title: Illumina HiSeq 1500 paired end sequencing; Inter- and intra-lineage genetic diversity of wild-type Zika viruses reveals both common and distinctive nucleotide variants and clusters of genomic diversity
design: Inter- and intra-lineage genetic diversity of wild-type Zika viruses reveals both common and distinctive nucleotide variants and clusters of genomic diversity
library_construction_protocol: Cell supernatant was collected when infected monkey kidney Vero cells showed 80% cytopathic effect (CPE). Stock viruses were obtained from the World Reference Center for Emerging Viruses and Arboviruses (WRCEVA) at the University of Texas Medical Branch and passaged once in monkey kidney Vero cells in minimum essential media MEM supplemented with 2 mM L-glutamine, 0.1 mM non-essential amino acids, 100 U/ml penicillin – 100 μg/ml streptomycin, and 2% fetal bovine serum for amplification. RNA from the Zika virus isolates were extracted using QIAamp Viral RNA mini kit (Qiagen), following the manufacturer's guidelines. NGS libraries were constructed using random TruSeq RNA v2 kit as recommended by the manufacturer.
attributes.tag: Experimental Factor: strain
attributes.value: MR766