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https://www.readbyqxmd.com/read/29351278/analysis-of-the-tonsillar-microbiome-in-young-adults-with-sore-throat-reveals-a-high-relative-abundance-of-fusobacterium-necrophorum-with-low-diversity
#1
T Prescott Atkinson, Robert M Centor, Li Xiao, Fuchenchu Wang, Xiangqin Cui, William Van Der Pol, Casey D Morrow, Amy E Ratliff, Donna M Crabb, Arthur H Totten, Carlos A Estrada, Michael B Faircloth, Ken B Waites
Fusobacterium necrophorum (Fn), a gram-negative anaerobe, is increasingly implicated as an etiologic agent in older adolescents and young adults with sore throat. Inadequately treated Fn pharyngitis may result in suppurative complications such as peritonsillar abscess and Lemierre's syndrome. Data from the literature suggest that the incidence of life-threating complications in these age groups from Fn pharyngitis (Lemierre's syndrome) in the United States exceeds those associated with group A beta-hemolytic streptococcal (GAS) pharyngitis (acute rheumatic fever)...
2018: PloS One
https://www.readbyqxmd.com/read/29351192/seed-endophyte-microbiome-of-crotalaria-pumila-unpeeled-identification-of-plant-beneficial-methylobacteria
#2
Ariadna S Sánchez-López, Isabel Pintelon, Vincent Stevens, Valeria Imperato, Jean-Pierre Timmermans, Carmen González-Chávez, Rogelio Carrillo-González, Jonathan Van Hamme, Jaco Vangronsveld, Sofie Thijs
Metal contaminated soils are increasing worldwide. Metal-tolerant plants growing on metalliferous soils are fascinating genetic and microbial resources. Seeds can vertically transmit endophytic microorganisms that can assist next generations to cope with environmental stresses, through yet poorly understood mechanisms. The aims of this study were to identify the core seed endophyte microbiome of the pioneer metallophyte Crotalaria pumila throughout three generations, and to better understand the plant colonisation of the seed endophyte Methylobacterium sp...
January 19, 2018: International Journal of Molecular Sciences
https://www.readbyqxmd.com/read/29350768/diet-affects-gut-microbiota-and-modulates-hospitalization-risk-differentially-in-an-international-cirrhosis-cohort
#3
Jasmohan S Bajaj, Ramazan Idilman, Leila Mabudian, Matthew Hood, Andrew Fagan, Dilara Turan, Melanie B White, Fatih Karakaya, Jessica Wang, Rengül Atalay, Phillip B Hylemon, Edith A Gavis, Robert Brown, Leroy R Thacker, Chathur Acharya, Douglas M Heuman, Masoumeh Sikaroodi, Patrick M Gillevet
The relative ranking of cirrhosis-related deaths differs between high/middle-income countries. Gut microbiome is affected in cirrhosis and related to diet. Our aim was to determine the effect of differing dietary habits on gut microbiota and clinical outcomes. METHODS: Outpatient compensated/decompensated cirrhotics and controls from Turkey and USA underwent dietary and stool microbiota analysis. Cirrhotics were followed till 90-day hospitalizations. Shannon diversity and multi-variable determinants (Cox and binary logistic) of microbial diversity and hospitalizations were studied within/between groups...
January 19, 2018: Hepatology: Official Journal of the American Association for the Study of Liver Diseases
https://www.readbyqxmd.com/read/29350561/recent-past-present-and-future-of-the-food-microbiome
#4
Francesca De Filippis, Eugenio Parente, Danilo Ercolini
Sequencing technologies have deeply changed our approach to the study of food microbial communities. This review describes recent exploitations of high-throughput sequencing applications to improve our knowledge of food microbial consortia. In the past 10 years, target amplicon sequencing has become routinely used in many food microbiology laboratories, providing a detailed picture of food-associated microbiota. Metagenomics and metatranscriptomics approaches are still underexploited in food microbial ecology, despite their potential to uncover the functionality of complex communities...
January 18, 2018: Annual Review of Food Science and Technology
https://www.readbyqxmd.com/read/29350476/investigating-the-mechanisms-underlying-phytoprotection-by-plant-growth-promoting-rhizobacteria-in-spartina-densiflora-under-metal-stress
#5
K Paredes-Páliz, R Rodríguez-Vázquez, B Duarte, M A Caviedes, E Mateos-Naranjo, S Redondo-Gómez, Isabel Caçador, Ignacio D Rodríguez-Llorente, E Pajuelo
Pollution of coasts by toxic metals and metalloids is a worldwide problem for which phytoremediation using halophytes and associated microbiomes is getting relevance. Metal(loid)s excess is a constraint for plant establishment and development, and plant growth promoting rhizobacteria (PGPR) mitigate plant stress under these conditions. However, mechanisms underlying this effect remain elusive. In this paper, the effect of toxic metal(loid)s on the activity of ROS-scavenging enzymes in roots of the halophyte Spartina densiflora grown on real polluted sediments in a green house experiment, was investigated...
January 19, 2018: Plant Biology
https://www.readbyqxmd.com/read/29350339/emerging-insights-into-the-esophageal-microbiome
#6
REVIEW
Michael May, Julian A Abrams
PURPOSE OF REVIEW: Analysis of the esophageal microbiome remains a relatively new field of research, and most studies to date have focused on characterizing the esophageal microbiome in states of health and disease. Microbiome alterations have been implicated in the pathogenesis of inflammatory and neoplastic conditions in the colon and elsewhere in the gastrointestinal tract. The epidemiology of various esophageal conditions including Barrett's esophagus (BE), esophageal adenocarcinoma (EAC), esophageal squamous cell carcinoma (ESCC), and eosinophilic esophagitis (EoE) point to the microbiome as a potential co-factor in disease pathogenesis, and the possibility exists that these microbiome alterations could contribute directly to the inflammatory environments necessary for the carcinogenesis or atopy involved in these conditions...
January 19, 2018: Current Treatment Options in Gastroenterology
https://www.readbyqxmd.com/read/29350290/the-microbiology-and-treatment-of-human-mastitis
#7
REVIEW
Angeliki Angelopoulou, Des Field, C Anthony Ryan, Catherine Stanton, Colin Hill, R Paul Ross
Mastitis, which is generally described as an inflammation of breast tissue, is a common and debilitating disease which frequently results in the cessation of exclusive breastfeeding and affects up to 33% of lactating women. The condition is a primary cause of decreased milk production and results in organoleptic and nutritional alterations in milk quality. Recent studies employing culture-independent techniques, including metagenomic sequencing, have revealed a loss of bacterial diversity in the microbiome of mastitic milk samples compared to healthy milk samples...
January 19, 2018: Medical Microbiology and Immunology
https://www.readbyqxmd.com/read/29349912/meta-analysis-generates-and-prioritizes-hypotheses-for-translational-microbiome-research
#8
EDITORIAL
Claire Duvallet
No abstract text is available yet for this article.
January 19, 2018: Microbial Biotechnology
https://www.readbyqxmd.com/read/29349504/oral-bacterial-colonization-on-dental-implants-restored-with-titanium-or-zirconia-abutments-6-month-follow-up
#9
Alice Ramos de Freitas, Thalisson Saymo de Oliveira Silva, Ricardo Faria Ribeiro, Rubens Ferreira de Albuquerque Junior, Vinícius Pedrazzi, Cássio do Nascimento
OBJECTIVE: This investigation aimed to characterize in a 6-month follow-up the microbial profile of implants restored with either titanium or zirconia abutments at the genus or higher taxonomic levels. METHODS: Twenty healthy individuals indicative for implant-retained single restorations were investigated. Half of participants were restored with titanium and half with zirconia abutments. Biofilm was collected from the implant-related sites after 1, 3, and 6 months of loading...
January 18, 2018: Clinical Oral Investigations
https://www.readbyqxmd.com/read/29349441/association-between-sn-2-fatty-acid-profiles-of-breast-milk-and-development-of-the-infant-intestinal-microbiome
#10
Tiemin Jiang, Bin Liu, Jufang Li, Xueyan Dong, Man Lin, Minghui Zhang, Junying Zhao, Yaohua Dai, Lijun Chen
Increasing evidence shows that host diet and gut microbes are related. Previous studies have shown the effects of specific dietary fatty acids (FAs) on intestinal microbiota, but little is known about the effect of the stereospecifically numbered sn-2 position in triglycerides (TG) of human milk on the gut microbiome of infants. This study aimed at examining possible effects of sn-2 FAs of human milk on the gut microbial development of breastfeeding babies. Sn-2 FAs and intestinal microbiota were assessed by GC-MS and high-throughput 16S rRNA sequencing, respectively...
January 19, 2018: Food & Function
https://www.readbyqxmd.com/read/29348922/taxonogenomic-description-of-four-new-clostridium-species-isolated-from-human-gut-clostridium-amazonitimonense-clostridium-merdae-clostridium-massilidielmoense-and-clostridium-nigeriense
#11
M T Alou, S Ndongo, L Frégère, N Labas, C Andrieu, M Richez, C Couderc, J-P Baudoin, J Abrahão, S Brah, A Diallo, C Sokhna, N Cassir, B La Scola, F Cadoret, D Raoult
Culturomics investigates microbial diversity of the human microbiome by combining diversified culture conditions, matrix-assisted laser desorption/ionization time-of-flight mass spectrometry and 16S rRNA gene identification. The present study allowed identification of four putative new Clostridium sensu stricto species: 'Clostridium amazonitimonense' strain LF2T, 'Clostridium massilidielmoense' strain MT26T, 'Clostridium nigeriense' strain Marseille-P2414T and 'Clostridium merdae' strain Marseille-P2953T, which we describe using the concept of taxonogenomics...
January 2018: New Microbes and New Infections
https://www.readbyqxmd.com/read/29348587/comparative-analyses-of-fecal-microbiota-in-chinese-isolated-yao-population-minority-zhuang-and-rural-han-by-16srna-sequencing
#12
Ming Liao, Yuanliang Xie, Yan Mao, Zheng Lu, Aihua Tan, Chunlei Wu, Zhifu Zhang, Yang Chen, Tianyu Li, Yu Ye, Ziting Yao, Yonghua Jiang, Hongzhe Li, Xiaoming Li, Xiaobo Yang, Qiuyan Wang, Zengnan Mo
The gut microbiome in humans is associated with geography, diet, lifestyles and so on, but its relationship with some isolated populations is not clear. We used the 16sRNA technique to sequence the fecal microbiome in the Chinese isolated Yao population and compared it with the major minority Zhuang and the major ethnic Han populations living in the same rural area. Information about diet frequency and health status and routine serum measurements were collected. The unweighted UniFrac principal coordinates analysis showed significant structural differences in fecal microbiota among the three ethnic groups...
January 18, 2018: Scientific Reports
https://www.readbyqxmd.com/read/29348256/flavonoids-dairy-foods-and-cardiovascular-and-metabolic-health-a-review-of-emerging-biologic-pathways
#13
REVIEW
Dariush Mozaffarian, Jason H Y Wu
A growing body of nutritional science highlights the complex mechanisms and pleiotropic pathways of cardiometabolic effects of different foods. Among these, some of the most exciting advances are occurring in the area of flavonoids, bioactive phytochemicals found in plant foods; and in the area of dairy, including milk, yogurt, and cheese. Many of the relevant ingredients and mechanistic pathways are now being clarified, shedding new light on both the ingredients and the pathways for how diet influences health and well-being...
January 19, 2018: Circulation Research
https://www.readbyqxmd.com/read/29347966/reprdb-and-pandb-minimalist-databases-with-maximal-microbial-representation
#14
Wei Zhou, Nicole Gay, Julia Oh
BACKGROUND: Profiling of shotgun metagenomic samples is hindered by a lack of unified microbial reference genome databases that (i) assemble genomic information from all open access microbial genomes, (ii) have relatively small sizes, and (iii) are compatible to various metagenomic read mapping tools. Moreover, computational tools to rapidly compile and update such databases to accommodate the rapid increase in new reference genomes do not exist. As a result, database-guided analyses often fail to profile a substantial fraction of metagenomic shotgun sequencing reads from complex microbiomes...
January 18, 2018: Microbiome
https://www.readbyqxmd.com/read/29346623/a-large-scale-field-study-of-bacterial-communities-in-cereal-aphid-populations-across-morocco
#15
Samir Fakhour, Jérôme Ambroise, François Renoz, Vincent Foray, Jean-Luc Gala, Thierry Hance
Insects are frequently associated with bacteria that can have significant ecological and evolutionary impacts on their hosts. To date, few studies have examined the influence of environmental factors to microbiome composition of aphids. The current work assessed the diversity of bacterial communities of five cereal aphid species (Sitobion avenae, Rhopalosiphum padi, R. maidis, Sipha maydis and Diuraphis noxia) collected across Morocco and covering a wide range of environmental conditions. We aimed to test whether symbiont combinations are host or environment specific...
January 16, 2018: FEMS Microbiology Ecology
https://www.readbyqxmd.com/read/29346509/a-distance-based-approach-for-testing-the-mediation-effect-of-the-human-microbiome
#16
Jie Zhang, Zhi Wei, Jun Chen
Motivation: Recent studies have revealed a complex interplay between environment, the human microbiome, and health and disease. Mediation analysis of the human microbiome in these complex relationships could potentially provide insights into the role of the microbiome in the etiology of disease and, more importantly, lead to novel clinical interventions by modulating the microbiome. However, due to the high dimensionality, sparsity, non-normality and phylogenetic structure of microbiome data, none of the existing methods are suitable for testing such clinically important mediation effect...
January 15, 2018: Bioinformatics
https://www.readbyqxmd.com/read/29346438/colonization-of-the-cervicovaginal-space-with-gardnerella-vaginalis-leads-to-local-inflammation-and-cervical-remodeling-in-pregnant-mice
#17
Luz-Jeannette Sierra, Amy G Brown, Guillermo O Barilá, Lauren Anton, Carrie E Barnum, Snehal S Shetye, Louis J Soslowsky, Michal A Elovitz
The role of the cervicovaginal (CV) microbiome in regulating cervical function during pregnancy is poorly understood. Gardnerella vaginalis (G. vaginalis) is the most common bacteria associated with the diagnosis of bacterial vaginosis (BV). While BV has been associated with preterm birth (PTB), clinical trials targeting BV do not decrease PTB rates. It remains unknown if G. vaginalis is capable of triggering molecular, biomechanical and cellular events that could lead to PTB. The objective of this study was to determine if cervicovaginal colonization with G...
2018: PloS One
https://www.readbyqxmd.com/read/29346420/initial-acquisition-and-succession-of-the-cystic-fibrosis-lung-microbiome-is-associated-with-disease-progression-in-infants-and-preschool-children
#18
Marianne S Muhlebach, Bryan T Zorn, Charles R Esther, Joseph E Hatch, Conor P Murray, Lidija Turkovic, Sarath C Ranganathan, Richard C Boucher, Stephen M Stick, Matthew C Wolfgang
The cystic fibrosis (CF) lung microbiome has been studied in children and adults; however, little is known about its relationship to early disease progression. To better understand the relationship between the lung microbiome and early respiratory disease, we characterized the lower airways microbiome using bronchoalveolar lavage (BAL) samples obtained from clinically stable CF infants and preschoolers who underwent bronchoscopy and chest computed tomography (CT). Cross-sectional samples suggested a progression of the lower airways microbiome with age, beginning with relatively sterile airways in infancy...
January 2018: PLoS Pathogens
https://www.readbyqxmd.com/read/29345635/genetic-risk-dysbiosis-and-treatment-stratification-using-host-genome-and-gut-microbiome-in-inflammatory-bowel-disease
#19
Ahmed Moustafa, Weizhong Li, Ericka L Anderson, Emily H M Wong, Parambir S Dulai, William J Sandborn, William Biggs, Shibu Yooseph, Marcus B Jones, J Craig Venter, Karen E Nelson, John T Chang, Amalio Telenti, Brigid S Boland
OBJECTIVES: Inflammatory bowel diseases (IBD), comprised of Crohn's disease (CD) and ulcerative colitis (UC), are characterized by a complex pathophysiology that is thought to result from an aberrant immune response to a dysbiotic luminal microbiota in genetically susceptible individuals. New technologies support the joint assessment of host-microbiome interaction. METHODS: Using whole genome sequencing and shotgun metagenomics, we studied the clinical features, host genome, and stool microbial metagenome of 85 IBD patients, and compared the results to 146 control individuals...
January 18, 2018: Clinical and Translational Gastroenterology
https://www.readbyqxmd.com/read/29345366/interactions-between-the-microbiota-and-innate-and-innate-like-lymphocytes
#20
REVIEW
Michael G Constantinides
The microbiota, which consists of commensal bacteria, fungi, and viruses, limits the colonization of pathogens at barrier tissues and promotes immune homeostasis. The latter is accomplished through the induction and regulation of both innate and adaptive immune responses. Innate lymphocytes, which include the type-1 innate lymphoid cell (ILC1), NK cell, type-2 innate lymphoid cell (ILC2), type-3 innate lymphoid cell (ILC3), and lymphoid tissue inducer (LTi) cell populations, and innate-like lymphocytes, such as NKT cells, mucosal-associated invariant T (MAIT) cells, and γδ T cells, are uniquely capable of responding to the microbiota due to their tissue localization and rapid primary responses...
December 20, 2017: Journal of Leukocyte Biology
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