keyword
MENU ▼
Read by QxMD icon Read
search

16S rRNA

keyword
https://www.readbyqxmd.com/read/29333583/the-microbial-community-of-tardigrades-environmental-influence-and-species-specificity-of-microbiome-structure-and-composition
#1
Matteo Vecchi, Irene L G Newton, Michele Cesari, Lorena Rebecchi, Roberto Guidetti
Symbiotic associations of metazoans with bacteria strongly influence animal biology since bacteria are ubiquitous and virtually no animal is completely free from them. Tardigrades are micrometazoans famous for their ability to undergo ametabolic states (cryptobiosis) but very little information is available on potential microbial associations. We characterized the microbiomes of six limnoterrestrial tardigrade species belonging to several phylogenetic lines in tandem with the microbiomes of their respective substrates...
January 15, 2018: Microbial Ecology
https://www.readbyqxmd.com/read/29333479/oral-microbiome-characterization-in-murine-models
#2
Loreto Abusleme, Bo-Young Hong, Anilei Hoare, Joanne E Konkel, Patricia I Diaz, Niki M Moutsopoulos
The oral microbiome has been implicated as a trigger for immune responsiveness in the oral cavity, particularly in the setting of the inflammatory disease periodontitis. The protocol presented here is aimed at characterizing the oral microbiome in murine models at steady state and during perturbations of immunity or physiology. Herein, we describe murine oral microbiome sampling procedures, processing of low biomass samples and subsequent microbiome characterization based on 16S rRNA gene sequencing.
December 20, 2017: Bio-protocol
https://www.readbyqxmd.com/read/29331569/salinivibrio-kushneri-sp-nov-a-moderately-halophilic-bacterium-isolated-from-salterns
#3
Clara López-Hermoso, Rafael R de la Haba, Cristina Sánchez-Porro, Antonio Ventosa
Ten Gram-strain-negative, facultatively anaerobic, moderately halophilic bacterial strains, designated AL184T, IB560, IB563, IC202, IC317, MA421, ML277, ML318, ML328A and ML331, were isolated from water ponds of five salterns located in Spain. The cells were motile, curved rods and oxidase and catalase positive. All of them grew optimally at 37°C, at pH 7.2-7.4 and in the presence of 7.5% (w/v) NaCl. Based on phylogenetic analyses of the 16S rRNA, the isolates were most closely related to Salinivibrio sharmensis BAGT (99...
December 21, 2017: Systematic and Applied Microbiology
https://www.readbyqxmd.com/read/29331497/dietary-antioxidant-micronutrients-alter-mucosal-inflammatory-risk-in-a-murine-model-of-genetic-and-microbial-susceptibility
#4
Joseph F Pierre, Reinhard Hinterleitner, Romain Bouziat, Nathan A Hubert, Vanessa Leone, Jun Miyoshi, Bana Jabri, Eugene B Chang
Inflammatory bowel diseases (IBD) are caused by the convergence of microbial, environmental, and genetic factors. Diet significantly alters these interactions by affecting both the host and microbiome. Using a mucosal inflammatory model that resembles the human condition of ileal pouchitis, we investigated the effects of Control (CONT) or Antioxidant (AOX) diet, containing pharmacologically relevant levels of 4 micronutrients, on disease risk in wild-type and IL-10-/- animals following surgical self-filling (SF) ileal blind loop placement...
December 10, 2017: Journal of Nutritional Biochemistry
https://www.readbyqxmd.com/read/29331466/high-grain-diets-supplemented-with-phytogenic-compounds-or-autolyzed-yeast-modulate-ruminal-bacterial-community-and-fermentation-in-dry-cows
#5
V Neubauer, R Petri, E Humer, I Kröger, E Mann, N Reisinger, M Wagner, Q Zebeli
The feeding of concentrate-rich diets may lead to microbial imbalances and dysfermentation in the rumen. The main objective of this study was to determine the effects of supplementing phytogenic compounds (PHY) or autolyzed yeast (AY) on rumen fermentation and microbial abundance in cows intermittently fed concentrate-rich diets. The experiment was carried out as an incomplete 3 × 4 Latin square design, with 8 nonlactating rumen-fistulated Holstein-Friesian cows. The cows were randomly assigned to a concentrate diet that was either not supplemented (CON), or supplemented with PHY or AY...
January 10, 2018: Journal of Dairy Science
https://www.readbyqxmd.com/read/29330819/preparation-of-a-synthetic-seed-for-the-common-reed-harboring-an-endophytic-bacterium-promoting-seedling-growth-under-cadmium-stress
#6
Ting Gao, Xianyang Shi
Bacterial seed endophytes can facilitate germination and early plant development. Therefore, the introduction of seed-borne endophytes may improve selected plant characteristics across generations. In this study, regenerated plantlets of common reed (Phragmites australis) were inoculated with activated sludge to obtain a specific functional endophytic bacterium. Denaturing gradient gel electrophoresis demonstrated that abundant endophytic bacteria could be enriched in the roots. A siderophore-producing endophytic bacterium was isolated from the roots and identified as Herbaspirillum frisingense RE3-3 based on 16S rRNA sequences...
January 12, 2018: Environmental Science and Pollution Research International
https://www.readbyqxmd.com/read/29330494/characterizing-the-bacterial-microbiota-in-different-gastrointestinal-tract-segments-of-the-bactrian-camel
#7
Jing He, Li Yi, Le Hai, Liang Ming, Wanting Gao, Rimutu Ji
The bacterial community plays important roles in the gastrointestinal tracts (GITs) of animals. However, our understanding of the microbial communities in the GIT of Bactrian camels remains limited. Here, we describe the bacterial communities from eight different GIT segments (rumen, reticulum, abomasum, duodenum, ileum, jejunum, caecum, colon) and faeces determined from 11 Bactrian camels using 16S rRNA gene amplicon sequencing. Twenty-seven bacterial phyla were found in the GIT, with Firmicutes, Verrucomicrobia and Bacteroidetes predominating...
January 12, 2018: Scientific Reports
https://www.readbyqxmd.com/read/29330433/effect-of-atorvastatin-on-the-gut-microbiota-of-high-fat-diet-induced-hypercholesterolemic-rats
#8
Tariq Jamal Khan, Youssri M Ahmed, Mazin A Zamzami, Saleh A Mohamed, Imran Khan, Othman A S Baothman, Mohamed G Mehanna, Muhammad Yasir
The aim of the present study was to investigate alterations in gut microbiota associated with hypercholesterolemia and treatment with atorvastatin, a commonly prescribed cholesterol-lowering drug. In this study, seven experimental groups of rats were developed based on diets [high-fat diet (HFD) and normal chow diet (NCD)] and various doses of atorvastatin in HFD and NCD groups. 16S rRNA amplicon sequencing was used to analyze the gut microbiota. Atorvastatin significantly reduced the cholesterol level in treated rats...
January 12, 2018: Scientific Reports
https://www.readbyqxmd.com/read/29330190/influence-of-pig-farming-on-the-human-s-nasal-microbiota-the-key-role-of-the-airborne-microbial-communities
#9
Julia G Kraemer, Alban Ramette, Suzanne Aebi, Anne Oppliger, Markus Hilty
It has been hypothesized that the environment can influence the composition of the nasal microbiota. However, the direct influence of pig farming on the anterior and posterior nasal microbiota is unknown. Using a cross-sectional design, pig farms (n=28) were visited in 2014-2015 and nasal swabs from 43 pig farmers and 56 pigs as well as 27 air samples taken in the vicinity of pig enclosure were collected. As controls, nasal swabs from 17 cow farmers and 26 non-animal exposed individuals were also included. Analyses of the microbiota were performed based on 16S rRNA amplicon sequencing and the DADA2 pipeline to define sequence variants (SVs)...
January 12, 2018: Applied and Environmental Microbiology
https://www.readbyqxmd.com/read/29330187/acquisition-of-a-novel-sulfur-oxidizing-symbiont-in-the-gutless-marine-worm-inanidrilus-exumae
#10
C Bergin, C Wentrup, N Brewig, A Blazejak, C Erséus, O Giere, M Schmid, P De Wit, N Dubilier
Gutless phallodrilines are marine annelid worms without a mouth or gut, which live in an obligate association with multiple bacterial endosymbionts that supply them with nutrition. In this study, we discovered an unusual symbiont community in the gutless phallodriline Inanidrilus exumae that differs markedly from the microbiome of all other 22 examined host species. Comparative 16S rRNA gene sequence analysis and fluorescence in situ hybridization revealed that I. exumae harboured co-occurring gamma-, alpha- and deltaproteobacterial symbionts, while all other known host species harbour gamma- and either alpha- or deltaproteobacterial symbionts...
January 12, 2018: Applied and Environmental Microbiology
https://www.readbyqxmd.com/read/29330010/nasopharyngeal-lactobacillus-is-associated-with-childhood-wheezing-illnesses-following-acute-respiratory-syncytial-virus-infection-in-infancy
#11
Christian Rosas-Salazar, Meghan H Shilts, Andrey Tovchigrechko, Seth Schobel, James D Chappell, Emma K Larkin, Tebeb Gebretsadik, Rebecca A Halpin, Karen E Nelson, Martin L Moore, Larry J Anderson, R Stokes Peebles, Suman R Das, Tina V Hartert
BACKGROUND: Early-life acute respiratory infection (ARI) with respiratory syncytial virus (RSV) has been strongly associated with the development of childhood wheezing illnesses, but the pathways underlying this association are poorly understood. OBJECTIVE: To examine the role of the nasopharyngeal microbiome in the development of childhood wheezing illnesses following RSV ARI in infancy. METHODS: We conducted a nested cohort study of 118 previously healthy, term infants with confirmed RSV ARI by RT-PCR...
January 9, 2018: Journal of Allergy and Clinical Immunology
https://www.readbyqxmd.com/read/29329757/challenges-of-francisella-classification-exemplified-by-an-atypical-clinical-isolate
#12
L M Matz, K Y Kamdar, M E Holder, G A Metcalf, G M Weissenberger, Q Meng, V Vee, Y Han, D M Muzny, R A Gibbs, C L Johnson, P A Revell, J F Petrosino
The accumulation of sequenced Francisella strains has made it increasingly apparent that the 16S rRNA gene alone is not enough to stratify the Francisella genus into precise and clinically useful classifications. Continued whole-genome sequencing of isolates will provide a larger base of knowledge for targeted approaches with broad applicability. Additionally, examination of genomic information on a case-by-case basis will help resolve outstanding questions regarding strain stratification. We report the complete genome sequence of a clinical isolate, designated here as F...
December 6, 2017: Diagnostic Microbiology and Infectious Disease
https://www.readbyqxmd.com/read/29329346/evaluation-of-bloodstream-infections-clostridium-difficile-infections-and-gut-microbiota-in-pediatric-oncology-patients
#13
Bryan T Nycz, Samuel R Dominguez, Deborah Friedman, Joanne M Hilden, Diana Ir, Charles E Robertson, Daniel N Frank
Bloodstream infections (BSI) and Clostridium difficile infections (CDI) in pediatric oncology/hematology/bone marrow transplant (BMT) populations are associated with significant morbidity and mortality. The objective of this study was to explore possible associations between altered microbiome composition and the occurrence of BSI and CDI in a cohort of pediatric oncology patients. Stool samples were collected from all patients admitted to the pediatric oncology floor from Oct.-Dec. 2012. Bacterial profiles from patient stools were determined by bacterial 16S rRNA gene profiling...
2018: PloS One
https://www.readbyqxmd.com/read/29327963/antemortem-diagnosis-of-coxiellosis-in-a-blue-and-gold-macaw-ara-ararauna
#14
Alison J Flanders, Justin F Rosenberg, Marjorie Bercier, Mary K Leissinger, Laura J Black, Robson F Giglio, Serena L M Craft, Whitney M Zoll, April L Childress, James F X Wellehan
A 15-year-old female blue and gold macaw ( Ara ararauna) was presented for evaluation after being found laterally recumbent, reluctant to move, and lethargic. Results of a complete blood count showed an increased number of immature heterophils with increased cytoplasmic basophilia and degranulation and the presence of a left shift. Radiographs and a computed tomography scan were performed and revealed a markedly enlarged spleen. An ultrasound-guided fine-needle aspirate of the spleen was submitted for cytologic examination and aerobic bacterial culture...
December 2017: Journal of Avian Medicine and Surgery
https://www.readbyqxmd.com/read/29327645/identification-and-characterization-of-chitinolytic-bacteria-isolated-from-a-freshwater-lake
#15
Dinh Minh Tran, Hayuki Sugimoto, Dzung Anh Nguyen, Takeshi Watanabe, Kazushi Suzuki
To develop a novel type of biocontrol agent, we focus on bacteria that are characterized by both chitinase activity and biofilm development. Chitinolytic bacteria were isolated from sediments and chitin flakes immersed in the water of a sand dune lake, Sakata, in Niigata, Japan. Thirty-one isolates from more than 5100 isolated strains were examined chitinase activity and biofilm formation. Phylogenetic analysis of these isolates based on the 16S rRNA gene sequences revealed that most isolates belonged to the family Aeromonadaceae, followed by Paenibacillaceae, Enterobacteriaceae, and Neisseriaceae...
January 12, 2018: Bioscience, Biotechnology, and Biochemistry
https://www.readbyqxmd.com/read/29327500/multiplex-polymerase-chain-reaction-detection-of-selected-bacterial-species-from-symptomatic-and-asymptomatic-non-vital-teeth-with-primary-endodontic-infections
#16
Smita Pattanshetty, Vijayalakshmi S Kotrashetti, Kishore Bhat, Ramakant S Nayak, Pradeep Somannavar, Madhu Pujar
AIM: The aim of the present study was to investigate the presence of selective anaerobic microorganisms in primary root canal infections of symptomatic and asymptomatic non-vital teeth with periapical pathosis using multiplex polymerase chain reaction. METHODS: A total of 100 root canal samples (50 from symptomatic and 50 from asymptomatic teeth) were obtained from patients with primary endodontic infections. DNA extracted from the samples was amplified by using specific primers for the 16S rRNA gene of each bacterium, and semiquantification was done to analyze the prevalence of microorganisms and their correlation to clinical features...
January 11, 2018: Journal of Investigative and Clinical Dentistry
https://www.readbyqxmd.com/read/29327333/streptomyces-flavalbus-sp-nov-an-actinobacterium-isolated-from-rhizosphere-of-maize-zea-mays-l
#17
Tingting Cao, Yibo Shen, Junwei Zhao, Chongxi Liu, Xueli Zhao, Liying Jin, Yanjie Li, Xiangjing Wang, Wensheng Xiang
A novel actinobacterium, designated strain NEAU-QY24T, was isolated from the rhizosphere of corn (Zea mays L.). A polyphasic approach was employed to determine the taxonomic status of strain NEAU-QY24T. The isolate was found to have chemical and morphological properties of the genus Streptomyces, with high 16S rRNA gene sequence similarity to Streptomyces lanatus JCM 4332T (98.3%) and clustered phylogenetically with Streptomyces lannensis JCM 16578T (98.2%). The cell wall was found to contain meso-diaminopimelic acid and the whole cell sugars were identified as glucose and ribose...
January 11, 2018: Antonie Van Leeuwenhoek
https://www.readbyqxmd.com/read/29327263/proton-pump-inhibitors-increase-the-susceptibility-of-mice-to-oral-infection-with-enteropathogenic-bacteria
#18
Eiichiro Yasutomi, Namiko Hoshi, Soichiro Adachi, Takafumi Otsuka, Lingling Kong, Yuna Ku, Haruka Yamairi, Jun Inoue, Tsukasa Ishida, Daisuke Watanabe, Makoto Ooi, Masaru Yoshida, Tomoya Tsukimi, Shinji Fukuda, Takeshi Azuma
BACKGROUND AND AIMS: Proton pump inhibitors (PPIs) are among the most frequently prescribed medications. Side effects including an increased risk of intestinal infections have been reported. It is assumed that PPIs can increase susceptibility to enteropathogens; however, the underlying mechanisms are unknown. Here in this study, we explored whether Lansoprazole (Laz), one of the PPIs, increases the susceptibility to enteropathogens, and further investigated the mechanism of it. METHODS: Mice were administered Laz intraperitoneally once daily and orally infected with Citrobacter rodentium (C...
January 11, 2018: Digestive Diseases and Sciences
https://www.readbyqxmd.com/read/29327043/association-of-oral-microbiome-with-risk-for-incident-head-and-neck-squamous-cell-cancer
#19
Richard B Hayes, Jiyoung Ahn, Xiaozhou Fan, Brandilyn A Peters, Yingfei Ma, Liying Yang, Ilir Agalliu, Robert D Burk, Ian Ganly, Mark P Purdue, Neal D Freedman, Susan M Gapstur, Zhiheng Pei
Importance: Case-control studies show a possible relationship between oral bacteria and head and neck squamous cell cancer (HNSCC). Prospective studies are needed to examine the temporal relationship between oral microbiome and subsequent risk of HNSCC. Objective: To prospectively examine associations between the oral microbiome and incident HNSCC. Design, Setting, and Participants: This nested case-control study was carried out in 2 prospective cohort studies: the American Cancer Society Cancer Prevention Study II Nutrition Cohort (CPS-II) and the Prostate, Lung, Colorectal, and Ovarian Cancer Screening Trial (PLCO)...
January 11, 2018: JAMA Oncology
https://www.readbyqxmd.com/read/29325988/arboriscoccus-pini-gen-nov-sp-nov-an-endophyte-from-a-pine-tree-of-the-class-alphaproteobacteria-emended-description-of-geminicoccus-roseus-and-proposal-of-geminicoccaceae-fam-nov
#20
Diogo N Proença, William B Whitman, Neha Varghese, Nicole Shapiro, Tanja Woyke, Nikos C Kyrpides, Paula V Morais
Bacterial strain B29T1T was isolated from the endophytic microbial community of a Pinus pinaster tree trunk and characterized. Strain B29T1T stained Gram-negative and formed diplococci that grew optimally at 26-30°C and at pH 6.0-7.0. The G+C content of the DNA was 61.6mol%. The respiratory quinone was ubiquinone 10 (UK-10), and the major fatty acids were C16:0, cyclo-C19:0ω8c and C18:0 12-methyl, representing 64% of the total fatty acids. Phylogenetic analyses based on the 16S rRNA gene sequences placed strain B29T1T within the order Rhodospirillales in a distinct lineage that also included the genus Geminicoccus...
December 22, 2017: Systematic and Applied Microbiology
keyword
keyword
77342
1
2
Fetch more papers »
Fetching more papers... Fetching...
Read by QxMD. Sign in or create an account to discover new knowledge that matter to you.
Remove bar
Read by QxMD icon Read
×

Search Tips

Use Boolean operators: AND/OR

diabetic AND foot
diabetes OR diabetic

Exclude a word using the 'minus' sign

Virchow -triad

Use Parentheses

water AND (cup OR glass)

Add an asterisk (*) at end of a word to include word stems

Neuro* will search for Neurology, Neuroscientist, Neurological, and so on

Use quotes to search for an exact phrase

"primary prevention of cancer"
(heart or cardiac or cardio*) AND arrest -"American Heart Association"