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The sequence and de novo assembly of the giant panda genome.

Authors :
Ruiqiang Li
Wei Fan
Geng Tian
Hongmei Zhu
Lin He
Jing Cai
Quanfei Huang
Qingle Cai
Bo Li
Yinqi Bai
Zhihe Zhang
Yaping Zhang
Wen Wang
Li, Jun
Fuwen Wei
Heng Li
Min Jian
Jianwen Li
Zhaolei Zhang
Nielsen, Rasmus
Source :
Nature; 1/21/2010, Vol. 463 Issue 7279, p311-317, 7p, 3 Diagrams, 1 Chart, 2 Graphs
Publication Year :
2010

Abstract

Using next-generation sequencing technology alone, we have successfully generated and assembled a draft sequence of the giant panda genome. The assembled contigs (2.25 gigabases (Gb)) cover approximately 94% of the whole genome, and the remaining gaps (0.05 Gb) seem to contain carnivore-specific repeats and tandem repeats. Comparisons with the dog and human showed that the panda genome has a lower divergence rate. The assessment of panda genes potentially underlying some of its unique traits indicated that its bamboo diet might be more dependent on its gut microbiome than its own genetic composition. We also identified more than 2.7 million heterozygous single nucleotide polymorphisms in the diploid genome. Our data and analyses provide a foundation for promoting mammalian genetic research, and demonstrate the feasibility for using next-generation sequencing technologies for accurate, cost-effective and rapid de novo assembly of large eukaryotic genomes. [ABSTRACT FROM AUTHOR]

Details

Language :
English
ISSN :
00280836
Volume :
463
Issue :
7279
Database :
Complementary Index
Journal :
Nature
Publication Type :
Academic Journal
Accession number :
47623668
Full Text :
https://doi.org/10.1038/nature08696