Organizer: Michael Eitel - Ludwig-Maximilians-Universität München
The conference will begin with an informative morning session discussing the current and cutting-edge technology and methods used in genomic studies. Sequencing is one central part in genomics and the choice of the sequencing technology is critical for the generation of a high-quality genome assembly. The Illumina sequencing technique is high-throughput, highly accurate and comparatively cost-effective for the length of generated reads, however because of the short read lengths and bias in sequencing, the resulting assemblies are fragmented and incomplete.
In contrast, Pacific Biosciences’ Single Molecule, Real-Time (SMRT) Sequencing has read lengths two orders of magnitude longer on average than Illumina sequencing, minimal bias, high consensus accuracy and the ability to detect epigenetic modifications as part of the sequencing process. Through these superior characteristics, many high-quality de novo assemblies have been generated using PacBio sequencing, allowing for high genome contiguity, completeness and accuracy, and also including the ability to separate the sequence into the two parental alleles. Examples for high-quality PacBio invertebrate genome assemblies that will be highlighted include ant, tick, and acorn worm genomes. The presentation by PacBio will described the current and future performance characteristics, the Falcon-Unzip assembly bioinformatics, and will also include recent breakthroughs in dramatically lowering the input DNA amounts required for sequencing and subsequent high-quality assemblies.
In addition, Oxford Nanopore Technologies (ONT) sequencing is relatively less accurate but the throughput is an order of magnitude longer in terms of read length compared to Illumina sequencing and therefore is a highly promising emergent technology. The benefit of Nanopore sequencing is therefore the length of sequencing reads, which allows bridging of repeated elements leading to a largely increased contiguity of de novo genome assemblies. Nanopore sequencing furthermore enables real time sequencing with first sequences to be received from the machine within minutes rather than days. This greatly improves the ability to estimate the usability of samples and library preparations. Any run can be stopped, new or additional libraries can be loaded and the run can be continued enabling the adjustment of an active run.
The purpose of this session will be to teach the students and interested researchers about the similarities, differences, advantages, and disadvantages of available cutting-edge sequencing techniques with a focus on long read sequencing technology for genome sequencing. Overall this session will facilitate the exposure and or understanding of students / postdocs to tools available in the field of genomics and how to appropriately apply modern techniques to non-model invertebrate systems. The session will be led by Michael Eitel who has extensive experience applying 2nd and 3rd generation sequencing technologies on invertebrate systems.
The conference will begin with an informative morning session discussing the current and cutting-edge technology and methods used in genomic studies. Sequencing is one central part in genomics and the choice of the sequencing technology is critical for the generation of a high-quality genome assembly. The Illumina sequencing technique is high-throughput, highly accurate and comparatively cost-effective for the length of generated reads, however because of the short read lengths and bias in sequencing, the resulting assemblies are fragmented and incomplete.
In contrast, Pacific Biosciences’ Single Molecule, Real-Time (SMRT) Sequencing has read lengths two orders of magnitude longer on average than Illumina sequencing, minimal bias, high consensus accuracy and the ability to detect epigenetic modifications as part of the sequencing process. Through these superior characteristics, many high-quality de novo assemblies have been generated using PacBio sequencing, allowing for high genome contiguity, completeness and accuracy, and also including the ability to separate the sequence into the two parental alleles. Examples for high-quality PacBio invertebrate genome assemblies that will be highlighted include ant, tick, and acorn worm genomes. The presentation by PacBio will described the current and future performance characteristics, the Falcon-Unzip assembly bioinformatics, and will also include recent breakthroughs in dramatically lowering the input DNA amounts required for sequencing and subsequent high-quality assemblies.
In addition, Oxford Nanopore Technologies (ONT) sequencing is relatively less accurate but the throughput is an order of magnitude longer in terms of read length compared to Illumina sequencing and therefore is a highly promising emergent technology. The benefit of Nanopore sequencing is therefore the length of sequencing reads, which allows bridging of repeated elements leading to a largely increased contiguity of de novo genome assemblies. Nanopore sequencing furthermore enables real time sequencing with first sequences to be received from the machine within minutes rather than days. This greatly improves the ability to estimate the usability of samples and library preparations. Any run can be stopped, new or additional libraries can be loaded and the run can be continued enabling the adjustment of an active run.
The purpose of this session will be to teach the students and interested researchers about the similarities, differences, advantages, and disadvantages of available cutting-edge sequencing techniques with a focus on long read sequencing technology for genome sequencing. Overall this session will facilitate the exposure and or understanding of students / postdocs to tools available in the field of genomics and how to appropriately apply modern techniques to non-model invertebrate systems. The session will be led by Michael Eitel who has extensive experience applying 2nd and 3rd generation sequencing technologies on invertebrate systems.
