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https://www.readbyqxmd.com/read/28821012/multidomain-analyses-of-a-longitudinal-human-microbiome-intestinal-cleanout-perturbation-experiment
#1
Julia Fukuyama, Laurie Rumker, Kris Sankaran, Pratheepa Jeganathan, Les Dethlefsen, David A Relman, Susan P Holmes
Our work focuses on the stability, resilience, and response to perturbation of the bacterial communities in the human gut. Informative flash flood-like disturbances that eliminate most gastrointestinal biomass can be induced using a clinically-relevant iso-osmotic agent. We designed and executed such a disturbance in human volunteers using a dense longitudinal sampling scheme extending before and after induced diarrhea. This experiment has enabled a careful multidomain analysis of a controlled perturbation of the human gut microbiota with a new level of resolution...
August 18, 2017: PLoS Computational Biology
https://www.readbyqxmd.com/read/28818840/hcn4-ion-channel-function-is-required-for-early-events-that-regulate-anatomical-left-right-patterning-in-a-nodal-and-lefty-asymmetric-gene-expression-independent-manner
#2
Vaibhav P Pai, Valerie Willocq, Emily J Pitcairn, Joan M Lemire, Jean-François Paré, Nian-Qing Shi, Kelly A McLaughlin, Michael Levin
Laterality is a basic characteristic of all life forms, from single cell organisms to complex plants and animals. For many metazoans, consistent left-right asymmetric patterning is essential for the correct anatomy of internal organs, such as the heart, gut, and brain; disruption of left-right asymmetry patterning leads to an important class of birth defects in human patients. Laterality functions across multiple scales, where early embryonic, subcellular and chiral cytoskeletal events are coupled with asymmetric amplification mechanisms and gene regulatory networks leading to asymmetric physical forces that ultimately result in distinct left and right anatomical organ patterning...
August 17, 2017: Biology Open
https://www.readbyqxmd.com/read/28818344/the-2016-espen-arvid-wretlind-lecture-the-gut-in-stress
#3
REVIEW
Stephen A McClave, Cynthia C Lowen, Robert G Martindale
The gut has a major influence on the course of the human stress response in critical illness for several reasons; the quantity of its immune tissue, the extent of interface with the external environment, the expanse of the microbiome, and its access to the systemic circulation. In critical illness, it is not uncommon to lose mucosal barrier function, which exposes the host to the downside effects of luminal contents and epithelial cell regulation. In that setting, the microbiome is converted to a pathobiome, upregulation of metabolic and immune responses occurs, and homeostatic defense systems are compromised...
July 29, 2017: Clinical Nutrition: Official Journal of the European Society of Parenteral and Enteral Nutrition
https://www.readbyqxmd.com/read/28818268/-metformin-resistant-folic-acid-producing-probiotics-or-folic-acid-against-metformin-s-adverse-effects-like-diarrhea
#4
Abdullah Olgun
Metformin, first line medication in the treatment of type2 diabetes by millions of patients worldwide, causes gastrointestinal adverse effects (i.e. diarrhea) in approximately 30% of patients, frequently leading to discontinuation. Interestingly, metformin was reported to increase life span in a microscopic worm, Caenorhabditis elegans, by decreasing folate and methionine production of bacteria that this worm uses as a food source. Metformin can be expected to have a similar effect on some microorganisms of human gut microbiota...
September 2017: Medical Hypotheses
https://www.readbyqxmd.com/read/28817707/microbiome-mediated-neutrophil-recruitment-via-cxcr2-and-protection-from-amebic-colitis
#5
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/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
#6
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/28816544/animal-inflammation-based-models-of-depression-and-their-application-to-drug-discovery
#7
Li Ma, Konstantin A Demin, Tatyana O Kolesnikova, Sergey L Kharsko, Xiaokang Zhu, Xiaodong Yuan, Cai Song, Darya A Meshalkina, Brian E Leonard, Li Tian, Allan V Kalueff
Depression, anxiety and other affective disorders are globally widespread and severely debilitating human brain diseases. Despite their high prevalence and mental health impact, affective pathogenesis is poorly understood, and often remains recurrent and resistant to treatment. The lack of efficient antidepressants and presently limited conceptual innovation necessitate novel approaches and new drug targets in the field of antidepressant therapy. Areas covered: Herein, the authors discuss the emerging role of neuro-immune interactions in affective pathogenesis, which can become useful targets for CNS drug discovery, including modulating neuroinflammatory pathways to alleviate affective pathogenesis...
August 17, 2017: Expert Opinion on Drug Discovery
https://www.readbyqxmd.com/read/28814639/deposition-and-hydrolysis-of-serine-dipeptide-lipids-of-bacteroidetes-bacteria-in-human-arteries-relationship-to-atherosclerosis
#8
Reza Nemati, Christopher Dietz, Emily J Anstadt, Jorge Cervantes, Yaling Liu, Floyd E Dewhirst, Robert B Clark, Sydney Finegold, James J Gallagher, Michael B Smith, Xudong Yao, Frank C Nichols
Multiple reaction monitoring mass spectrometry (MRM-MS) analysis of lipid extracts from human carotid endarterectomy and carotid artery samples from young individuals consistently demonstrated the presence of bacterial serine dipeptide lipid classes including Lipid 654, an agonist for human and mouse Toll-like receptor 2, and Lipid 430, the deacylated product of Lipid 654. The relative levels of Lipid 654 and Lipid 430 were also determined in common oral and intestinal bacteria from the phylum Bacteroidetes, and human serum and brain samples from healthy adults...
August 16, 2017: Journal of Lipid Research
https://www.readbyqxmd.com/read/28814519/extracellular-matrix-proteins-mediate-hiv-1-gp120-interactions-with-%C3%AE-4%C3%AE-7
#9
David Plotnik, Wenjin Guo, Brad Cleveland, Priska von Haller, Jimmy K Eng, Miklos Guttman, Kelly K Lee, James Arthos, Shiu-Lok Hu
Gut-homing α4β7(high) CD4(+) T lymphocytes have been shown to be preferentially targeted by Human Immunodeficiency Virus-1 (HIV), and are implicated in HIV pathogenesis. Previous studies demonstrated that HIV envelope protein gp120 binds and signals through α4β7, and that this likely contributes to the infection of α4β7(high) T cells and promotes cell-to-cell virus transmission. Structures within the second variable loop (V2) of gp120, including the tripeptide motif LDV/I, are thought to mediate gp120-α4β7 binding...
August 16, 2017: Journal of Virology
https://www.readbyqxmd.com/read/28814395/fecal-concentrations-of-bacterially-derived-vitamin-k-forms-are-associated-with-gut-microbiota-composition-but-not-plasma-or-fecal-cytokine-concentrations-in-healthy-adults
#10
J Philip Karl, Mohsen Meydani, Junaidah B Barnett, Sally M Vanegas, Kathryn Barger, Xueyan Fu, Barry Goldin, Anne Kane, Helen Rasmussen, Pajau Vangay, Dan Knights, Satya S Jonnalagadda, Edward Saltzman, Susan B Roberts, Simin N Meydani, Sarah L Booth
Background: Emerging evidence suggests novel roles for bacterially derived vitamin K forms known as menaquinones in health and disease, which may be attributable in part to anti-inflammatory effects. However, the relevance of menaquinones produced by gut bacteria to vitamin K requirements and inflammation is undetermined.Objective: This study aimed to quantify fecal menaquinone concentrations and identify associations between fecal menaquinone concentrations and serum vitamin K concentrations, gut microbiota composition, and inflammation...
August 16, 2017: American Journal of Clinical Nutrition
https://www.readbyqxmd.com/read/28814130/identification-and-characterization-of-a-sulfoglycosidase-from-bifidobacterium-bifidum-implicated-in-mucin-glycan-utilization
#11
Toshihiko Katoh, Takako Maeshibu, Kei-Ichi Kikkawa, Aina Gotoh, Yusuke Tomabechi, Motoharu Nakamura, Wei-Hsiang Liao, Masanori Yamaguchi, Hisashi Ashida, Kenji Yamamoto, Takane Katayama
Human gut symbiont bifidobacteria possess carbohydrate-degrading enzymes that act on the O-linked glycans of intestinal mucins to utilize those carbohydrates as carbon sources. However, our knowledge about mucin type O-glycan degradation by bifidobacteria remains fragmentary, especially regarding how they decompose sulfated glycans, which are abundantly found in mucin sugar-chains. Here, we examined the abilities of several Bifidobacterium strains to degrade a sulfated glycan substrate and identified a 6-sulfo-β-d-N-acetylglucosaminidase, also termed sulfoglycosidase, encoded by bbhII from Bifidobacterium bifidum JCM 7004...
August 17, 2017: Bioscience, Biotechnology, and Biochemistry
https://www.readbyqxmd.com/read/28811841/bacteriophages-in-the-gastrointestinal-tract-and-their-implications
#12
Marzanna Łusiak-Szelachowska, Beata Weber-Dąbrowska, Ewa Jończyk-Matysiak, Renata Wojciechowska, Andrzej Górski
The gut microbiota plays an essential role in health and disease of humans. Bacteriophages are the most abundant members of the gut virobiota and display great diversity. Phages can translocate through the mucosa to lymph and internal organs and play a role as regulators of the bacterial population in the gut. Increasing abundance of phages in the gut mucosa may reduce colonization by bacteria. Moreover, phages may have an immunomodulatory role in the immune response in the human gut. The role of phages in inflammatory bowel disease (IBD) remains unknown...
2017: Gut Pathogens
https://www.readbyqxmd.com/read/28809607/amoxapine-demonstrates-incomplete-inhibition-of-%C3%AE-glucuronidase-activity-from-human-gut-microbiota
#13
Wei Yang, Bin Wei, Ru Yan
Amoxapine has been demonstrated to be a potent inhibitor of Escherichia coli β-glucuronidase. This study aims to explore the factors causing unsatisfactory efficacy of amoxapine in alleviating CPT-11-induced gastrointestinal toxicity in mice and to predict the outcomes in humans. Amoxapine (100 µM) exhibited poor and varied inhibition on β-glucuronidase activity in gut microbiota from 10 healthy individuals and their pool (pool, 11.9%; individuals, 3.6%-54.4%) with IC50 >100 µM and potent inhibition toward E...
August 1, 2017: SLAS Discovery
https://www.readbyqxmd.com/read/28809155/microbe-profile-candida-albicans-a-shape-changing-opportunistic-pathogenic-fungus-of-humans
#14
Neil A R Gow, Bhawna Yadav
(a) Morphotypes of Candida albicans (blue sector, vegetative forms; pink sector, forms related to mating or changes in ploidy). Cell types shown include: budding yeast cells; elongated conjoined yeasts forming pseudohyphae; parallel-sided hyphae; chlamydospores formed from suspensor cells; enlarged goliath cells formed under zinc deprivation (unpublished study, image from Duncan Wilson); intestinal gut form cells (image from Suzanne Noble); mating competence defined by white-grey-opaque cell transitions (images from Guanghua Huang); elongated chemotactic shmoo-mating projections leading to tetraploid zygote formation (images from David Soll and Karla Daniels); trimera formed by unequal chromosome segregation under antifungal exposure (image from Judith Berman)...
August 15, 2017: Microbiology
https://www.readbyqxmd.com/read/28808691/fluoride-depletes-acidogenic-taxa-in-oral-but-not-gut-microbial-communities-in-mice
#15
Koji Yasuda, Tiffany Hsu, Carey A Gallini, Lauren J Mclver, Emma Schwager, Andy Shi, Casey R DuLong, Randall N Schwager, Galeb S Abu-Ali, Eric A Franzosa, Wendy S Garrett, Curtis Huttenhower, Xochitl C Morgan
Fluoridation of drinking water and dental products prevents dental caries primarily by inhibiting energy harvest in oral cariogenic bacteria (such as Streptococcus mutans and Streptococcus sanguinis), thus leading to their depletion. However, the extent to which oral and gut microbial communities are affected by host fluoride exposure has been underexplored. In this study, we modeled human fluoride exposures to municipal water and dental products by treating mice with low or high levels of fluoride over a 12-week period...
July 2017: MSystems
https://www.readbyqxmd.com/read/28808688/adaptive-mistranslation-accelerates-the-evolution-of-fluconazole-resistance-and-induces-major-genomic-and-gene-expression-alterations-in-candida-albicans
#16
Tobias Weil, Rodrigo Santamaría, Wanseon Lee, Johan Rung, Noemi Tocci, Darren Abbey, Ana R Bezerra, Laura Carreto, Gabriela R Moura, Mónica Bayés, Ivo G Gut, Attila Csikasz-Nagy, Duccio Cavalieri, Judith Berman, Manuel A S Santos
Regulated erroneous protein translation (adaptive mistranslation) increases proteome diversity and produces advantageous phenotypic variability in the human pathogen Candida albicans. It also increases fitness in the presence of fluconazole, but the underlying molecular mechanism is not understood. To address this question, we evolved hypermistranslating and wild-type strains in the absence and presence of fluconazole and compared their fluconazole tolerance and resistance trajectories during evolution. The data show that mistranslation increases tolerance and accelerates the acquisition of resistance to fluconazole...
July 2017: MSphere
https://www.readbyqxmd.com/read/28808547/patterns-of-seasonality-and-group-membership-characterize-the-gut-microbiota-in-a-longitudinal-study-of-wild-verreaux-s-sifakas-propithecus-verreauxi
#17
Andrea Springer, Claudia Fichtel, Gabriel A Al-Ghalith, Flávia Koch, Katherine R Amato, Jonathan B Clayton, Dan Knights, Peter M Kappeler
The intestinal microbiota plays a major role in host development, metabolism, and health. To date, few longitudinal studies have investigated the causes and consequences of microbiota variation in wildlife, although such studies provide a comparative context for interpreting the adaptive significance of findings from studies on humans or captive animals. Here, we investigate the impact of seasonality, diet, group membership, sex, age, and reproductive state on gut microbiota composition in a wild population of group-living, frugi-folivorous primates, Verreaux's sifakas (Propithecus verreauxi)...
August 2017: Ecology and Evolution
https://www.readbyqxmd.com/read/28808299/gut-homing-%C3%AE-42pd1-v%C3%AE-2-t-cells-promote-innate-mucosal-damage-via-tlr4-during-acute-hiv-type-1-infection
#18
Allen Ka Loon Cheung, Hau-Yee Kwok, Yiru Huang, Min Chen, Yufei Mo, Xilin Wu, Ka-Shing Lam, Hoi-Kuan Kong, Terrence Chi Kong Lau, Jingying Zhou, Jingjing Li, Lin Cheng, Boon Kiat Lee, Qiaoli Peng, Xiaofan Lu, Minghui An, Hui Wang, Hong Shang, Boping Zhou, Hao Wu, Aimin Xu, Kwok-Yung Yuen, Zhiwei Chen
The innate immune cells underlying mucosal inflammatory responses and damage during acute HIV-1 infection remain incompletely understood. Here, we report a Vδ2 subset of gut-homing γδ T cells with significantly upregulated Δ42PD1 (a PD1 isoform) in acute (~20%) HIV-1 patients compared to chronic HIV-1 patients (~11%) and healthy controls (~2%). The frequency of Δ42PD1(+)Vδ2 cells correlates positively with plasma levels of pro-inflammatory cytokines and fatty-acid-binding protein before detectable lipopolysaccharide in acute patients...
August 14, 2017: Nature Microbiology
https://www.readbyqxmd.com/read/28807914/amplification-of-antimicrobial-resistance-in-gut-flora-of-patients-treated-with-ceftriaxone
#19
J Meletiadis, A Turlej-Rogacka, A Lerner, A Adler, E Taconelli, J W Mouton
Although antibacterial therapy has an impact on human intestinal flora and emergence of resistant bacteria, its role on amplification of antimicrobial resistance and the quantitative exposure-effect relationship is not clear. An observational prospective study was conducted to determine whether and how ceftriaxone exposure is related to amplification of resistance in non- ICU patients.Serial stool samples from 122 ESBL(+) hospitalized patients were analyzed with quantitative real-time PCR to quantify the resistant gene blaCTX-M Drug exposure was calculated for each patient using a population pharmacokinetic model...
August 14, 2017: Antimicrobial Agents and Chemotherapy
https://www.readbyqxmd.com/read/28807046/a-comprehensive-evaluation-of-the-sl1p-pipeline-for-16s-rrna-gene-sequencing-analysis
#20
Fiona J Whelan, Michael G Surette
BACKGROUND: Advances in next-generation sequencing technologies have allowed for detailed, molecular-based studies of microbial communities such as the human gut, soil, and ocean waters. Sequencing of the 16S rRNA gene, specific to prokaryotes, using universal PCR primers has become a common approach to studying the composition of these microbiota. However, the bioinformatic processing of the resulting millions of DNA sequences can be challenging, and a standardized protocol would aid in reproducible analyses...
August 14, 2017: Microbiome
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