Sequencing,annotation and comparative analysis of nine BACs of the giant panda(Ailuropoda melanoleuca)  

作　　者：ZHENG Yang1,2,3,CAI Jing4,LI JianWen3,6,LI Bo3,LIN RunMao3,TIAN Feng3,WANG XiaoLing3 & WANG Jun3,5 1Beijing Institute of Genomics,Chinese Academy of Sciences(CAS),Beijing 100029,China 2College of Life Science,Graduate University of Chinese Academy of Sciences,Beijing 100049,China 3Beijing Genomics Institute at Shenzhen,Shenzhen 518083,China 4CAS-Max Planck Junior Research Group on Evolutionary Genomics,State Key Laboratory of Genetic Resources and Evolution,Kunming Institute of Zoology,Chinese Academy of Sciences(CAS),Kunming 650223,China 5Department of Biology,University of Copenhagen,Copenhagen DK-2200,Denmark 6School of Biological Science and Engineering,South China University of Technology,Guangzhou 510006,China 

出　　处：《Science China(Life Sciences)》2010年第1期107-111,共5页中国科学（生命科学英文版）

摘　　要：A 10-fold BAC library for the giant panda was constructed and nine BACs were selected to generate finish sequences.These BACs could be used as a validation resource for the de novo assembly accuracy of the whole genome shotgun sequencing reads of the giant panda newly generated by Illumina GA sequencing technology.Complete Sanger sequencing,assembly,annotation and comparative analysis were carried out on the selected BACs of a joint length 878 kb.Homologue search and de novo prediction methods were used to annotate genes and repeats.Twelve protein coding genes were predicted,seven of which could be functionally annotated.The seven genes have an average gene size of about 41 kb,an average coding size of about 1.2 kb and an average exon number of 6 per gene.Besides,seven tRNA genes were found.About 27 percent of the BAC sequence is composed of repeats.A phylogenetic tree was constructed using a neighbor-join algorithm across five species,including the giant panda,human,dog,cat and mouse,which reconfirms dog as the most closely related species to the giant panda.Our results provide detailed sequence and structure information for new genes and repeats of the giant panda,which will be helpful for further studies about the giant panda.A 10-fold BAC library for the giant panda was constructed and nine BACs were selected to generate finish sequences.These BACs could be used as a validation resource for the de novo assembly accuracy of the whole genome shotgun sequencing reads of the giant panda newly generated by Illumina GA sequencing technology.Complete Sanger sequencing,assembly,annotation and comparative analysis were carried out on the selected BACs of a joint length 878 kb.Homologue search and de novo prediction methods were used to annotate genes and repeats.Twelve protein coding genes were predicted,seven of which could be functionally annotated.The seven genes have an average gene size of about 41 kb,an average coding size of about 1.2 kb and an average exon number of 6 per gene.Besides,seven tRNA genes were found.About 27 percent of the BAC sequence is composed of repeats.A phylogenetic tree was constructed using a neighbor-join algorithm across five species,including the giant panda,human,dog,cat and mouse,which reconfirms dog as the most closely related species to the giant panda.Our results provide detailed sequence and structure information for new genes and repeats of the giant panda,which will be helpful for further studies about the giant panda.

关 键 词：giant PANDA BAC SEQUENCING assembly ANNOTATION evolution 

分 类 号：Q78[生物学—分子生物学]