytica infection ranges from asymptomatic to life-threatening. Recent human and animal data implicate the gut microbiome as a modifier of E. histolytica virulence. Here we have explored the association of the microbiome with susceptibility to amebiasis in infants and in the mouse model of amebic colitis. Dysbiosis occurred symptomatic E. histolytica infection in children, as evidenced by a lower Shannon diversity index of the gut microbiota. To test if dysbiosis was a cause of susceptibility, wild type C57BL/6 mice (which are innately resistant to E...
August 2017: PLoS Pathogens
https://www.readbyqxmd.com/read/28817689/characterization-and-formulation-into-solid-dosage-forms-of-a-novel-bacteriophage-lytic-against-klebsiella-oxytoca
#2
Teagan L Brown, Steve Petrovski, Dannielle Hoyle, Hiu Tat Chan, Peter Lock, Joseph Tucci
AIM: To isolate and characterize bacteriophage lytic for the opportunistic pathogen Klebsiella oxytoca and their formulation into a range of solid dosage forms for in-vitro testing. METHODS AND RESULTS: We report the isolation, genomic and functional characterization of a novel bacteriophage lytic for Klebsiella oxytoca, which does not infect the closely related Klebsiella pneumoniae. This bacteriophage was formulated into suppositories and troches and shown to be released and lyse underlying Klebsiella oxytoca bacteria in an in-vitro model...
2017: PloS One
https://www.readbyqxmd.com/read/28817594/soil-pathogen-aphid-interactions-under-differences-in-soil-organic-matter-and-mineral-fertilizer
#3
Stijn van Gils, Giovanni Tamburini, Lorenzo Marini, Arjen Biere, Maaike van Agtmaal, Olaf Tyc, Martine Kos, David Kleijn, Wim H van der Putten
There is increasing evidence showing that microbes can influence plant-insect interactions. In addition, various studies have shown that aboveground pathogens can alter the interactions between plants and insects. However, little is known about the role of soil-borne pathogens in plant-insect interactions. It is also not known how environmental conditions, that steer the performance of soil-borne pathogens, might influence these microbe-plant-insect interactions. Here, we studied effects of the soil-borne pathogen Rhizoctonia solani on aphids (Sitobion avenae) using wheat (Triticum aestivum) as a host...
2017: PloS One
https://www.readbyqxmd.com/read/28816579/application-of-the-distance-based-f-test-in-an-mgwas-investigating-beta-diversity-of-intestinal-microbiota-identifies-variants-in-slc9a8-nhe8-and-three-other-loci
#4
Malte C Rühlemann, Frauke Degenhardt, Louise B Thingholm, Jun Wang, Jurgita Skiecevičienė, Philipp Rausch, Johannes R Hov, Wolfgang Lieb, Tom H Karlsen, Matthias Laudes, John F Baines, Femke-Anouska Heinsen, Andre Franke
Factors shaping the human intestinal microbiota range from environmental influences, like smoking and exercise, over dietary patterns and disease to the host's genetic variation. Recently, we could show in a microbiome genome-wide association study (mGWAS) targeting genetic variation influencing the beta diversity of gut microbial communities, that approximately 10% of the overall gut microbiome variation can be explained by host genetics. Here, we report on the application of a new method for genotype-beta-diversity association testing, the distance-based F (DBF) test...
August 17, 2017: Gut Microbes
https://www.readbyqxmd.com/read/28815459/a-roadmap-for-reducing-cardiac-device-infections-a-review-of-epidemiology-pathogenesis-and-actionable-risk-factors-to-guide-the-development-of-an-infection-prevention-program-for-the-electrophysiology-laboratory
#5
REVIEW
Westyn Branch-Elliman
PURPOSE OF REVIEW: Cardiovascular implantable electronic device (CIED) infections are highly morbid, common, and costly, and rates are increasing (Sohail et al. Arch Intern Med 171(20):1821-8 2011; Voigt et al. J Am Coll Cardiol 48(3):590-1 2006). Factors that contribute to the development of CIED infections include patient factors (comorbid conditions, self-care, microbiome), procedural details (repeat procedure, contamination during procedure, appropriate pre-procedural prep, and antimicrobial use), environmental and organizational factors (patient safety culture, facility barriers, such as lack of space to store essential supplies, quality of environmental cleaning), and microbial factors (type of organism, virulence of organism)...
August 16, 2017: Current Infectious Disease Reports
https://www.readbyqxmd.com/read/28815394/shared-dysregulation-of-homeostatic-brain-body-pathways-in-depression-and-type-2-diabetes
#6
REVIEW
Claire J Hoogendoorn, Juan F Roy, Jeffrey S Gonzalez
PURPOSE OF REVIEW: The purpose of this review is to provide an overview of shared dysregulation of the hypothalamic-pituitary-adrenal (HPA) and brain-gut-microbiome (BGM) axes associated with depression and type 2 diabetes (T2D). Clinical implications and future research are also discussed. RECENT FINDINGS: Both depression and T2D are associated with dysregulation of the HPA and BGM axes. These pathways regulate immune function, glucose metabolism, and sleep, which are altered in both illnesses...
August 16, 2017: Current Diabetes Reports
https://www.readbyqxmd.com/read/28815268/temporal-stability-of-the-healthy-human-skin-microbiome-following-dead-sea-climatotherapy
#7
Michael Brandwein, Garold Fuks, Avigail Israel, Ashraf Al-Ashhab, Deborah Rosenberg-Nejman, Ravid Straussman, Emmilia Hodak, Marco Harari, Doron Steinberg, Zvi Bentwich, Noam Shental, Shiri Meshner
Dead Sea climatotherapy (DSC) is a therapeutic modality for a variety of chronic skin conditions, yet there has been scarce research on the relationship between the cutaneous microbiota and disease states in response to DSC. We characterized the skin bacterial and fungal microbiome of healthy volunteers who underwent DSC. Bacterial community diversity remained similar before and after treatment, while fungal diversity was significantly reduced as a result of the treatment. Individuals showed greater inter-individual than temporal bacterial community variance, yet the opposite was true for fungal community composition...
August 17, 2017: Acta Dermato-venereologica
https://www.readbyqxmd.com/read/28814344/microbial-phylogeny-determines-transcriptional-response-of-resistome-to-dynamic-composting-processes
#8
Cheng Wang, Da Dong, P J Strong, Weijing Zhu, Zhuang Ma, Yong Qin, Weixiang Wu
BACKGROUND: Animal manure is a reservoir of antibiotic resistance genes (ARGs) that pose a potential health risk globally, especially for resistance to the antibiotics commonly used in livestock production (such as tetracycline, sulfonamide, and fluoroquinolone). Currently, the effects of biological treatment (composting) on the transcriptional response of manure ARGs and their microbial hosts are not well characterized. Composting is a dynamic process that consists of four distinct phases that are distinguished by the temperature resulting from microbial activity, namely the mesophilic, thermophilic, cooling, and maturing phases...
August 16, 2017: Microbiome
https://www.readbyqxmd.com/read/28813516/correction-salivary-inflammatory-markers-and-microbiome-in-normoglycemic-lean-and-obese-children-compared-to-obese-children-with-type-2-diabetes
#9
Waleed F Janem, Frank A Scannapieco, Amarpreet Sabharwal, Maria Tsompana, Harvey A Berman, Elaine M Haase, Jeffrey C Miecznikowski, Lucy D Mastrandrea
[This corrects the article DOI: 10.1371/journal.pone.0172647.].
2017: PloS One
https://www.readbyqxmd.com/read/28813450/oral-microbial-community-assembly-under-the-influence-of-periodontitis
#10
Hongju Chen, Shuting Peng, Lin Dai, Quan Zou, Bin Yi, Xianghong Yang, Zhanshan Sam Ma
Several ecological hypotheses (e.g., specific plaque, non-specific plaque and keystone pathogen) regarding the etiology of periodontitis have been proposed since the 1990s, most of which have been centered on the concept of dysbiosis associated with periodontitis. Nevertheless, none of the existing hypotheses have presented mechanistic interpretations on how and why dysbiosis actually occurs. Hubbell's neutral theory of biodiversity offers a powerful null model to test hypothesis regarding the mechanism of community assembly and diversity maintenance from the metagenomic sequencing data, which can help to understand the forces that shape the community dynamics such as dysbiosis...
2017: PloS One
https://www.readbyqxmd.com/read/28812256/the-potential-for-emerging-microbiome-mediated-therapeutics-in-asthma
#11
REVIEW
Ayse Bilge Ozturk, Benjamin Arthur Turturice, David L Perkins, Patricia W Finn
PURPOSE OF REVIEW: In terms of immune regulating functions, analysis of the microbiome has led the development of therapeutic strategies that may be applicable to asthma management. This review summarizes the current literature on the gut and lung microbiota in asthma pathogenesis with a focus on the roles of innate molecules and new microbiome-mediated therapeutics. RECENT FINDINGS: Recent clinical and basic studies to date have identified several possible therapeutics that can target innate immunity and the microbiota in asthma...
August 10, 2017: Current Allergy and Asthma Reports
https://www.readbyqxmd.com/read/28812207/the-vaginal-microbiome-and-its-potential-to-impact-efficacy-of-hiv-pre-exposure-prophylaxis-for-women
#12
REVIEW
Jennifer Velloza, Renee Heffron
PURPOSE OF REVIEW: This review describes existing evidence addressing the potential modulation of pre-exposure prophylaxis (PrEP) products, specifically 1% tenofovir (TFV) gel and oral tenofovir-based PrEP, by vaginal dysbiosis and discusses future considerations for delivering novel, long-acting PrEP products to women at high risk for vaginal dysbiosis and HIV. RECENT FINDINGS: We describe results from analyses investigating the modification of PrEP efficacy by vaginal dysbiosis and studies of biological mechanisms that could render PrEP ineffective in the presence of specific microbiota...
August 15, 2017: Current HIV/AIDS Reports
https://www.readbyqxmd.com/read/28812142/tcdd-administered-on-activated-carbon-eliminates-bioavailability-and-subsequent-shifts-to-a-key-murine-gut-commensal
#13
Robert D Stedtfeld, J Brett Sallach, Robert B Crawford, Tiffany M Stedtfeld, Maggie R Williams, Hassan Waseem, Cliff T Johnston, Hui Li, Brian J Teppen, Norbert E Kaminski, Stephen A Boyd, James M Tiedje, Syed A Hashsham
Activated carbon (AC) is an increasingly attractive remediation alternative for the sequestration of dioxins at contaminated sites globally. However, the potential for AC to reduce the bioavailability of dioxins in mammals and the residing gut microbiota has received less attention. This question was partially answered in a recent study examining 2,3,7,8-tetrachlorodibenzo-p-dioxin (TCDD)-induced hallmark toxic responses in mice administered with TCDD sequestered by AC or freely available in corn oil by oral gavage...
August 15, 2017: Applied Microbiology and Biotechnology
https://www.readbyqxmd.com/read/28811633/rapid-replacement-by-non-vaccine-pneumococcal-serotypes-may-mitigate-the-impact-of-the-pneumococcal-conjugate-vaccine-on-nasopharyngeal-bacterial-ecology
#14
Brenda Kwambana-Adams, Blake Hanson, Archibald Worwui, Schadrac Agbla, Ebenezer Foster-Nyarko, Fatima Ceesay, Chinelo Ebruke, Uzochukwu Egere, Yanjiao Zhou, Maze Ndukum, Erica Sodergren, Michael Barer, Richard Adegbola, George Weinstock, Martin Antonio
There is growing concern that interventions that alter microbial ecology can adversely affect health. We characterised the impact of the seven-valent pneumococcal conjugate vaccine (PCV7) on pneumococcal carriage and the bacterial component of the nasopharyngeal microbiome during infancy. Newborns were recruited into three groups as follows: Group1 (n = 33) was the control group and comprised infants who received PCV7 after 6 months and came from unvaccinated communities. Group 2 (n = 30) came from unvaccinated communities and Group 3 (n = 39) came from vaccinated communities...
August 15, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28811583/bacterial-diversity-among-four-healthcare-associated-institutes-in-taiwan
#15
Chang-Hua Chen, Yaw-Ling Lin, Kuan-Hsueh Chen, Wen-Pei Chen, Zhao-Feng Chen, Han-Yueh Kuo, Hsueh-Fen Hung, Chuan Yi Tang, Ming-Li Liou
Indoor microbial communities have important implications for human health, especially in health-care institutes (HCIs). The factors that determine the diversity and composition of microbiomes in a built environment remain unclear. Herein, we used 16S rRNA amplicon sequencing to investigate the relationships between building attributes and surface bacterial communities among four HCIs located in three buildings. We examined the surface bacterial communities and environmental parameters in the buildings supplied with different ventilation types and compared the results using a Dirichlet multinomial mixture (DMM)-based approach...
August 15, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28811339/heritable-bovine-rumen-bacteria-are-phylogenetically-related-and-correlated-with-the-cow-s-capacity-to-harvest-energy-from-its-feed
#16
Goor Sasson, Sheerli Kruger Ben-Shabat, Eyal Seroussi, Adi Doron-Faigenboim, Naama Shterzer, Shamay Yaacoby, Margret E Berg Miller, Bryan A White, Eran Halperin, Itzhak Mizrahi
Ruminants sustain a long-lasting obligatory relationship with their rumen microbiome dating back 50 million years. In this unique host-microbiome relationship, the host's ability to digest its feed is completely dependent on its coevolved microbiome. This extraordinary alliance raises questions regarding the dependent relationship between ruminants' genetics and physiology and the rumen microbiome structure, composition, and metabolism. To elucidate this relationship, we examined the association of host genetics with the phylogenetic and functional composition of the rumen microbiome...
August 15, 2017: MBio
https://www.readbyqxmd.com/read/28810737/identification-of-the-colicin-v-bacteriocin-gene-cluster-by-functional-screening-of-a-human-microbiome-metagenomic-library
#17
Louis 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 15, 2017: ACS Infectious Diseases
https://www.readbyqxmd.com/read/28809449/microbial-communities-as-biosensors-for-monitoring-urban-environments
#18
Fangqiong Ling
The BE microbiome is a naturally embedded biosensor in urban infrastructure that can be used to monitor environmental quality and human activity. There are many potential opportunities for leveraging BE microbial communities to guide urban design and public health policy.
August 15, 2017: Microbial Biotechnology
https://www.readbyqxmd.com/read/28809429/dissection-of-the-module-network-implementation-lemontree-enhancements-towards-applications-in-metagenomics-and-translation-in-autoimmune-maladies
#19
Youtao Lu, Xiaoyuan Zhou, Christine Nardini
Under the current deluge of omics, module networks distinctively emerge as methods capable of not only identifying inherently coherent groups (modules), thus reducing dimensionality, but also hypothesizing cause-effect relationships between modules and their regulators. Module networks were first designed in the transcriptomic era and further exploited in the multi-omic context to assess (for example) miRNA regulation of gene expression. Despite a number of available implementations, expansion of module networks to other omics is constrained by a limited characterization of the solutions' (modules plus regulators) accuracy and stability - an immediate need for the better characterization of molecular biology complexity in silico...
August 15, 2017: Molecular BioSystems
https://www.readbyqxmd.com/read/28808878/role-of-intestinal-microbiome-in-american-ginseng-mediated-colon-cancer-protection-in-high-fat-diet-fed-aom-dss-mice
#20
C-Z Wang, W-H Huang, C-F Zhang, J-Y Wan, Y Wang, C Yu, S Williams, T-C He, W Du, M W Musch, E B Chang, C-S Yuan
OBJECTIVE: Chronic intestinal inflammation is a risk factor for colorectal cancer (CRC) initiation and development. Diets that are rich in Western style fats have been shown to promote CRC. This study was conducted to investigate the role of intestinal microbiome in American ginseng-mediated CRC chemoprevention in a mouse model. The population and diversity of enteric microbiome were evaluated after the ginseng treatment. METHODS: Using an azoxymethane (AOM)/dextran sulfate sodium (DSS)-induced gut inflammation and tumorigenesis mouse model, the effects of oral American ginseng on high fat diet-associated enteric pathology were determined...
August 14, 2017: Clinical & Translational Oncology
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