Bacterial community analysis via high-throughput sequencing
Microbial population analysis of the midgut of Melophagus ovinus via high throughput sequencing
... contamination. First, the M. ovinus samples were washed three times in 70% ethanol for 2 min, followed by a wash with sterile deionized water to remove environmental debris and to disinfect the surface. The M. ovinus ...
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Fungal community analysis by high-throughput sequencing of amplified markers - a user's guide
... and sequencing. We argue that the major benefit of high-throughput methods rather lies in the capacity to provide information about the main fungal colonizers in large numbers of samples, to a ...
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Spontaneous Mutation Discovery via High-Throughput Sequencing of Pedigrees
... call or read alignment has a 0.001 probability of being incorrect. Taken together these values provide a measure of the degree of confidence one can have when determining a genotype based upon a set of reads. As ...
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Assessment of the Accuracy of High-Throughput Sequencing of the ITS1 Region of Neocallimastigomycota for Community Composition Analysis
... mock community (see above), the trimmed sequences for the pure cultures were then combined in the appropriate proportions to create forward and reverse fastq files each containing a total of 200,000 ...mock ...
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Computational approaches for metagenomic analysis of high-throughput sequencing data
... have high sequence identity within their ...isolate via alignment against bacte- rial and viral species to find antibiotic resistance and toxin producing ...
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Effects of continuous cropping of sugar beet (Beta vulgaris L.) on its endophytic and soil bacterial community by high-throughput sequencing
... materials. High-throughput sequencing (HTS) which is based on Illumina Hiseq 2500 platform was used to reveal the effects of continuous cropping of sugar beet on its endophytic and soil ...
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The application of high-throughput sequencing technology to analysis of amoA phylogeny and environmental niche specialisation of terrestrial bacterial ammonia-oxidisers
... and community composition differed with bioinformatics approaches used but analysis of MiSeq sequences was reliable for both archaeal and bacterial amoA genes and was used for subsequent assessment ...
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Bacterial diversity of the American sand fly Lutzomyia intermedia using high throughput metagenomic sequencing
... metagenomic analysis revealed that the microbiota of the ...the bacterial community in an important sand fly vector and allow for further studies to better understand how the microbiota interacts ...
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Bacterial Contamination of Plant in vitro Cultures in Commercial Production Detected by High‑Throughput Amplicon Sequencing
... of bacterial colonies provides an important information about sources of contaminations and how to prevent or eliminate them (Reed and Tanprasert, ...conditions bacterial growth may be slow and impeded by ...
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Prediction of Host-Microbe Interactions from Community High-Throughput Sequencing Data
... molecular sequencing data very quickly and cheaply, and many tools exist to process the information such that analysis is possible, best practices in interpretation and application of the results are an ...
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Standards for Sequencing Viral Genomes in the Era of High Throughput Sequencing
... HT sequencing reads, but this is not a requirement for the submission of a genome, nor is this option typically ...Wider analysis of data will ultimately result in higher-quality ...of high interest ...
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High-throughput Sequencing Analysis of the Actinobacterial Apatial Diversity in Moonmilk Deposits
... the most diverse bacterial population, as reflected by the highest diversity indices (Table 1, Figure 100.. 1a).[r] ...
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High Throughput Analysis of Gene Function in the Bacterial Predator Bdellovibrio bacteriovorus
... a bacterial predator capable of killing and replicating inside most Gram-negative bacteria, including antibiotic-resistant patho- ...a high-throughput genetic screen with ...transposon ...
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Universal Count Correction for High-Throughput Sequencing
... correction via data transformation While we have already seen that the Poisson assumption fails for most of the assay types we consider, it is not feasible or necessary to modify every analysis algorithm to ...
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High-Throughput rRNA Gene Sequencing Reveals High and Complex Bacterial Diversity Associated with Brazilian Coffee Bean Fermentation
... MATERIALS AND METHODS On-farm coffee fermentation and sampling Spontaneous fermentations were performed at the Fa- zenda Apucarana located in the Cerrado Mineiro region (18°55’59.4” S, 46°50’41.5” W) at Minas Gerais, ...
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Bacterial biota of shrimp intestine is significantly modified by the use of a probiotic mixture: a high throughput sequencing approach
... metagenomics analysis revealed that the probiotic mix‑ ture was based on bacteria in the phyla Proteobacteria and ...the bacterial profile of the shrimp intestine; however, most of the bacteria incorporated ...
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Tools and best practices for retrotransposon analysis using high-throughput sequencing data
... When using reads with multiple hits, we found that reporting randomly one position or weighting multi- mapped reads with the number of hits give rise to the same estimation. However, reporting multi-hits is more ...
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High-throughput sequencing for community analysis: the promise of DNA barcoding to uncover diversity, relatedness, abundances and interactions in spider communities
... on community ecology are highly desirable but often difficult to accomplish due to the considerable investment of time, labor and, money required to characterize richness, abundance, relatedness, and ...
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Validation of high throughput sequencing and microbial forensics applications
... greater community wide ...first bacterial genomes that were sequenced in 1995 by the Institute of Genome Research (Rockville, MD, USA) [15,16] took more than three months to ...extremely high ...
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Characterization of bacterial communities of donkey milk by high-throughput sequencing
... total number of reads per sample. Core microbiota of donkey milk. Samples were clustered using Euclidean distance and the complete method. Distribution of lactic acid bacteria detected i[r] ...
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