keyword
MENU ▼
Read by QxMD icon Read
search

Microbial diversity

keyword
https://www.readbyqxmd.com/read/28922838/comparative-genomics-of-a-drug-resistant-pseudomonas-aeruginosa-panel-and-the-challenges-of-antimicrobial-resistance-prediction-from-genomes
#1
J Jeukens, I Kukavica-Ibrulj, J G Emond-Rheault, L Freschi, R C Levesque
Antimicrobial resistance (AMR) is now recognized as a global threat to human health. The accessibility of microbial whole-genome sequencing offers an invaluable opportunity for resistance surveillance via the resistome, i.e. the genes and mutations underlying AMR. Unfortunately, AMR prediction from genomic data remains extremely challenging, especially for species with a large pan-genome. One such organism, for which multidrug-resistant (MDR) isolates are frequently encountered in the clinic, is Pseudomonas aeruginosa...
October 2, 2017: FEMS Microbiology Letters
https://www.readbyqxmd.com/read/28922804/hunting-for-agile-prey-trophic-specialisation-in-leptophryid-amoebae-vampyrellida-rhizaria-revealed-by-two-novel-predators-of-planktonic-algae
#2
Sebastian Hess
Vampyrellid amoebae (Vampyrellida, Rhizaria) are widespread in freshwater, marine and terrestrial ecosystems and consume a wide range of eukaryotes, e.g. algae, fungi and micrometazoa. Environmental sequences indicate that only a small fraction of their genetic diversity is phenotypically characterised, emphasising the need to further explore unknown vampyrellids and their interactions with prey organisms. This study tests the prey range specificity of three vampyrellid amoebae with 49 strains of three common groups of freshwater algae (Zygnematophyceae, Euglenophyceae and Volvocales), and documents specific interactions by time-lapse microscopy...
September 1, 2017: FEMS Microbiology Ecology
https://www.readbyqxmd.com/read/28922803/micropredator-niche-differentiation-between-bulk-soil-and-rhizosphere-of-an-agricultural-soil-depends-on-bacterial-prey
#3
Lu Zhang, Tillmann Lueders
Predation is a fundamental mechanism of all food webs, but its drivers and organismic connectivities, especially at microbial level, are still poorly understood. Specifically, competitive carbon flows in the presence of multiple micropredators, as well as trophic links within and between microbial kingdoms have rarely been resolved. Here, using maize-planted agricultural soil as a model system, we have investigated the predation of amended bacterial prey by both prokaryotic and eukaryotic micropredators. We have queried how soil compartment (rhizosphere vs bulk soil) and nature of prey (Gram-positive vs Gram-negative) influence predation outcomes...
September 1, 2017: FEMS Microbiology Ecology
https://www.readbyqxmd.com/read/28922630/effects-of-iron-and-calcium-carbonate-on-contaminant-removal-efficiencies-and-microbial-communities-in-integrated-wastewater-treatment-systems
#4
Zhimiao Zhao, Xinshan Song, Yinjiang Zhang, Yufeng Zhao, Bodi Wang, Yuhui Wang
In the paper, we explored the influences of different dosages of iron and calcium carbonate on contaminant removal efficiencies and microbial communities in algal ponds combined with constructed wetlands. After 1-year operation of treatment systems, based on the high-throughput pyrosequencing analysis of microbial communities, the optimal operating conditions were obtained as follows: the ACW10 system with Fe(3+) (5.6 mg L(-1)), iron powder (2.8 mg L(-1)), and CaCO3 powder (0.2 mg L(-1)) in influent as the adjusting agents, initial phosphorus source (PO4(3-)) in influent, the ratio of nitrogen to phosphorus (N/P) of 30 in influent, and hydraulic retention time (HRT) of 1 day...
September 8, 2017: Chemosphere
https://www.readbyqxmd.com/read/28921830/trends-application-and-future-prospectives-of-microbial-carbonic-anhydrase-mediated-carbonation-process-for-ccus
#5
REVIEW
Chintan Bhagat, Pravin Dudhagara, Shantilal Tank
Growing industrialisation and desire for better economy of countries accelerated the emission of greenhouse gasses, more than the buffering capacity of earth atmosphere. Among, various Green House Gasses (GHGs), CO2 occupies the first position in anthroposphere and has detrimental effects on the ecosystem. For decarbonization, several non-biological methods of carbon capture, utilisation, and storage (CCUS) are in use from last few decades, but they are suffering from narrow applicability. Recently, CO2 emission and its disposal related problem encourage for implementation of bioprocessing to achieve zero waste economy for a sustainable environment...
September 18, 2017: Journal of Applied Microbiology
https://www.readbyqxmd.com/read/28921475/legacy-effects-of-continuous-chloropicrin-fumigation-for-3-years-on-soil-microbial-community-composition-and-metabolic-activity
#6
Shuting Zhang, Xiaojiao Liu, Qipeng Jiang, Guihua Shen, Wei Ding
Chloropicrin is widely used to control ginger wilt in China, which have an enormous impact on soil microbial diversity. However, little is known on the possible legacy effects on soil microbial community composition with continuous fumigation over different years. In this report, we used high throughput Illumina sequencing and Biolog ECO microplates to determine the bacterial community and microbial metabolic activity in ginger harvest fields of non-fumigation (NF), chloropicrin-fumigation for 1 year (F_1) and continuous chloropicrin-fumigation for 3 years (F_3)...
September 18, 2017: AMB Express
https://www.readbyqxmd.com/read/28920414/metagenomic-analysis-of-bacterial-community-structure-and-diversity-of-lignocellulolytic-bacteria-in-vietnamese-native-goat-rumen
#7
Huyen Thi Do, Khoa Trong Dao, Viet Khanh Hoang Nguyen, Giang Ngoc Le, Phuong Thi Mai Nguyen, Lam Tung Le, Nguyet Thu Phung, Nico van Straalen, Dick Roelofs, Hai Nam Truong
Objective: In a previous study, analysis of Illumina sequenced metagenomic DNA data of bacteria in Vietnamese goats' rumen showed a high diversity of putative lignocellulolytic genes. In this study, taxonomy speculation of microbial community and lignocellulolytic bacteria population in the rumen was conducted to elucidate a role of bacterial structure for effective degradation of plant materials. Methods: The metagenomic data had been subjected into Basic Local Alignment Search Tool (BLASTX) algorithm and the National Center for Biotechnology Information (NCBI) non-redundant (NR) sequence database...
September 18, 2017: Asian-Australasian Journal of Animal Sciences
https://www.readbyqxmd.com/read/28919048/control-of-immune-cell-homeostasis-and-function-by-lncrnas
#8
REVIEW
Walter K Mowel, Jonathan J Kotzin, Sam J McCright, Vanessa D Neal, Jorge Henao-Mejia
The immune system is composed of diverse cell types that coordinate responses to infection and maintain tissue homeostasis. In each of these cells, extracellular cues determine highly specific epigenetic landscapes and transcriptional profiles to promote immunity while maintaining homeostasis. New evidence indicates that long non-coding RNAs (lncRNAs) play crucial roles in epigenetic and transcriptional regulation in mammals. Thus, lncRNAs have emerged as key regulatory molecules of immune cell gene expression programs in response to microbial and tissue-derived cues...
September 14, 2017: Trends in Immunology
https://www.readbyqxmd.com/read/28918434/improved-dna-purification-with-quality-assurance-for-evaluation-of-the-microbial-genetic-content-of-constructed-wetlands
#9
Wenda Huang, Jingjing Guo, Ran Tao, Ying Man, Yunv Dai, Yang Yang
Efficient isolation of target DNA is a crucial first step of DNA-based metagenomic analyses of environmental samples. Insufficient quantity and purity of DNA isolated using commercial kits result in missing genetic information, especially for large-diameter substrates in constructed wetlands (CWs). Here, we addressed this problem by devising a cost-effective calcium chloride lysozyme-sodium dodecyl sulfate (SDS) method (CCLS), with key improvements in the steps of humic acid removal and cell lysis. The buffer comprising Tris, EDTA, Na2O2P7 and PVPP (TENP), and skim milk, could reduce adsorption between microorganisms and substrates, and calcium chloride precipitated and removed over 94% of humic acid...
September 16, 2017: Applied Microbiology and Biotechnology
https://www.readbyqxmd.com/read/28918349/inhibition-of-anaerobic-digestion-processes-applications-of-molecular-tools
#10
REVIEW
Yamrot M Amha, Muhammad Zohaib Anwar, Andrew Brower, Carsten S Jacobsen, Lauren B Stadler, Tara M Webster, Adam L Smith
Inhibition of anaerobic digestion (AD) due to perturbation caused by substrate composition and/or operating conditions can significantly reduce performance. Such perturbations could be limited by elucidating microbial community response to inhibitors and devising strategies to increase community resilience. To this end, advanced molecular methods are increasingly being applied to study the AD microbiome, a diverse community of microbial populations with complex interactions. This literature review of AD inhibition studies indicates that inhibitory concentrations are highly variable, likely stemming from differences in community structure or activity profile and previous exposure to inhibitors...
September 4, 2017: Bioresource Technology
https://www.readbyqxmd.com/read/28918337/ecotoxicological-and-microbiological-assessment-of-sewage-sludge-associated-with-sugarcane-bagasse
#11
Lais Roberta Deroldo Sommaggio, Dânia Elisa Christofoletti Mazzeo, Débora de Andrade E Silva Sant' Anna, Carlos Emílio Levy, Maria Aparecida Marin-Morales
Sewage sludge (SS) obtained after sewage treatment process may contain several toxic substances. Bioremediation can decrease the toxicity of the sludge, mainly when it is associated with stimulant agents, such as sugarcane bagasse (B). Samples of pure SS (SSP); SS+B; SS+Soil; and SS+B+Soil were bioremediated for 1, 3, and 6 months (T1, T2, and T3, respectively). After each period, the cytotoxic, genotoxic, and mutagenic potentials of the solid samples and their respective aqueous extracts (aqueous eluate and percolate water) were evaluated by the Allium cepa test...
September 14, 2017: Ecotoxicology and Environmental Safety
https://www.readbyqxmd.com/read/28918274/distribution-comparison-and-risk-assessment-of-free-floating-and-particle-attached-bacterial-pathogens-in-urban-recreational-water-implications-for-water-quality-management
#12
Tingting Fang, Qijia Cui, Yong Huang, Peiyan Dong, Hui Wang, Wen-Tso Liu, Quanhui Ye
The risk of pathogen exposure in recreational water is a concern worldwide. Moreover, suspended particles, as ideal shelters for pathogens, in these waters also need attention. However, the risk caused by the pathogen-particle attachment is largely unknown. Accordingly, water samples in three recreational lakes in Beijing were collected and separated into free-floating (FL, 0.22-5μm) and particle-attached (PA, >5μm) fractions. Next-generation sequencing (NGS) was employed to determine the diversity of genera containing pathogens, and quantitative PCR (qPCR) was used to assess the presence of genes from Escherichia coli (uidA), Salmonella enterica (invA), Aeromonas spp...
September 14, 2017: Science of the Total Environment
https://www.readbyqxmd.com/read/28917117/anaerobic-granular-sludge-for-simultaneous-biomethanation-of-synthetic-wastewater-and-co-with-focus-on-the-identification-of-co-converting-microorganisms
#13
Yuhang Jing, Stefano Campanaro, Panagiotis Kougias, Laura Treu, Irini Angelidaki, Shicheng Zhang, Gang Luo
CO is a main component of syngas, which can be produced from the gasification of organic wastes and biomass. CO can be converted to methane by anaerobic digestion (AD), however, it is still challenging due to its toxicity to microorganisms and limited knowledge about CO converting microorganisms. In the present study, anaerobic granular sludge (AGS) was used for the simultaneous biomethanation of wastewater and CO. Batch experiments showed that AGS tolerated CO partial pressure as high as 0.5 atm without affecting its ability for synthetic wastewater degradation, which had higher tolerance of CO compared to suspended sludge (less than 0...
September 9, 2017: Water Research
https://www.readbyqxmd.com/read/28917104/bacteria-and-archaea-communities-in-full-scale-thermophilic-and-mesophilic-anaerobic-digesters-treating-food-wastewater-key-process-parameters-and-microbial-indicators-of-process-instability
#14
Joonyeob Lee, Seung Gu Shin, Gyuseong Han, Taewoan Koo, Seokhwan Hwang
In this study, four different mesophilic and thermophilic full-scale anaerobic digesters treating food wastewater (FWW) were monitored for 1-2years in order to investigate: 1) microbial communities underpinning anaerobic digestion of FWW, 2) significant factors shaping microbial community structures, and 3) potential microbial indicators of process instability. Twenty-seven bacterial genera were identified as abundant bacteria underpinning the anaerobic digestion of FWW. Methanosaeta harundinacea, M. concilii, Methanoculleus bourgensis, M...
September 5, 2017: Bioresource Technology
https://www.readbyqxmd.com/read/28916564/modulation-of-the-gut-microbiome-a-systematic-review-of-the-effect-of-bariatric-surgery
#15
Yan Guo, Zhi-Ping Huang, Chao-Qian Liu, Lin Qi, Yuan Sheng, Da-Jin Zou
OBJECTIVE: Bariatric surgery is recommended for patients with obesity and type 2 diabetes. Recent evidence suggested a strong connection between gut microbiota and bariatric surgery. DESIGN: Systematic review. METHODS: The PubMed and OVID Embase were used and articles concerning bariatric surgery and gut microbiota were screened. The main outcome measures were alterations of gut microbiota after bariatric surgery and correlations between gut microbiota and host metabolism...
September 15, 2017: European Journal of Endocrinology
https://www.readbyqxmd.com/read/28916278/microbial-reduction-of-vanadium-v-in-groundwater-interactions-with-coexisting-common-electron-acceptors-and-analysis-of-microbial-community
#16
Hui Liu, Baogang Zhang, Heyang Yuan, Yutong Cheng, Song Wang, Zhen He
Vanadium (V) pollution in groundwater has posed serious risks to the environment and public health. Anaerobic microbial reduction can achieve efficient and cost-effective remediation of V(V) pollution, but its interactions with coexisting common electron acceptors such as NO3(-), Fe(3+), SO4(2-) and CO2 in groundwater remain unknown. In this study, the interactions between V(V) reduction and reduction of common electron acceptors were examined with revealing relevant microbial community and identifying dominant species...
September 12, 2017: Environmental Pollution
https://www.readbyqxmd.com/read/28916161/stable-association-of-a-drosophila-derived-microbiota-with-its-animal-partner-and-the-nutritional-environment-throughout-a-fly-population-s-life-cycle
#17
REVIEW
Mélisandre A Téfit, Benjamin Gillet, Pauline Joncour, Sandrine Hughes, François Leulier
In the past years, the fruit fly Drosophila melanogaster has been extensively used to study the relationship between animals and their associated microbes. Compared to the one of wild populations, the microbiota of laboratory-reared flies is less diverse, and comprises fewer bacterial taxa; nevertheless, the main commensal bacteria found in fly microbiota always belong to the Acetobacteraceae and Lactobacillaceae families. The bacterial communities associated with the fly are environmentally acquired, and the partners engage in a perpetual re-association process...
September 12, 2017: Journal of Insect Physiology
https://www.readbyqxmd.com/read/28915923/season-but-not-symbiont-state-drives-microbiome-structure-in-the-temperate-coral-astrangia-poculata
#18
Koty H Sharp, Zoe A Pratte, Allison H Kerwin, Randi D Rotjan, Frank J Stewart
BACKGROUND: Understanding the associations among corals, their photosynthetic zooxanthella symbionts (Symbiodinium), and coral-associated prokaryotic microbiomes is critical for predicting the fidelity and strength of coral symbioses in the face of growing environmental threats. Most coral-microbiome associations are beneficial, yet the mechanisms that determine the composition of the coral microbiome remain largely unknown. Here, we characterized microbiome diversity in the temperate, facultatively symbiotic coral Astrangia poculata at four seasonal time points near the northernmost limit of the species range...
September 15, 2017: Microbiome
https://www.readbyqxmd.com/read/28915922/recent-urbanization-in-china-is-correlated-with-a-westernized-microbiome-encoding-increased-virulence-and-antibiotic-resistance-genes
#19
Kathryn Winglee, Annie Green Howard, Wei Sha, Raad Z Gharaibeh, Jiawu Liu, Donghui Jin, Anthony A Fodor, Penny Gordon-Larsen
BACKGROUND: Urbanization is associated with an increased risk for a number of diseases, including obesity, diabetes, and cancer, which all also show associations with the microbiome. While microbial community composition has been shown to vary across continents and in traditional versus Westernized societies, few studies have examined urban-rural differences in neighboring communities within a single country undergoing rapid urbanization. In this study, we compared the gut microbiome, plasma metabolome, dietary habits, and health biomarkers of rural and urban people from a single Chinese province...
September 15, 2017: Microbiome
https://www.readbyqxmd.com/read/28915790/the-process-related-dynamics-of-microbial-community-during-a-simulated-fermentation-of-chinese-strong-flavored-liquor
#20
Yanyan Zhang, Xiaoyu Zhu, Xiangzhen Li, Yong Tao, Jia Jia, Xiaohong He
BACKGROUND: Famous Chinese strong-flavored liquor (CSFL) is brewed by microbial consortia in a special fermentation pit (FT). However, the fermentation process was not fully understood owing to the complicate community structure and metabolism. In this study, the process-related dynamics of microbial communities and main flavor compounds during the 70-day fermentation process were investigated in a simulated fermentation system. RESULTS: A three-phase model was proposed to characterize the process of the CSFL fermentation...
September 15, 2017: BMC Microbiology
keyword
keyword
66752
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"