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PacBio Newsletter (Issue Oct)

2020-10-16 15:11:00    Source:Gene Company Limited


§Direct access to the only highly accurate long reads: PacBio HiFi reads

§Deeper biological insights, less data processing, and faster results thanks to the

  unmatched clarity of HiFi reads 

§Reliable and affordable high-throughput sequencing for a broad range of applications



v1.0 assembly of a complete human genome by The Telomere-to-Telomere (T2T) consortium

Completion of all human chromosomes (all T2T) using PacBio HiFi reads, with the exception of the 5 rDNA arrays 

Assembly includes more than 100 Mbp of novel sequence compared to GRCh38

High accuracy: Exceed Q60 (less than 1 error per million bases!)


For more details, please check HERE.

The First End-to-End Sequence of a Human Autosome, Chromosome 8

The first completed autosome which is sequenced and assembled using PacBio HiFi reads

A whole-chromosome assembly with an estimated base-pair accuracy exceeding 99.99% 

The sequence of five previously long-standing gaps is resolved, including a 2.08 Mbp centromeric α-satellite array, a 644 kbp defensin copy number polymorphism important for disease risk, and an 863 kbp variable number tandem repeat at chromosome 8q21.2 that can function as a neocentromere


For more details, please check HERE.



Paper published in Nature Communication involves the using of HIFI reads for haplotype assemblies 

The benchmark covers 94%of the MHC locus and 22368 variants smaller than 50 bp. 49% more variants than a mapping-based benchmark using short read. 

This benchmark reliably identifies errors in mapping-based callsets, and enables performance assessment in regions with much denser, complex variation than regions covered by previous benchmarks 

For more details, please check HERE.


 2020 Global Microbial Genomics SMRT Grant


SMRT Sequencing provides the highly accurate long reads, or HiFi reads, necessary to capture any microbe in high resolution.

Tell us in 250 words or less how SMRT Sequencing will drive new discoveries in your microbial research by November 6, 2020(Fri). You will stand a chance to win construction of up to 6 SMRTbell libraries, sequencing with up to 6 SMRT Cells 8M on the Sequel II System, and bioinformatics support.

Click HERE to apply now!


Protocol/document Updates

Protocol/document releases from Sep 2020.


Released date


Overview   – Sequel Systems Application Options and Sequencing Recommendations

Sep 16, 2020

1.Fixed broken URL links to SQ/SQII QRCs and   

 Application Consumable Bundle   Purchasing Guide

2.    Updated and clarified Minimum Recommended  

 Coverage for each application type

3.    Updated maximum recommended   multiplexing 

level for No-Amp application from   10-plex to 20-plex

4.    Updated list of recommended Data Analysis 

Application   Note: Considerations for Using the Low and Ultra-Low DNA Input Workflows for   Whole Genome Sequencing  

Sep 4, 2020

New  Release Application Note

Guide   – Step-by-Step Run Performance Evaluation  

Sep 4, 2020

New guide to help troubleshoot sequencing performance issues on the Sequel II   System

Quick   Reference Card – Equipment and Materials Needed for Sequencing  



Sep 4, 2020

1.Updated   application use case recommendations for   the Genomic DNA 165 kb Kit   (FP-1002-0275) and 55

 kb BAC Analysis Kit (FP-1003-0275)   for Femto Pulse 

 systems from Agilent Technologies.

2.    Updated equipment recommendations for Low   DNA Input and Ultra-Low DNA Input  applications  

Procedure   & Checklist – Preparing HiFi   SMRTbell   Libraries from Ultra-Low DNA Input

Sep 4, 2020

New   Release  Protocol