With the rapid development of next-generation sequencing technology，de novo sequencing enables the construction of the first genome map of specific species and lays the foundation for subsequent research, including identification the origin of species, evolution, and adaptation to specific environments.
Simple genome refers to the genome of haploid with low repeat content (lower than 50%) or diploid with low heterozygous rate (lower than 0.5%), such as most of the mammals, birds, and cultivated crops.
Complex genome refers to the genome of diploid or polyploidy with high repeat content (higher than 50%) or high heterozygous rate (higher than 0.5%), such as most of the arbor, aquatic and insects, etc.
- Moderately heterozygous genome (diploid)
- High heterozygous genome (diploid)
- Highly repetitive genome (diploid)
- DNA amount for survey: ≥10 µg
- DNA amount for RAD-seq: ≥3 µg
- DNA amount for genome de novo sequencing: ≥500 µg
- DNA concentration: ≥50 ng/μL
- Purity: OD 260/280= 1.8-2.0 without degradation and RNA contamination
- Huang S, Li R, Zhu H, et al. The genome of the cubumber Cucumis sativus L. Nature genetics. 2009. 41: 1275-1281.
- Li R, Zhu H, Zhou G, et al. Building the sequence map of the human pan-genome. Nature Biotechnology. 2009. 28: 57-63.
- Li R, et al. The sequence and de novo assembly of the giant panda genome. Nature. 2010. 463:311-317.
- Li R, et al. The genome of the mesohexaploid crop species Brassica rapa. Nature. 2011. 8: 1035-1039.
- Qu Y, Zhao H, Li R and Lei F. Ground tit genome reveals avian adaptation to living at high altitudes in the Tibetan plateau. Nature communications. 2013. 4: 2071.
- Li M, Tian S, Li R. Genomic analyses identify distinct patterns of selection in domesticated pigs and Tibetan wild boars. Nature genetics. 2013. 45(12): 1431-1438.