Journal
GENES
Volume 9, Issue 1, Pages -Publisher
MDPI
DOI: 10.3390/genes9010006
Keywords
genome assembly; long reads; Sanger sequencing; Next Generation Sequencing; Third Generation Sequencing
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Funding
- China Agriculture Research System [CARS-06]
- Ministry of Science and Technology of China [2016YFD0100503]
- National Natural Science Foundation of China [31670366]
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Plant genomes generated by Sanger and Next Generation Sequencing (NGS) have provided insight into species diversity and evolution. However, Sanger sequencing is limited in its applications due to high cost, labor intensity, and low throughput, while NGS reads are too short to resolve abundant repeats and polyploidy, leading to incomplete or ambiguous assemblies. The advent and improvement of long-read sequencing by Third Generation Sequencing (TGS) methods such as PacBio and Nanopore have shown promise in producing high-quality assemblies for complex genomes. Here, we review the development of sequencing, introducing the application as well as considerations of experimental design in TGS of plant genomes. We also introduce recent revolutionary scaffolding technologies including BioNano, Hi-C, and 10x Genomics. We expect that the informative guidance for genome sequencing and assembly by long reads will benefit the initiation of scientists' projects.
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