.png){kind=icon}
返回
Linked read technology for assembling large complex and polyploid genomes
.png){kind=icon}
OA
AI
DOI：10.1186/s12864-018-5040-z.png)
.png){kind=icon}
.png){kind=icon}
分享.png){kind=icon}
收藏
摘要
En 中文
Background: Short read DNA sequencing technologies have revolutionized genome assembly by providing high accuracy and throughput data at low cost. But it remains challenging to assemble short read data, particularly for large, complex and polyploid genomes. The linked read strategy has the potential to enhance the value of short reads for genome assembly because all reads originating from a single long molecule of DNA share a common barcode. However, the majority of studies to date that have employed linked reads were focused on human haplotype phasing and genome assembly. Results: Here we describe a de novo maize B73 genome assembly generated via linked read technology which contains similar to 172,000 scaffolds with an N50 of 89 kb that cover 50% of the genome. Based on comparisons to the B73 reference genome, 91% of linked read contigs are accurately assembled. Because it was possible to identify errors with > 76% accuracy using machine learning, it may be possible to identify and potentially correct systematic errors. Complex polyploids represent one of the last grand challenges in genome assembly. Linked read technology was able to successfully resolve the two subgenomes of the recent allopolyploid, proso millet (Panicum miliaceum). Our assembly covers similar to 83% of the 1 Gb genome and consists of 30,819 scaffolds with an N50 of 912 kb. Conclusions: Our analysis provides a framework for future de novo genome assemblies using linked reads, and we suggest computational strategies that if implemented have the potential to further improve linked read assemblies, particularly for repetitive genomes.
Keyword:
Genome assembly
Long molecule sequencing
Polyploid assembly
AI总结
对已上传原文的论文进行重点信息的提取，主要内容包括：简要概述、研究摘要、背景介绍、关键亮点、图文解析、展望与总结。
期刊
IF:
3.7
论文数:
1.9W
被引数:
5.2W
机构
引用论文
Immunization by particle bombardment of antigen-loaded poly-(dl-lactide-co-glycolide) microspheres in mice.png)
Vaccine
VaccineIF0
PREAI
分享收藏Haplotyping germline and cancer genomes with high-throughput linked-read sequencingNATURE BIOTECHNOLOGYOAAI
NATURE BIOTECHNOLOGYIF41.7
OAAI分享收藏Finding and Comparing Syntenic Regions among Arabidopsis and the Outgroups Papaya, Poplar, and Grape: CoGe with RosidsPLANT PHYSIOLOGYOAAI
PLANT PHYSIOLOGYIF6.9
OAAI分享收藏Repetitive DNA and next-generation sequencing: computational challenges and solutions重复DNA和下一代测序: 计算挑战和解决方案OAAI
OAAI分享收藏
查看更多内容