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Issue:ISSN 1000-7083
          CN 51-1193/Q
Director:Sichuan Association for Science and Technology
Sponsored by:Sichuan Society of Zoologists; Chengdu Giant Panda Breeding Research Foundation; Sichuan Association of Wildlife Conservation; Sichuan University
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Whole Genome Sequencing and Analysis of Medicinal American cockroach (Periplaneta americana)
Author of the article:JIN Jia-zheng
Author's Workplace:1 Key Laboratory of Bioresources and Ecoenvironment (Ministry of Education), College of Life Sciences, Sichuan University, Chengdu,Sichuan 610065, China; 2 Sichuan Key Laboratory of Medicinal American cockroach, Xichang, Sichuan 615000, China; 3 Sichuan medicinal animals Engineering Research Center, Xichang, Sichuan 615000, China.
Key Words:American cockroach; Periplaneta americana; whole genome sequencing; genome assembly; genome annotation
Abstract:In this study, the whole genome of medicinal American cockroach (Periplaneta americana), was firstly sequenced by Illumina HiSeq 2000 and PacBio SMRT platforms. In total, 1.4 Tb Illumina data and 33.81 Gb Pacbio data were retained after the quality control of the raw sequence data. These clean data were used to assemble the whole genome of American cockroach. The final assembly genome was around 3.26 Gb, with the repeats sequences proportion of 62.38% and the heterozygosity rate of 0.635%, which indicated that the American cockroach genome was a highly hybrid one and its size only smaller than Locusta migratoria within all the reported insect genomes. The contig N50 length and scaffold N50 length were 28.2 kb and 314 kb, respectively. BUSCO analysis showed that 88.1% of the single copy orthologs were completely detected. Finally,14568 genes were identified by homology-based prediction,De novo prediction and transcriptome-based prediction, and 92.4% of them could be functionally annotated. This is the first sequenced insect in Periplaneta genus and will be very important for further genome based analysis and medicinal developments.
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