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Improved reference genome of the arboviral vector Aedes albopictus

Umberto Palatini 1 Reem Masri 2 Luciano Cosme 3 Sergey Koren 4 Francoise Thibaud-Nissen 5 James Biedler 2 Flavia Krsticevic 6 J. Spencer Johnston 7 Rebecca Halbach 8 Jacob Crawford 9 Igor Antoshechkin 10 Anna-Bella Failloux 11 Elisa Pischedda 1 Michele Marconcini 1 Jay Ghurye 4 Arang Rhie 4 Atashi Sharma 2 Dmitry Karagodin 12 Jeremy Jenrette 2 Stephanie Gamez 13 Pascal Miesen 8 Patrick Masterson 5 Adalgisa Caccone 3 Maria Sharakhova 2, 12, 14 Zhijian Tu 2 Philippos Papathanos 6 Ronald van Rij 8 Omar Akbari 13 Jeffrey Powell 3 Adam Phillippy 15, 4 Mariangela Bonizzoni 1, *
* Corresponding author
1 Dipartimento di Biologia e Biotecnologie ‘Lazzaro Spallanzani’, University of Pavia
University of Pavia
2 Virginia Polytechnic Institute and State University [Blacksburg]
3 Department of Ecology and Evolutionary Biology [New Haven]
4 NHGRI - National Human Genome Research Institute
5 NCBI - National Center for Biotechnology Information
6 HUJ - The Hebrew University of Jerusalem
7 Texas A&M University [College Station]
8 Radboud University Medical Center [Nijmegen]
9 Verily Life Sciences Inc
10 CALTECH - California Institute of Technology
11 Arbovirus et Insectes Vecteurs
12 SB RAS - Siberian Branch of the Russian Academy of Sciences
13 UC San Diego - University of California [San Diego]
14 Tomsk State University [Tomsk]
15 National Biodefense Analysis and Countermeasures Center [Frederick]
Abstract : Background: The Asian tiger mosquito Aedes albopictus is globally expanding and has become the main vector for human arboviruses in Europe. With limited antiviral drugs and vaccines available, vector control is the primary approach to prevent mosquito-borne diseases. A reliable and accurate DNA sequence of the Ae. albopictus genome is essential to develop new approaches that involve genetic manipulation of mosquitoes. Results: We use long-read sequencing methods and modern scaffolding techniques (PacBio, 10X, and Hi-C) to produce AalbF2, a dramatically improved assembly of the Ae. albopictus genome. AalbF2 reveals widespread viral insertions, novel microRNAs and piRNA clusters, the sex-determining locus, and new immunity genes, and enables genome-wide studies of geographically diverse Ae. albopictus populations and analyses of the developmental and stage-dependent network of expression data. Additionally, we build the first physical map for this species with 75% of the assembled genome anchored to the chromosomes. Conclusion: The AalbF2 genome assembly represents the most up-to-date collective knowledge of the Ae. albopictus genome. These resources represent a foundation to improve understanding of the adaptation potential and the epidemiological relevance of this species and foster the development of innovative control measures.
Keywords : Ae. albopictus Developmental transcriptome Genome Immunity Population differentiation Sex locus Viral integrations miRNAs piRNA clusters
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Submitted on : Monday, September 7, 2020 - 4:15:30 PM
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Umberto Palatini, Reem Masri, Luciano Cosme, Sergey Koren, Francoise Thibaud-Nissen, et al.. Improved reference genome of the arboviral vector Aedes albopictus. Genome Biology, BioMed Central, 2020, 21 (1), pp.215. ⟨10.1186/s13059-020-02141-w⟩. ⟨pasteur-02932283⟩

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