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https://www.readbyqxmd.com/read/29245135/acidogenic-fermentation-of-iron-enhanced-primary-sedimentation-sludge-under-different-ph-conditions-for-production-of-volatile-fatty-acids
#1
Lin Lin, Xiao-Yan Li
Iron-based chemically enhanced primary sedimentation (CEPS) is increasingly adopted for wastewater treatment in mega cities, producing a large amount of sludge (Fe-sludge) with a high content of organics for potential organic resource recovery. In this experimental study, acidogenic fermentation was applied treat FeCl3-based CEPS sludge for production of volatile fatty acids (VFAs) at different pHs. Batch fermentation tests on the Fe-sludge with an organic content of 10 g-COD/L showed that the maximum VFAs production reached 2782...
December 6, 2017: Chemosphere
https://www.readbyqxmd.com/read/29244859/the-second-molecular-epidemiological-study-of-hiv-infection-in-mongolia-between-2010-and-2016
#2
Davaalkham Jagdagsuren, Tsunefusa Hayashida, Misao Takano, Erdenetuya Gombo, Setsen Zayasaikhan, Naomi Kanayama, Kiyoto Tsuchiya, Shinichi Oka
OBJECTIVE: Our previous 2005-2009 molecular epidemiological study in Mongolia identified a hot spot of HIV-1 transmission in men who have sex with men (MSM). To control the infection, we collaborated with NGOs to promote safer sex and HIV testing since mid-2010. In this study, we carried out the second molecular epidemiological survey between 2010 and 2016 to determine the status of HIV-1 infection in Mongolia. METHODS: The study included 143 new cases of HIV-1 infection...
2017: PloS One
https://www.readbyqxmd.com/read/29244005/ghost-global-hepatitis-outbreak-and-surveillance-technology
#3
Atkinson G Longmire, Seth Sims, Inna Rytsareva, David S Campo, Pavel Skums, Zoya Dimitrova, Sumathi Ramachandran, Magdalena Medrzycki, Hong Thai, Lilia Ganova-Raeva, Yulin Lin, Lili T Punkova, Amanda Sue, Massimo Mirabito, Silver Wang, Robin Tracy, Victor Bolet, Thom Sukalac, Chris Lynberg, Yury Khudyakov
BACKGROUND: Hepatitis C is a major public health problem in the United States and worldwide. Outbreaks of hepatitis C virus (HCV) infections associated with unsafe injection practices, drug diversion, and other exposures to blood are difficult to detect and investigate. Effective HCV outbreak investigation requires comprehensive surveillance and robust case investigation. We previously developed and validated a methodology for the rapid and cost-effective identification of HCV transmission clusters...
December 6, 2017: BMC Genomics
https://www.readbyqxmd.com/read/29239804/sex-determination-and-differentiation-genes-in-a-functional-hermaphrodite-scallop-nodipecten-subnodosus
#4
Pavel Galindo-Torres, Alejandra García-Gasca, Raúl Llera-Herrera, Cristina Escobedo-Fregoso, Cei Abreu-Goodger, Ana M Ibarra
The lion-paw, Nodipecten subnodosus is one of three scallop species commercially exploited on the west coast of the Peninsula of Baja California. Because nothing is known about sex determination and sexual differentiation in hermaphrodite scallops, in the present work, a global transcriptomic analysis was performed in two early developmental stages, settling eyed-larvae and spat, as well as in three tissues (undifferentiated gonad, digestive gland, and adductor muscle). Over 27 million Illumina paired-end reads were obtained through the MiSeq platform...
November 24, 2017: Marine Genomics
https://www.readbyqxmd.com/read/29236697/performance-of-dna-metabarcoding-standard-barcoding-and-morphological-approach-in-the-identification-of-host-parasitoid-interactions
#5
Martin Šigut, Martin Kostovčík, Hana Šigutová, Jiří Hulcr, Pavel Drozd, Jan Hrček
Understanding interactions between herbivores and parasitoids is essential for successful biodiversity protection and monitoring and for biological pest control. Morphological identifications employ insect rearing and are complicated by insects' high diversity and crypsis. DNA barcoding has been successfully used in studies of host-parasitoid interactions as it can substantially increase the recovered real host-parasitoid diversity distorted by overlooked species complexes, or by species with slight morphological differences...
2017: PloS One
https://www.readbyqxmd.com/read/29236008/denitrification-processes-and-microbial-communities-in-a-sequencing-batch-reactor-treating-nanofiltration-nf-concentrate-from-coking-wastewater
#6
Enchao Li, Shuguang Lu
A biological denitrifying process was employed for the treatment of nanofiltration (NF) concentrate with high conductivity, which was generated from coking wastewater in a sequencing batch reactor (SBR). The results showed that the average removal efficiencies of chemical oxygen demand (COD), total nitrogen (TN) and nitrate were 47.6%, 61.1% and 94.6%, respectively. Different microbial communities were identified by sequencing the V1-V3 region of the 16S rRNA gene using the MiSeq platform, showing that the most abundant bacterial phylum in the SBR system was Proteobacteria, with the subclasses β-Proteobacteria and α-Proteobacteria being dominant...
December 2017: Water Science and Technology: a Journal of the International Association on Water Pollution Research
https://www.readbyqxmd.com/read/29234312/parallelized-aerobic-single-carbon-source-enrichments-from-different-natural-environments-contain-divergent-microbial-communities
#7
Theodore M Flynn, Jason C Koval, Stephanie M Greenwald, Sarah M Owens, Kenneth M Kemner, Dionysios A Antonopoulos
Microbial communities that inhabit environments such as soil can contain thousands of distinct taxa, yet little is known about how this diversity is maintained in response to environmental perturbations such as changes in the availability of carbon. By utilizing aerobic substrate arrays to examine the effect of carbon amendment on microbial communities taken from six distinct environments (soil from a temperate prairie and forest, tropical forest soil, subalpine forest soil, and surface water and soil from a palustrine emergent wetland), we examined how carbon amendment and inoculum source shape the composition of the community in each enrichment...
2017: Frontiers in Microbiology
https://www.readbyqxmd.com/read/29234140/altered-gut-microbiota-profiles-in-sows-and-neonatal-piglets-associated-with-porcine-epidemic-diarrhea-virus-infection
#8
Deping Song, Qi Peng, Yanjun Chen, Xinrong Zhou, Fanfan Zhang, Anqi Li, Dongyan Huang, Qiong Wu, Yu Ye, Houjun He, Leyi Wang, Yuxin Tang
Porcine epidemic diarrhea virus (PEDV) is a devastating cause of diarrhea in pigs worldwide. Most of studies have focused on molecular and pathogenic characterization of PEDV, whereas there were limited studies in understanding the role of gut microbiota (GM) in viral-associated diarrhea. Here, using the Illumina MiSeq platform, we examined and compared the impact of PEDV infection on the GM of sows and their piglets less than 10 days old. Our results showed that PEDV caused alternations in the structure and abundance of GM from levels of phylum to genus, and even species...
December 12, 2017: Scientific Reports
https://www.readbyqxmd.com/read/29230649/investigating-monsoon-and-post-monsoon-variabilities-of-bacterioplankton-communities-in-a-mangrove-ecosystem
#9
Anwesha Ghosh, Punyasloke Bhadury
In mangrove environments, bacterioplankton communities constitute an important component of aquatic biota and play a major role in ecosystem processes. Variability of bacterioplankton communities from Sundarbans mangrove, located in the Indian subcontinent in South Asia and sits on the apex of Bay of Bengal, was investigated over monsoon and post-monsoon seasons. The study was undertaken in two stations in Sundarbans using 16S rRNA clone library and Illumina MiSeq approaches with focus on the functionally important members that participate in coastal biogeochemical cycling...
December 11, 2017: Environmental Science and Pollution Research International
https://www.readbyqxmd.com/read/29230385/urinary-microbiome-and-psychological-factors-in-women-with-overactive-bladder
#10
Peng Wu, Yang Chen, Jie Zhao, Guihao Zhang, Jiawei Chen, Junpeng Wang, Huijian Zhang
Objectives: Emerging evidence indicates that alterations to the urinary microbiome are related to lower urinary tract symptoms. Overactive bladder (OAB) is a common disorder with complex etiologies and usually accompanied by psychological diseases. More information concerning the urinary microbiome and psychological factors in OAB is required. The aim of this study was to characterize the female urinary microbiome associated with OAB and investigate the relationships between urinary microbiome and psychological factors...
2017: Frontiers in Cellular and Infection Microbiology
https://www.readbyqxmd.com/read/29230378/species-diversity-and-drivers-of-arbuscular-mycorrhizal-fungal-communities-in-a-semi-arid-mountain-in-china
#11
He Zhao, Xuanzhen Li, Zhiming Zhang, Yong Zhao, Jiantao Yang, Yiwei Zhu
Arbuscular mycorrhizal fungi (AMF) play an essential role in complex ecosystems. However, the species diversity and composition of AMF communities remain unclear in semi-arid mountains. Further, it is not well understood if the characteristics of AMF community assemblies differ for different habitat types, e.g., agricultural arable land, artificial forest land, natural grassland, and bush/wood land. Here, using the high-throughput technology by Illumina sequencing on the MiSeq platform, we explored the species diversity and composition of soil AMF communities among different habitat types in a semi-arid mountain (Taihang Mountain, Mid-western region of China)...
2017: PeerJ
https://www.readbyqxmd.com/read/29228270/influenza-a-virus-subtype-h9n2-infection-disrupts-the-composition-of-intestinal-microbiota-of-chickens
#12
Alexander Yitbarek, J Scott Weese, Tamiru Negash Alkie, John Parkinson, Shayan Sharif
The impact of low pathogenic influenza viruses such as subtype H9N2, which infect the respiratory and the gastrointestinal tracts of chickens, on microbial composition are not known. Twenty day-old specific pathogen free chickens were assigned to two treatment groups, control (Uninfected) and H9N2-infected (challenged via the oral-nasal route). Fecal genomic DNA was extracted, and the V3-V4 regions of the 16S rRNA gene was sequenced using the Illumina Miseq® platform. Sequences were curated using Mothur as described in the MiSeq SOP...
December 6, 2017: FEMS Microbiology Ecology
https://www.readbyqxmd.com/read/29228190/assessing-the-diversity-of-the-g23-gene-of-t4-like-bacteriophages-from-lake-baikal-with-high-throughput-sequencing
#13
Sergey Potapov, Olga Olga, Andrey Krasnopeev, Anna Gladkikh, Marsel Kabilov, Aleksey Tupikin, Tatyana V Butina
Based on second generation sequencing (MiSeq platform), we determined the genetic diversity of T4-like bacteriophages of the family Myoviridae by analysing fragments of the major capsid protein gene g23 in the plankton of Lake Baikal. The sampling depth in our study was significantly higher than in those obtained by the Sanger method before. We obtained 33701 sequences of the g23 gene fragments, 141 OTUs of which were identified. 86 OTUs (60.9%) had the closest relatives from lakes Bourget and Annecy, and 28 OTUs (19...
December 5, 2017: FEMS Microbiology Letters
https://www.readbyqxmd.com/read/29227747/duration-of-continuous-cropping-with-straw-return-affects-the-composition-and-structure-of-soil-bacterial-communities-in-cotton-fields
#14
Lei Yang, Lanlan Tan, Fenghua Zhang, William J Gale, Zhibo Cheng, Wen Sang
Salinized land in the China's Xinjiang Region is being reclaimed for continuous cotton production. The specific objectives of this field study were (1) to compare bacterial composition and diversity in unfarmed (i.e., unreclaimed) and continuously (5-, 10-, 15-, and 20-yr) cropped soils and (2) to explore correlations between soil properties and the bacterial communities identified by Illumina MiSeq sequencing. The results showed that bacterial species richness and diversity increased for 10 to 15 yr and then declined when salinized land was reclaimed for cotton production...
December 11, 2017: Canadian Journal of Microbiology
https://www.readbyqxmd.com/read/29224153/multiplexed-dna-methylation-analysis-of-target-regions-using-microfluidics-fluidigm
#15
Martyna Adamowicz, Klio Maratou, Timothy J Aitman
Whole genome shotgun bisulfite sequencing is a method used to generate genome-wide methylation profiles. There are many available protocols to validate the results of this genome-wide method, but they mostly share the limitation of measuring methylation at a small number of CpG positions in small numbers of samples. We developed a multiplexed DNA methylation analysis protocol, which allows for the simultaneous quantitative measurement of cytosine methylation at single nucleotide resolution in 48 PCR amplicons and 48 samples utilizing the microfluidic system established by Fluidigm...
2018: Methods in Molecular Biology
https://www.readbyqxmd.com/read/29223548/co-occurrence-of-early-gut-colonization-in-neonatal-piglets-with-microbiota-in-the-maternal-and-surrounding-delivery-environments
#16
Xue Chen, Jumei Xu, Erdou Ren, Yong Su, Weiyun Zhu
The early development of gut microbiota plays a fundamental role in host health; so far, the main origins of the first colonization in newborn piglets are largely unclear. This study aimed to investigate the early development of gut microbiota in newborn piglets during lactation and their co-occurrence with microbes in the maternal and surrounding environments by Illumina MiSeq sequencing of 16S ribosomal RNA genes. The results showed that the microbial richness and diversity in piglets' feces (PF) significantly increased from birth to weaning (21 d)...
December 6, 2017: Anaerobe
https://www.readbyqxmd.com/read/29221120/gut-microbial-profile-analysis-by-miseq-sequencing-of-pancreatic-carcinoma-patients-in-china
#17
Zhigang Ren, Jianwen Jiang, Haiyang Xie, Ang Li, Haifeng Lu, Shaoyan Xu, Lin Zhou, Hua Zhang, Guangying Cui, Xinhua Chen, Yuanxing Liu, Liming Wu, Nan Qin, Ranran Sun, Wei Wang, Lanjuan Li, Weilin Wang, Shusen Zheng
Pancreatic carcinoma (PC) is a lethal cancer. Gut microbiota is associated with some risk factors of PC, e.g. obesity and types II diabetes. However, the specific gut microbial profile in clinical PC in China has never been reported. This prospective study collected 85 PC and 57 matched healthy controls (HC) to analyze microbial characteristics by MiSeq sequencing. The results showed that gut microbial diversity was decreased in PC with an unique microbial profile, which partly attributed to its decrease of alpha diversity...
November 10, 2017: Oncotarget
https://www.readbyqxmd.com/read/29218079/vegf-c-mediated-enhancement-of-lymphatic-drainage-reduces-intestinal-inflammation-by-regulating-il-9-il-17-balance-and-improving-gut-microbiota-in-experimental-chronic-colitis
#18
Xiaolei Wang, Jin Zhao, Li Qin
BACKGROUND: Inflammation-associated lymphangiogenesis (IAL) induced by vascular endothelial growth factor (VEGF)-C/VEGF receptor-3 (VEGFR-3) pathway plays a crucial role in chronic intestinal inflammation. This study aimed to investigate the effects of VEGF-C mediated enhancement of lymphatic drainage on the intestinal inflammation in experimental chronic colitis (CC) and the potential mechanism was explored. METHODS: Mouse CC model was established by three cycles of 2% DSS administration for 5 days following water administration for 5 days...
2017: American Journal of Translational Research
https://www.readbyqxmd.com/read/29215772/impact-of-storage-conditions-on-fungal-community-composition-of-green-coffee-beans-coffea-arabica-l-stored-in-jute-sacks-during-one-year
#19
L M Broissin-Vargas, R Snell-Castro, J J Godon, O González-Ríos, M L Suárez-Quiroz
AIMS: The purpose of this study was to evaluate the effect of warehouse storage conditions on the composition of the fungal community of green coffee beans (GCB) that were stored in jute sacks for one year. METHODS AND RESULTS: Molecular characterization of the fungal community composition and population dynamics obtained by Q-PCR, CE-SSCP (Simpson's diversity index D), and Illumina MiSeq sequencing indicated that Saccharomycetales dominated during the first 6 months of storage period with species as Meyerozyma guilliermondii and Pichia kluyveri...
December 7, 2017: Journal of Applied Microbiology
https://www.readbyqxmd.com/read/29214201/genotyping-by-sequencing-data-of-272-crested-wheatgrass-agropyron-cristatum-genotypes
#20
Pingchuan Li, Bill Biligetu, Bruce E Coulman, Michael Schellenberg, Yong-Bi Fu
Crested wheatgrass [Agropyron cristatum L. (Gaertn.)] is an important cool-season forage grass widely used for early spring grazing. However, the genomic resources for this non-model plant are still lacking. Our goal was to generate the first set of next generation sequencing data using the genotyping-by-sequencing technique. A total of 272 crested wheatgrass plants representing seven breeding lines, five cultivars and five geographically diverse accessions were sequenced with an Illumina MiSeq instrument. These sequence datasets were processed using different bioinformatics tools to generate contigs for diploid and tetraploid plants and SNPs for diploid plants...
December 2017: Data in Brief
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