Event:

PAG Asia 讲座: 弥合植物和动物基因组中的缺口

PAG Asia Seminar: Closing the gap in plant and animal genomes

日期: 6月8日，星期六, 下午2:00-3:45
地点: Grand Ballroom 3, 深圳福田香格里拉酒店， 深圳市福田区益田路4088号， 中国，518048

Date: Saturday June 8, 2:00pm-3:45pm
Location: Grand Ballroom 3, Futian Shangri-La, Shenzhen, 4088 Yi Tian Road, Futian District, Shenzhen 518048, China

Agenda:

演讲题目和摘要 Titles and Abstracts: 

• 杨林峰 Yang Linfeng, 华大科技研发总监 R&D Director, BGI Tech
  Total Solutions for Complex Genome Assembly Base on Nanopore Technology
  • 摘要：
    Abstract: As a leading service provider in the field, BGI has sequenced 160 important plant and animal genomes, in collaboration with worldwide scientists. With advancing in sequencing technologies, genome sequencing become much easier than before. However, de novo assembly of complex genomes could still be challenging. In this regard, we developed a total solution package based on Oxford Nanopore Technologies (ONT), Hi-C technology, and single tube Long Fragment Read (stLFR) technology developed by BGI. In this study, we sequenced, and de novo assembled complex genomes with high repeat content, or high heterozygous rate, or polyploid and large genome size using customized assembly strategies. The statistics show that high-quality assemblies for complex genome can be achieved with ONT long reads and our versatile solution package.
• 周钢博士 Dr. Zhou Gang, 百迈客 Biomarker
  基于Nanopore技术的长读长测序的发展和应用, Development and Application of Long-read Sequencing Based on Nanopore Technology
  • 摘要： 近年来，测序技术的飞速发展已极大拓展了我们鉴定生物学样本的能力。尽管第二代测序技术（NGS）能够生成大量且便宜的长读长，它的短读长序列和缺乏上下文背景信息，限制了它在基因组组装和解析复杂及基因组重复区域的使用。与NSG形成对比的是，第三代测序（TGS）产生的读长更长。 Oxford Nanopore Technologies研发了一种基于纳米孔测序的新型TGS平台，相比其它测序仪，能够在更快的测序时间内生成长度为数万碱基的读长。在这里，我们将介绍ONT平台在百迈客的发展历程以及其测序仪的性能。首先，我们展示的是纳米孔测序数据在从头组装（De novo），尤其是对复杂基因组组装的巨大优势。我们评估了纳米孔数据在重测序分析中检测结构变异的能力。我们接下来展示的是在全长转录组中的应用。对于表观遗传学研究，数据显示ONT平台能够通过直接DNA测序检测基因组甲基化水平的变化。我们还会讨论它在微生物群组中的应用。
    Abstract: In recent years, the rapid development of sequencing technology has greatly expanded our ability to characterize biological samples. Although second-generation sequencing (NGS) technology can generates short reads massively and cheaply, their short reads and lack of contextual information has limited their utility in genome assembly and in resolving complex and repetitive regions of the genome. In contrast to NGS technology, Third-generation sequencing (TGS) technologies produces longer reads. The Oxford Nanopore Technologies developed a new TGS platform based on nanopore sequencing that is able to generate reads of tens of kilobases in length with faster sequencing time with respect to other sequencers. Here, we will introduce the development history of ONT platform in Biomarker and the performance of the sequencer. First, we present the great advantage of nanopore sequencing data in De novo assembly especially for complex genomes. We have evaluated the capability of nanopore data in detection of structural variants for resequencing analyses. Then we display the application on Full-length transcriptome. For epigenetic study, the results indicated that ONT platform can detect changes in genomic DNA methylation levels by direct DNA sequencing. And we also discuss the application in the study of microbiomes.
• 博士 Min Sung Park, 希未来组/希望组 研究院院长 NextOmics/GrandOmics
  New Revolution in Animal and Plant Genome Sciences
  • 摘要：
    Abstract: While a tremendous progress has been made in the field of genome sequencing due to the second-generation sequencing technologies, a new revolution is rapidly taking place in genome science and genomic medicine because of the invention of long-read sequencing technologies. The game changing nanopore sequencing technology from ONT (Oxford Nanopore Technologies) has been solving the challenges of assembling large and complex plant and animal genomes. Long-read sequencing can shed lights to the areas of genomes that produce no or a limited number of reads, and the areas that produce large amount sequencing errors that challenges bioinformatics solutions. These areas are common in plant and animal genomes which have high heterozygosity, whole genome duplications, polyploidy, and low complexity. As the first ONT service provider in Asia, GrandOmics Group (NextOmics and GrandOmics Biosciences) has been leading the field of ONT-platform-based long-read sequencing. Equipped with our unique capability to routinely produce a large number of sequencing reads >100kb on a high yield PromethION sequencer, in combination with our fast and accurate Next-DeNovo assembler, we have successfully assembled a ~40Gb animal genome and more. In this talk, I will introduce various capabilities of Grandomics Group, and discuss technical details and scientific results that demonstrate the power of ONT platform in long-read sequencing, which is revolutionizing animal and plant genome sciences