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Monday, August 2, 2021

Data Release: Human Microbiome Samples Demonstrate Advances in HiFi-Enabled Metagenomic Sequencing

  As technology developers, one of our greatest joys is seeing how customers take our sequencing tools and deploy them for innovative and compelling new projects. Metagenomics has been one of those areas: our customers have recently been demonstrating the significant performance improvements enabled by our HiFi metagenome sequencing data and analysis pipelines. But since much of that work is protected by HIPAA regulations or has not yet been published, we are now releasing a metagenomic data set to help scientists see how HiFi data can make a difference for these types of studies. This information is now available for…

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Thursday, July 22, 2021

For Metagenomic Studies, HiFi Reads Deliver Higher-Quality Data

  A new paper from scientists at the Max Planck Institute offers a great look at how HiFi sequencing delivers significantly improved results for metagenome studies compared to short-read data. In this project, HiFi reads led to higher-quality assemblies with less coverage and gave more insight into these complex microbial communities. Bathymetric map of sampling locations In the PeerJ publication, lead author Taylor Priest (@taylorpriest2), senior author Rudolf Amann, and collaborators report the analysis of 11 seawater samples collected from the Fram Strait, which connects the Arctic and Atlantic oceans and offers a unique view of how climate change is…

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Wednesday, October 21, 2020

The HiFi Sequencing Advantage for Metagenome Assembly

Assembly and binning of metagenome data are the first steps in many metagenomics analysis pipelines, and with good reason. Metagenome assembled genomes (MAGs) and circularized MAGs (CMAGs) allow recovery of complete genes and operons, thereby improving predictions of metabolic capacities. MAGs also provide information about gene synteny and enable better taxonomic profiling. However, as discussed in a recent review by Chen et. al. draft MAGs with poor completeness or high contamination can lead to incorrect conclusions.  One way to improve assembly completeness and contiguity is to use long-read sequencing. However, not all long reads are the same. Did you know…

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Friday, March 9, 2018

Coral Microbiome Project Wins 2017 Microbial SMRT Grant

Rice coral (Montipora capitata) growing over Porites lobata. Credit: Dr. Dwayne Meadows, NOAA/NMFS/OPR Corals are critical to sustaining sea life in many parts of the world, contributing to an elaborate ecosystem that lives in and around their mineralized calcium carbonate skeletons. In addition to hosting photosynthetic endosymbionts in exchange for energy, corals harbor a diverse microbial community. What role does this microbial metagenome play in the health of the coral reef, especially during thermal challenges induced by climate change? Alexander Shumaker of Rutgers University will get a chance to investigate this question, thanks to long-read sequencing provided by PacBio and…

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