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https://www.readbyqxmd.com/read/28651337/preliminary-validation-of-a-method-combining-cultivation-and-cloning-based-approaches-to-monitor-airborne-bacteria
#1
Jenny Schäfer, Sarah Weiß, Udo Jäckel
It is already known that occupational exposure to bioaerosols or organic dust could be harmful for occupants, but mostly the correlation to occurring bacteria is missing. Especially, cultivation of bacteria from bioaerosols is important to get an insight on occurring and possibly infectious bacteria. These measures are highly time consuming and cost intensive. Therefore, to monitor bacterial diversity in bioaerosol samples and to avoid isolation procedures, an approach was applied using a combination of cultivation and cloning-based approach...
June 23, 2017: Annals of Work Exposures and Health
https://www.readbyqxmd.com/read/28651326/heterogeneity-in-cultivation-based-monitoring-of-airborne-bacterial-biodiversity-in-animal-farms
#2
Udo Jäckel, Elena Martin, Jenny Schäfer
Diversity analyses of bioaerosol samples from highly loaded workplaces as found in agricultural production or waste management help to improve the knowledge of exposure levels of workers. However, different used methods resulting in the detection of different bacterial species at the same work places. The present study obviously supports the deviation of received results using cultivation and further isolation approaches. Within the present study, the bacterial community at workplaces was estimated using the powerful tool of 16S rRNA gene sequence analyses after cultivation procedure...
June 23, 2017: Annals of Work Exposures and Health
https://www.readbyqxmd.com/read/28650978/a-study-of-ticks-and-tick-borne-livestock-pathogens-in-pakistan
#3
Shahid Karim, Khemraj Budachetri, Nabanita Mukherjee, Jaclyn Williams, Asma Kausar, Muhammad Jawadul Hassan, Steven Adamson, Scot E Dowd, Dmitry Apanskevich, Abdullah Arijo, Zia Uddin Sindhu, Muhammad Azam Kakar, Raja Muhammad Dilpazir Khan, Shafiq Ullah, Muhammad Sohail Sajid, Abid Ali, Zafar Iqbal
BACKGROUND: As obligate blood-feeding arthropods, ticks transmit pathogens to humans and domestic animals more often than other arthropod vectors. Livestock farming plays a vital role in the rural economy of Pakistan, and tick infestation causes serious problems with it. However, research on tick species diversity and tick-borne pathogens has rarely been conducted in Pakistan. In this study, a systematic investigation of the tick species infesting livestock in different ecological regions of Pakistan was conducted to determine the microbiome and pathobiome diversity in the indigenous ticks...
June 26, 2017: PLoS Neglected Tropical Diseases
https://www.readbyqxmd.com/read/28650741/microbial-culturomics-application-for-global-health-noncontiguous-finished-genome-sequence-and-description-of-pseudomonas-massiliensis-strain-cb-1-t-sp-nov-in-brazil
#4
Lucie Bardet, Teresa Cimmino, Clémence Buffet, Caroline Michelle, Jaishriram Rathored, Fatalmoudou Tandina, Jean-Christophe Lagier, Saber Khelaifia, Jônatas Abrahão, Didier Raoult, Jean-Marc Rolain
Culturomics is a new postgenomics field that explores the microbial diversity of the human gut coupled with taxono-genomic strategy. Culturomics, and the microbiome science more generally, are anticipated to transform global health diagnostics and inform the ways in which gut microbial diversity contributes to human health and disease, and by extension, to personalized medicine. Using culturomics, we report in this study the description of strain CB1(T) ( = CSUR P1334 = DSM 29075), a new species isolated from a stool specimen from a 37-year-old Brazilian woman...
June 26, 2017: Omics: a Journal of Integrative Biology
https://www.readbyqxmd.com/read/28650314/natrinema-soli-sp-nov-a-novel-halophilic-archaeon-isolated-from-a-hypersaline-wetland
#5
Mehrnoosh Rasooli, Ali Naghoni, Mohammad Ali Amoozegar, Leila Mirfeizi, Mahdi Moshtaghi Nikou, Seyed Abolhassan Shahzadeh Fazeli, Hiroaki Minegishi, Antonio Ventosa
An extremely halophilic archaeon, designated strain 5-3T, was isolated from a soil sample of Meighan wetland in Iran. Strain 5-3T was strictly aerobic, catalase-positive and oxidase-negative. Cells were Gram-stain-negative, non-motile and ovoid. Colonies of strain 5-3T were cream-coloured. The isolate showed optimum growth at 4.0 M NaCl, 40 °C and pH 7.0. The major polar lipids of the strain were phosphatidylglycerol, phosphatidylglycerol phosphate methyl ester, two unknown phospholipids and three glycolipids (including one that was chromatographically identical to S2-DGD)...
June 26, 2017: International Journal of Systematic and Evolutionary Microbiology
https://www.readbyqxmd.com/read/28649469/distinct-patterns-in-the-gut-microbiota-after-surgical-or-medical-therapy-in-obese-patients
#6
Daniel A Medina, Juan P Pedreros, Dannae Turiel, Nicolas Quezada, Fernando Pimentel, Alex Escalona, Daniel Garrido
Bariatric surgery is highly successful in improving health compared to conventional dietary treatments. It has been suggested that the gut microbiota is a relevant factor in weight loss after bariatric surgery. Considering that bariatric procedures cause different rearrangements of the digestive tract, they probably have different effects on the gut microbiota. In this study, we compared the impact of medical treatment, sleeve gastrectomy and Roux-en-Y gastric bypass on the gut microbiota from obese subjects...
2017: PeerJ
https://www.readbyqxmd.com/read/28649414/characterisation-and-comparison-of-bacterial-communities-on-reverse-osmosis-membranes-of-a-full-scale-desalination-plant-by-bacterial-16s-rrna-gene-metabarcoding
#7
Veena Nagaraj, Lucy Skillman, Goen Ho, Dan Li, Alexander Gofton
Microbiomes of full-scale seawater reverse osmosis membranes are complex and subject to variation within and between membrane units. The pre-existing bacterial communities of unused membranes before operation have been largely ignored in biofouling studies. This study is novel as unused membranes were used as a critical benchmark for comparison. Fouled seawater reverse osmosis membrane biofilm communities from an array of autopsied membrane samples, following a 7-year operational life-span in a full-scale desalination plant in Western Australia, were characterised by 16S rRNA gene metabarcoding using the bacterial primers 515F and 806R...
2017: NPJ Biofilms and Microbiomes
https://www.readbyqxmd.com/read/28649406/architecture-component-and-microbiome-of-biofilm-involved-in-the-fouling-of-membrane-bioreactors
#8
Tomohiro Inaba, Tomoyuki Hori, Hidenobu Aizawa, Atsushi Ogata, Hiroshi Habe
Biofilm formation on the filtration membrane and the subsequent clogging of membrane pores (called biofouling) is one of the most persistent problems in membrane bioreactors for wastewater treatment and reclamation. Here, we investigated the structure and microbiome of fouling-related biofilms in the membrane bioreactor using non-destructive confocal reflection microscopy and high-throughput Illumina sequencing of 16S rRNA genes. Direct confocal reflection microscopy indicated that the thin biofilms were formed and maintained regardless of the increasing transmembrane pressure, which is a common indicator of membrane fouling, at low organic-loading rates...
2017: NPJ Biofilms and Microbiomes
https://www.readbyqxmd.com/read/28649403/inter-personal-diversity-and-temporal-dynamics-of-dental-tongue-and-salivary-microbiota-in-the-healthy-oral-cavity
#9
Michael W Hall, Natasha Singh, Kester F Ng, David K Lam, Michael B Goldberg, Howard C Tenenbaum, Josh D Neufeld, Robert G Beiko, Dilani B Senadheera
Oral microbes form a complex and dynamic biofilm community, which is subjected to daily host and environmental challenges. Dysbiosis of the oral biofilm is correlated with local and distal infections and postulating a baseline for the healthy core oral microbiota provides an opportunity to examine such shifts during the onset and recurrence of disease. Here we quantified the daily, weekly, and monthly variability of the oral microbiome by sequencing the largest oral microbiota time-series to date, covering multiple oral sites in ten healthy individuals...
2017: NPJ Biofilms and Microbiomes
https://www.readbyqxmd.com/read/28649305/emerging-microbiota-during-cold-storage-and-temperature-abuse-of-ready-to-eat-salad%C3%A2
#10
Karin Söderqvist, Omneya Ahmed Osman, Cecilia Wolff, Stefan Bertilsson, Ivar Vågsholm, Sofia Boqvist
Introduction: Ready-to-eat (RTE) leafy vegetables have a natural leaf microbiota that changes during different processing and handling steps from farm to fork. The objectives of this study were (i) to compare the microbiota of RTE baby spinach and mixed-ingredient salad before and after seven days of storage at 8°C or 15°C; (ii) to explore associations between bacterial communities and the foodborne pathogens Listeria monocytogenes, pathogenic Yersinia enterocolitica, and pathogen model organism Escherichia coli O157:H7 gfp+ when experimentally inoculated into the salads before storage; and (iii) to investigate if bacterial pathogens may be detected in the 16S rRNA amplicon dataset...
2017: Infection Ecology & Epidemiology
https://www.readbyqxmd.com/read/28648853/next-generation-sequencing-of-oral-microbiota-in-type-2-diabetes-mellitus-prior-to-and-after-neem-stick-usage-and-correlation-with-serum-monocyte-chemoattractant-1
#11
Rubini Anbalagan, Padma Srikanth, Monika Mani, Ramya Barani, Krishna G Seshadri, R Janarthanan
INTRODUCTION: Oral microbiome impacts health and disease. T2DM and periodontitis are associated. Neem (Azadiracta indica) has antibacterial activity against oral microbiota. OBJECTIVES: To characterize oral microbiota (OMB) in saliva samples of T2DM patients by Next generation sequencing. To analyze MCP-1 levels among the T2DM patients before and after a month of neem stick usage as a toothbrush. MATERIALS AND METHODS: Blood and saliva samples were collected from adult T2DM patients before and after the neem stick usage...
June 13, 2017: Diabetes Research and Clinical Practice
https://www.readbyqxmd.com/read/28648725/thaumasiovibrio-occultus-gen-nov-sp-nov-and-thaumasiovibrio-subtropicus-sp-nov-within-the-family-vibrionaceae-isolated-from-coral-reef-seawater-off-ishigaki-island-japan
#12
A K M Rohul Amin, Mami Tanaka, Nurhidayu Al-Saari, Gao Feng, Sayaka Mino, Yoshitoshi Ogura, Tetsuya Hayashi, Pedro M Meirelles, Fabiano L Thompson, Bruno Gomez-Gil, Toko Sawabe, Tomoo Sawabe
Two phylogenetically distinct Vibrionaceae strains C4II189(T) and C4V358(T) isolated from reef seawater off Ishigaki Island, Japan, in 2014 were studied with advanced genome-based taxonomy approaches. All aspects of phylogenetic (16S rRNA phylogeny, MLSA), phenotypic and genetic (ANI, DDH, AAI, and the number of core genes) cohesions between the two identified species were high enough to propose them as members of a new genus within the family Vibrionaceae. Consequently, an eighth genus Thaumasiovibrio gen...
June 16, 2017: Systematic and Applied Microbiology
https://www.readbyqxmd.com/read/28648724/nitrogen-fixing-rhizobial-strains-isolated-from-desmodium-incanum-dc-in-argentina-phylogeny-biodiversity-and-symbiotic-ability
#13
María Antonieta Toniutti, Laura Viviana Fornasero, Francisco Javier Albicoro, María Carla Martini, Walter Draghi, Florencia Alvarez, Antonio Lagares, José Francisco Pensiero, María Florencia Del Papa
Desmodium spp. are leguminous plants belonging to the tribe Desmodieae of the subfamily Papilionoideae. They are widely distributed in temperated and subtropical regions and are used as forage plants, for biological control, and in traditional folk medicine. The genus includes pioneer species that resist the xerothermic environment and grow in arid, barren sites. Desmodium species that form nitrogen-fixing symbiosis with rhizobia play an important role in sustainable agriculture. In Argentina, 23 native species of this genus have been found, including Desmodium incanum...
June 7, 2017: Systematic and Applied Microbiology
https://www.readbyqxmd.com/read/28648489/pyrosequencing-analysis-of-cryogenically-ground-samples-from-primary-and-secondary-persistent-endodontic-infections
#14
Cangül Keskin, Ebru Özsezer Demiryürek, Ertan Emek Onuk
INTRODUCTION: This study aimed to characterize the microbial communities of primary and secondary/persistent endodontic infections using high-throughput pyrosequencing from the pulverized samples. METHODS: The roots of 20 extracted human teeth with primary endodontic infection and 20 teeth with secondary/persistent endodontic infection were collected. The outer surfaces of the roots were disinfected, and whole roots were cryopulverized. 16S amplicon pyrosequencing data from the DNA extracted from the pulverized root powders were obtained, and microorganism abundance and diversity were calculated...
June 22, 2017: Journal of Endodontics
https://www.readbyqxmd.com/read/28648396/25-years-of-serving-the-community-with-ribosomal-rna-gene-reference-databases-and-tools
#15
Frank Oliver Glöckner, Pelin Yilmaz, Christian Quast, Jan Gerken, Alan Beccati, Andreea Ciuprina, Gerrit Bruns, Pablo Yarza, Jörg Peplies, Ralf Westram, Wolfgang Ludwig
SILVA (lat. forest) is a comprehensive web resource, providing services around up to date, high-quality datasets of aligned ribosomal RNA gene (rDNA) sequences from the Bacteria, Archaea, and Eukaryota domains. SILVA dates back to the year 1991 when Dr. Wolfgang Ludwig from the Technical University Munich started the integrated software workbench ARB (lat. tree) to support high-quality phylogenetic inference and taxonomy based on the SSU and LSU rDNA marker genes. At that time, the ARB project maintained both, the sequence reference datasets and the software package for data analysis...
June 22, 2017: Journal of Biotechnology
https://www.readbyqxmd.com/read/28648180/kinetic-study-on-anaerobic-oxidation-of-methane-coupled-to-denitrification
#16
Hou Yu, Hiroyuki Kashima, John M Regan, Abid Hussain, Elsayed Elbeshbishy, Hyung-Sool Lee
Monod kinetic parameters provide information required for kinetic analysis of anaerobic oxidation of methane coupled to denitrification (AOM-D). This information is critical for engineering AOM-D processes in wastewater treatment facilities. We first experimentally determined Monod kinetic parameters for an AOM-D enriched culture and obtained the following values: maximum specific growth rate (μmax) 0.121/d, maximum substrate-utilization rate (qmax) 28.8mmol CH4/g cells-d, half maximum-rate substrate concentration (Ks) 83μΜ CH4, growth yield (Y) 4...
September 2017: Enzyme and Microbial Technology
https://www.readbyqxmd.com/read/28647881/alterations-in-soil-microbial-communities-caused-by-treatments-with-penicillin-or-neomycin
#17
Qichun Zhang, Ouyang Kang, Salma Jabeen, Warren A Dick
Antibiotic residues in soils can lead to serious health risk and ecological hazards. In this study, the effects of penicillin and neomycin, two antibiotics widely used in animal production, were investigated on soil bacterial communities. Changes in the community structure were monitored using three 16S ribosomal DNA (rDNA) polymerase chain reaction-based approaches, including denaturing gradient gel electrophoresis (DGGE), amplified rDNA restriction analysis (ARDRA), and terminal-restriction fragment length polymorphism (T-RFLP) analysis...
June 25, 2017: Environmental Science and Pollution Research International
https://www.readbyqxmd.com/read/28647822/devosia-nitraria-sp-nov-a-novel-species-isolated-from-the-roots-of-nitraria-sibirica-in-china
#18
Lin Xu, Yong Zhang, Nicholas Read, Shuangjiang Liu, Ville-Petri Friman
An aerobic, Gram-stain negative, short rod-shaped and motile strain, 36-5-1(T), was isolated from the roots of Nitraria sibirica in Zhangye city, Gansu province, north-west of China. Phylogenetic analysis based on the 16S rRNA gene sequence and two housekeeping genes (glnA and atpD) indicated that the strain represents a novel species closely related to the Devosia, Rhizobium and Devosia genera with 98.3, 96.2 and 91.1% similarities, respectively. The strain 36-5-1(T) contained Q-10 as the predominant ubiquinone and 16:0 (36...
June 24, 2017: Antonie Van Leeuwenhoek
https://www.readbyqxmd.com/read/28647397/actinomyces-radicidentis-and-actinomyces-haliotis-coccoid-actinomyces-species-isolated-from-the-human-oral-cavity
#19
Rolf Claesson, Ulf Sjögren, Anders Esberg, Malin Brundin, Margareta Granlund
There are few reports on the bacterial species Actinomyces radicidentis in the literature. In this study, putative A. radicidentis isolates were collected from 16 root canal samples from 601 examined patients. The isolates were examined by biochemical tests, 16S rRNA gene sequencing, Arbitrarily-primed (AP-) PCR, antibiotic susceptibility testing, and MALDI-TOF analyses. In parallel, two A. radicidentis reference strains and two putative A. radicidentis isolates from United Kingdom were tested. Sixteen of the 18 isolates were confirmed as A...
June 21, 2017: Anaerobe
https://www.readbyqxmd.com/read/28647304/phylogenies-of-symbiotic-genes-of-bradyrhizobium-symbionts-of-legumes-of-economic-and-environmental-importance-in-brazil-support-the-definition-of-the-new-symbiovars-pachyrhizi-and-sojae
#20
Jakeline Renata Marçon Delamuta, Pâmela Menna, Renan Augusto Ribeiro, Mariangela Hungria
Bradyrhizobium comprises most tropical symbiotic nitrogen-fixing strains, but the correlation between symbiotic and core genes with host specificity is still unclear. In this study, the phylogenies of the nodY/K and nifH genes of 45 Bradyrhizobium strains isolated from legumes of economic and environmental importance in Brazil (Arachis hypogaea, Acacia auriculiformis, Glycine max, Lespedeza striata, Lupinus albus, Stylosanthes sp. and Vigna unguiculata) were compared to 16S rRNA gene phylogeny and genetic diversity by rep-PCR...
June 7, 2017: Systematic and Applied Microbiology
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