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https://www.readbyqxmd.com/read/28633443/nod2-genetic-variants-predispose-one-of-two-familial-adenomatous-polyposis-siblings-to-pouchitis-through-microbiome-dysbiosis
#1
Kathleen M Schieffer, Justin R Wright, Leonard R Harris, Sue Deiling, Zhaohai Yang, Regina Lamendella, Gregory S Yochum, Walter A Koltun
Background and Aims: Individuals with familial adenomatous polyposis (FAP) may undergo a total proctocolectomy with ileal pouch-anal anastomosis (IPAA) to surgically treat their disease. Inflammation of the ileal pouch, termed pouchitis, is uncommon in FAP patients but prevalent in patients who received IPAA for ulcerative colitis, a type of inflammatory bowel disease (IBD). Methods and Results: We report on two FAP siblings, living in the same household, who underwent IPAA surgery within one week of each other...
June 19, 2017: Journal of Crohn's & Colitis
https://www.readbyqxmd.com/read/28632934/a-prospective-microbiome-wide-association-study-of-food-sensitization-and-food-allergy-in-early-childhood
#2
Jessica H Savage, Kathleen A Lee-Sarwar, Joanne Sordillo, Supinda Bunyavanich, Yanjiao Zhou, George O'Connor, Megan Sandel, Leonard Bacharier, Robert Zeiger, Erica Sodergren, George M Weinstock, Diane R Gold, Scott T Weiss, Augusto A Litonjua
BACKGROUND: Alterations in the intestinal microbiome are prospectively associated with the development of asthma; less is known regarding the role of microbiome alterations in food allergy development. METHODS: Intestinal microbiome samples were collected at age 3-6 months in children participating in the follow-up phase of an interventional trial of high dose Vitamin D given during pregnancy. At age 3, sensitization to foods (milk, egg, peanut, soy, wheat, walnut) was assessed...
June 20, 2017: Allergy
https://www.readbyqxmd.com/read/28628333/coupling-targeted-and-untargeted-mass-spectrometry-for-metabolome-microbiome-wide-association-studies-of-human-fecal-samples
#3
Alexey V Melnik, Pieter C Dorrestein, Ricardo R da Silva, Embriette R Hyde, Alexander A Aksenov, Fernando Vargas, Amina Bouslimani, Ivan Protsyuk, Alan Jarmusch, Anupriya Tripathi, Theodore Alexandrov, Rob Knight
Increasing appreciation of the gut microbiome's role in health motivates understanding the molecular composition of human feces. To analyze such complex samples, we developed a platform coupling targeted and untargeted metabolomics. The approach is facilitated through split flow from one UPLC, joint timing triggered by contact closure relays and a script to retrieve the data. It is designed to detect specific metabolites of interest with high sensitivity, allows for correction of targeted information, enables better quantitation thus providing an advanced analytical tool for exploratory studies...
June 19, 2017: Analytical Chemistry
https://www.readbyqxmd.com/read/28620315/you-are-what-you-eat-a-genomic-analysis-of-the-gut-microbiome-of-captive-and-wild-octopus-vulgaris-paralarvae-and-their-zooplankton-prey
#4
Álvaro Roura, Stephen R Doyle, Manuel Nande, Jan M Strugnell
The common octopus (Octopus vulgaris) is an attractive species for aquaculture, however, several challenges inhibit sustainable commercial production. Little is known about the early paralarval stages in the wild, including diet and intestinal microbiota, which likely play a significant role in development and vitality of this important life stage. High throughput sequencing was used to characterize the gastrointestinal microbiome of wild O. vulgaris paralarvae collected from two different upwelling regions off the coast of North West Spain (n = 41) and Morocco (n = 35)...
2017: Frontiers in Physiology
https://www.readbyqxmd.com/read/28619805/complete-genome-sequences-of-two-human-oral-microbiome-commensals-streptococcus-salivarius-atcc-25975-and-s-salivarius-atcc-27945
#5
Robert R Butler, Jahna T A Soomer-James, Michel Frenette, Jean-François Pombert
Streptococcus salivarius strains are significant contributors to the human oral microbiome. Some possess unique fimbriae that give them the ability to coaggregate and colonize particular oral structures. We present here the complete genomes of Streptococcus salivarius Lancefield K(-)/K(+) strains ATCC 25975 and ATCC 27945, which can and cannot, respectively, produce fimbriae.
June 15, 2017: Genome Announcements
https://www.readbyqxmd.com/read/28614633/differential-sensitivity-of-total-and-active-soil-microbial-communities-to-drought-and-forest-management
#6
F Bastida, I F Torres, M Andrés-Abellán, P Baldrian, R López-Mondéjar, T Větrovský, H H Richnow, R Starke, S Ondoño, C García, F R López-Serrano, N Jehmlich
Climate change will affect semiarid ecosystems through severe droughts that increase the competition for resources in plant and microbial communities. In these habitats, adaptations to climate change may consist of thinning - that reduces competition for resources through a decrease in tree density and the promotion of plant survival. We deciphered the functional and phylogenetic responses of the microbial community to six years of drought induced by rainfall exclusion and how forest management affects its resistance to drought, in a semiarid forest ecosystem dominated by Pinus halepensis Mill...
June 14, 2017: Global Change Biology
https://www.readbyqxmd.com/read/28611740/the-shift-of-the-intestinal-microbiome-in-the-innate-immunity-deficient-mutant-rde-1-strain-of-c-elegans-upon-orsay-virus-infection
#7
Yuanyuan Guo, Zhe Xun, Stephanie R Coffman, Feng Chen
The status of intestinal microbiota is a determinant of host health. However, the alteration of the gut microbiota caused by the innate immune response to virus infection is unclear. Caenorhabditis elegans and its natural virus Orsay provide an excellent model of host-virus interactions. We evaluated the intestinal microbial community complexity of the wild-type N2 and the innate immunity-deficient mutant rde-1 (ne219) strains of C. elegans upon Orsay virus infection. The gut microbiota diversity was decreased in rde-1 (ne219) mutant animals, and a large number of genes were associated with the difference between infected and uninfected rde-1 (ne219) mutant animals...
2017: Frontiers in Microbiology
https://www.readbyqxmd.com/read/28609134/relationships-among-microbial-communities-maternal-cells-oligosaccharides-and-macronutrients-in-human-milk
#8
Janet E Williams, William J Price, Bahman Shafii, Katherine M Yahvah, Lars Bode, Mark A McGuire, Michelle K McGuire
BACKGROUND: Human milk provides all essential nutrients necessary for early life and is rich in nonnutrients, maternally derived (host) cells, and bacteria, but almost nothing is known about the interplay among these components. Research aim: The primary objective of this research was to characterize relationships among macronutrients, maternal cells, and bacteria in milk. METHODS: Milk samples were collected from 16 women and analyzed for protein, lipid, fatty acid, lactose, and human milk oligosaccharide concentrations...
June 1, 2017: Journal of Human Lactation: Official Journal of International Lactation Consultant Association
https://www.readbyqxmd.com/read/28604679/a-stabilized-microbial-ecosystem-of-self-limiting-bacteria-using-synthetic-quorum-regulated-lysis
#9
Spencer R Scott, M Omar Din, Philip Bittihn, Liyang Xiong, Lev S Tsimring, Jeff Hasty
Microbial ecologists are increasingly turning to small, synthesized ecosystems(1-5) as a reductionist tool to probe the complexity of native microbiomes(6,7). Concurrently, synthetic biologists have gone from single-cell gene circuits(8-11) to controlling whole populations using intercellular signalling(12-16). The intersection of these fields is giving rise to new approaches in waste recycling(17), industrial fermentation(18), bioremediation(19) and human health(16,20). These applications share a common challenge(7) well-known in classical ecology(21,22)-stability of an ecosystem cannot arise without mechanisms that prohibit the faster-growing species from eliminating the slower...
June 12, 2017: Nature Microbiology
https://www.readbyqxmd.com/read/28602659/long-term-multi-species-lactobacillus-and-bifidobacterium-dietary-supplement-enhances-memory-and-changes-regional-brain-metabolites-in-middle-aged-rats
#10
Caroline O'Hagan, Jia V Li, Julian R Marchesi, Sue Plummer, Iveta Garaiova, Mark A Good
Ageing is associated with changes in the gut microbiome that may contribute to age-related changes in cognition. Previous work has shown that dietary supplements with multi-species live microorganisms can influence brain function, including induction of hippocampal synaptic plasticity and production of brain derived neurotrophic factor, in both young and aged rodents. However, the effect of such dietary supplements on memory processes has been less well documented, particularly in the context of aging. The main aim of the present study was to examine the impact of a long-term dietary supplement with a multi-species live Lactobacillus and Bifidobacteria mixture (Lactobacillus acidophilus CUL60, L...
June 5, 2017: Neurobiology of Learning and Memory
https://www.readbyqxmd.com/read/28600760/characterization-of-sinus-microbiota-by-16s-sequencing-from-swabs
#11
Thad W Vickery, Jennifer M Kofonow, Vijay R Ramakrishnan
New culture-independent microbiology methods are leading to a paradigm shift in our understanding of how the microbial community at the mucosal surface impacts sinonasal health and disease. Whereas traditional culture-based protocols were designed to identify specific pathogens in order to direct antibiotic therapies and eradicate bacteria, newer molecular techniques allow for the identification of both culturable and nonculturable bacteria in diverse communities. As a result of the recent explosion in the use of molecular techniques, we are gaining an understanding of how commensal bacteria may help modulate the host immune response and promote homeostasis...
2017: Methods in Molecular Biology
https://www.readbyqxmd.com/read/28600319/microbiome-and-nafld-potential-influence-of-aerobic-fitness-and-lifestyle-modification
#12
Matthew R Panasevich, Willem T Peppler, Daniel B Oerther, David C Wright, R Scott Rector
Nonalcoholic fatty liver disease (NAFLD) is a chronic liver disease with prevalence rates that are on the rise in the US and worldwide. NAFLD encompasses a spectrum of liver pathologies including simple steatosis to nonalcoholic steatohepatitis (NASH) with inflammation and fibrosis. The gut microbiome has emerged as a potential therapeutic target in combating metabolic diseases including obesity, type 2 diabetes, and NAFLD/NASH. Diet-induced obesity/Western style diet feeding causes severe microbial dysbiosis initiating a microbiome signature that promotes metabolite production that directly impacts hepatic metabolism...
June 9, 2017: Physiological Genomics
https://www.readbyqxmd.com/read/28597254/changes-in-structure-and-function-of-bacterial-communities-during-coconut-leaf-vermicomposting
#13
Murali Gopal, Shrikant S Bhute, Alka Gupta, S R Prabhu, George V Thomas, William B Whitman, Kamlesh Jangid
To understand bacterial community dynamics during the vermicomposting of lignin-rich coconut leaves using an indigenous isolate of an epigeic earthworm, Eudrilus sp., we employed amplicon-based pyrosequencing of the V1 to V3 region of the 16S rRNA genes. Total community DNA was isolated from two separate vermicomposting tanks in triplicate at four different stages of the process: pre-decomposition (15th day), initial vermicomposting (45th day), 50-70% vermicomposting (75th day) and mature vermicompost (105th day)...
June 9, 2017: Antonie Van Leeuwenhoek
https://www.readbyqxmd.com/read/28596951/early-life-host-microbiome-interphase-the-key-frontier-for-immune-development
#14
REVIEW
Nelly Amenyogbe, Tobias R Kollmann, Rym Ben-Othman
Human existence can be viewed as an "animal in a microbial world." A healthy interaction of the human host with the microbes in and around us heavily relies on a well-functioning immune system. As development of both the microbiota and the host immune system undergo rapid changes in early life, it is not surprising that even minor alterations during this co-development can have profound consequences. Scrutiny of existing data regarding pre-, peri-, as well as early postnatal modulators of newborn microbiota indeed suggest strong associations with several immune-mediated diseases with onset far beyond the newborn period...
2017: Frontiers in Pediatrics
https://www.readbyqxmd.com/read/28595639/diet-shifts-provoke-complex-and-variable-changes-in-the-metabolic-networks-of-the-ruminal-microbiome
#15
Sara M Wolff, Melinda J Ellison, Yue Hao, Rebecca R Cockrum, Kathy J Austin, Michael Baraboo, Katherine Burch, Hyuk Jin Lee, Taylor Maurer, Rocky Patil, Andrea Ravelo, Tasia M Taxis, Huan Truong, William R Lamberson, Kristi M Cammack, Gavin C Conant
BACKGROUND: Grazing mammals rely on their ruminal microbial symbionts to convert plant structural biomass into metabolites they can assimilate. To explore how this complex metabolic system adapts to the host animal's diet, we inferred a microbiome-level metabolic network from shotgun metagenomic data. RESULTS: Using comparative genomics, we then linked this microbial network to that of the host animal using a set of interface metabolites likely to be transferred to the host...
June 8, 2017: Microbiome
https://www.readbyqxmd.com/read/28595314/a-combined-meta-barcoding-and-shotgun-metagenomic-analysis-of-spontaneous-wine-fermentation
#16
Peter R Sternes, Danna Lee, Dariusz R Kutyna, Anthony R Borneman
Wine is a complex beverage, comprising hundreds of metabolites produced through the action of yeasts and bacteria in fermenting grape must. Commercially, there is now a growing trend away from using wine yeast ( Saccharomyces ) starter cultures, towards the historic practice of uninoculated or "wild" fermentation, where the yeasts and bacteria associated with the grapes and/or winery perform the fermentation. It is the varied metabolic contributions of these numerous non- Saccharomyces species that are thought to impart complexity and desirable taste and aroma attributes to wild ferments in comparison to their inoculated counterparts...
June 8, 2017: GigaScience
https://www.readbyqxmd.com/read/28595107/application-of-1-h-nmr-spectroscopy-to-the-metabolic-phenotyping-of-rodent-brain-extracts-a-metabonomic-study-of-gut-microbial-influence-on-host-brain-metabolism
#17
J R Swann, I Garcia-Perez, V Braniste, I D Wilson, J E Sidaway, J K Nicholson, S Pettersson, E Holmes
(1)H NMR Spectroscopy has been applied to determine the neurochemical profiles of brain extracts from the frontal cortex and hippocampal regions of germ free and normal mice and rats. The results revealed a number of differences between germ free (GF) and conventional (CV) rats or specific pathogen-free (SPF) mice with microbiome-associated metabolic variation found to be both species- and region-dependent. In the mouse, the GF frontal cortex contained lower amounts of creatine, N-acetyl-aspartate (NAA), glycerophosphocholine and lactate, but greater amounts of choline compared to that of specific pathogen free (SPF) mice...
May 31, 2017: Journal of Pharmaceutical and Biomedical Analysis
https://www.readbyqxmd.com/read/28594779/clinical-validation-of-a-test-for-the-diagnosis-of-vaginitis
#18
Charlotte A Gaydos, Sajo Beqaj, Jane R Schwebke, Joel Lebed, Bonnie Smith, Thomas E Davis, Kenneth H Fife, Paul Nyirjesy, Timothy Spurrell, Dorothy Furgerson, Jenell Coleman, Sonia Paradis, Charles K Cooper
OBJECTIVE: Vaginitis may be diagnosed as bacterial vaginosis, vulvovaginal candidiasis, trichomoniasis, or coinfection. A new molecular test assays the vaginal microbiome and organisms that cause three common infections. The objective of the trial was to evaluate the clinical accuracy of the investigational test for vaginal swabs collected by patients (self) or clinicians. The primary and secondary outcomes were to compare the investigational test with reference methods for the three most common causes of vaginitis and compare clinician-collected with self-collected swabs...
June 6, 2017: Obstetrics and Gynecology
https://www.readbyqxmd.com/read/28588204/gut-dysbiosis-and-neurobehavioral-alterations-in-rats-exposed-to-silver-nanoparticles
#19
Angela B Javurek, Dhananjay Suresh, William G Spollen, Marcia L Hart, Sarah A Hansen, Mark R Ellersieck, Nathan J Bivens, Scott A Givan, Anandhi Upendran, Raghuraman Kannan, Cheryl S Rosenfeld
Due to their antimicrobial properties, silver nanoparticles (AgNPs) are being used in non-edible and edible consumer products. It is not clear though if exposure to these chemicals can exert toxic effects on the host and gut microbiome. Conflicting studies have been reported on whether AgNPs result in gut dysbiosis and other changes within the host. We sought to examine whether exposure of Sprague-Dawley male rats for two weeks to different shapes of AgNPs, cube (AgNC) and sphere (AgNS) affects gut microbiota, select behaviors, and induces histopathological changes in the gastrointestinal system and brain...
June 6, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28584701/alien-vs-predator-bacterial-challenge-alters-coral-microbiomes-unless-controlled-by-halobacteriovorax-predators
#20
Rory M Welsh, Stephanie M Rosales, Jesse R Zaneveld, Jérôme P Payet, Ryan McMinds, Steven L Hubbs, Rebecca L Vega Thurber
Coral microbiomes are known to play important roles in organismal health, response to environmental stress, and resistance to disease. The coral microbiome contains diverse assemblages of resident bacteria, ranging from defensive and metabolic symbionts to opportunistic bacteria that may turn harmful in compromised hosts. However, little is known about how these bacterial interactions influence the mechanism and controls of overall structure, stability, and function of the microbiome. We sought to test how coral microbiome dynamics were affected by interactions between two bacteria: Vibrio coralliilyticus, a known temperature-dependent pathogen of some corals, and Halobacteriovorax, a unique bacterial predator of Vibrio and other gram-negative bacteria...
2017: PeerJ
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