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Image Search Results
Journal: bioRxiv
Article Title: Enabling high-accuracy long-read amplicon sequences using unique molecular identifiers with Nanopore or PacBio sequencing
doi: 10.1101/645903
Figure Lengend Snippet: Each line plot represents the read size distribution from each mock community species estimated from the Nanopore metagenome data. A) is data generated from a ZymoBIOMICS Microbial Community Standard (even) [D6300, batch ZRC190633] by the Loman lab using the Nanopore GridION and a R9.4.1 flowcell. B) is in-house data generated from a ZymoBIOMICS Microbial Community DNA Standard (even) [product D6306, batch ZRC190811] using Nanopore MinION and a R10 flowcell. Some species have significantly more high molecular weight DNA over 5000 bp compared to some of the other species, which impacts the effective template availability in PCR for long amplicons. For the Loman lab data, the distinct gram+/- dependent trends fragment length is anticipated from their two step extraction protocol used on the mock community. The in-house generated data is generated from DNA standard prepared by the vendor, and here the taxa trend is not as pronounced, but the effect on the effective relative abundance is still dramatic . We can only speculate about the cause, but different extraction methods could be the reason. If all samples had been extracted with the same method, the result should be more similar fragment distributions as indicated by the Loman group data. The Nanopore library preparation and sequencing likely had an impact on the observed read fragment distributions, but the Loman group data indicates that extraction method probably is the most important factor.
Article Snippet: The PCR product was purified using a custom bead purification protocol “SPRI size selection protocol for >1.5-2
Techniques: Generated, High Molecular Weight, Extraction, Sequencing
Journal: bioRxiv
Article Title: Enabling high-accuracy long-read amplicon sequences using unique molecular identifiers with Nanopore or PacBio sequencing
doi: 10.1101/645903
Figure Lengend Snippet: Read coverage profiles of the ZymoBIOMICS Microbial Community DNA Standard based on shotgun Nanopore sequencing data. Each grey point is the average coverage value of a 10 kbp region within the genome. Colored points represents the position of the individual intragenomic rRNA operons. A) is data generated from a ZymoBIOMICS Microbial Community Standard (even) [product D6300, batch ZRC190633] by the Loman lab using the Nanopore GridION and a R9.4.1 flowcell. B) is our data generated from a ZymoBIOMICS Microbial Community DNA Standard (even) [product D6306, batch ZRC190811] using Nanopore MinION and a R10 flowcell.
Article Snippet: The PCR product was purified using a custom bead purification protocol “SPRI size selection protocol for >1.5-2
Techniques: Nanopore Sequencing, Generated