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Assembly of anhydrobiotic midge Polypedilum vanderplanki genome using Illumina and PacBio data

O.S. Kozlova*, Z.I. Abramova**

Kazan Federal University, Kazan, 420008 Russia

E-mail: *olga-sphinx@yandex.ru, **ziabramova@mail.ru

Received March 6, 2018

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Abstract

A completely new version of assembly of the African anhydrobiotic midge Polypedilum vanderplanki genome derived by deep DNA sequencing of the Pv11 cell line has been discussed. The input data include paired-end and mate-paired reads with various in­sert sizes supplemented with ultra-long reads of Pacific Biosciences platform sequencing. We have shown that the resulting set of scaffolds has higher continuity and completeness metrics and, besides, can provide more correct predictions of coding sequences as compared to the previous assembly version, which has been demonstrated based on heat-shock proteins HSP20 and HSP70.

Keywords: Polypedilum vanderplanki, anhydrobiosis, DNA sequencing, genome assembly

Acknowledgments. The work is performed according to the Russian Government Program of Competitive Growth of Kazan Federal University.

Figure Captions

Fig. 1. Factor distribution histogram of 21-mers based on all Illumina data. Red line – approximation of the entire statistical model (erroneous k-mers and genomic k-mers), blue and green lines – approximation of the models for heterozygous and homozygous k-mers, respectively.

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For citation: Kozlova O.S., Abramova Z.I. Assembly of anhydrobiotic midge Polypedilum vanderplanki genome using Illumina and PacBio data. Uchenye Zapiski Kazanskogo Universiteta. Seriya Estestvennye Nauki, 2018, vol. 160, no. 2, pp. 214–226. (In Russian)

 

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Assembly of anhydrobiotic midge Polypedilum vanderplanki genome using Illumina and PacBio data