RT Journal Article
SR Electronic
T1 Analysis of the <em>Aedes albopictus</em> C6/36 genome provides insight into cell line adaptations to <em>in vitro</em> viral propagation
JF bioRxiv
FD Cold Spring Harbor Laboratory
SP 157081
DO 10.1101/157081
A1 Jason R Miller
A1 Sergey Koren
A1 Kari A Dilley
A1 Vinita Puri
A1 David M Brown
A1 Derek M Harkins
A1 Françoise Thibaud-Nissen
A1 Benjamin Rosen
A1 Xiao-Guang Chen
A1 Zhijian Tu
A1 Igor V Sharakhov
A1 Maria V Sharakhova
A1 Robert Sebra
A1 Timothy B Stockwell
A1 Nicholas H Bergman
A1 Granger G Sutton
A1 Adam M Phillippy
A1 Peter M Piermarini
A1 Reed S Shabman
YR 2017
UL http://biorxiv.org/content/early/2017/06/30/157081.abstract
AB Background The 50-year old Aedes albopictus C6/36 cell line is a resource for the detection, amplification, and analysis of mosquito-borne viruses including Zika, dengue, and chikungunya. The cell line is derived from an unknown number of larvae from an unspecified strain of Aedes albopictus mosquitoes. Toward improved utility of the cell line for research in virus transmission, we present an annotated assembly of the C6/36 genome.Results The C6/36 genome assembly has the largest contig N50 (3.3 Mbp) of any mosquito assembly, presents the sequences of both haplotypes for most of the diploid genome, reveals independent null mutations in both alleles of the Dicer locus, and indicates a male-specific genome. Gene annotation was computed with publicly available mosquito transcript sequences. Gene expression data from cell line RNA sequence identified enrichment of growth-related pathways and conspicuous deficiency in aquaporins and inward rectifier K+ channels. As a test of utility, RNA sequence data from Zika-infected cells was mapped to the C6/36 genome and transcriptome assemblies. Host subtraction reduced the data set by 89%, enabling faster characterization of non-host reads.Conclusions The C6/36 genome sequence and annotation should enable additional uses of the cell line to study arbovirus vector interactions and interventions aimed at restricting the spread of human disease.