From 99f8b44a5d6bc0ce7e5dbb394f75cd02ba941c97 Mon Sep 17 00:00:00 2001 From: Kristian Andersen Date: Tue, 27 Jun 2017 10:50:15 -0700 Subject: [PATCH] Update README.md --- README.md | 10 +++++----- 1 file changed, 5 insertions(+), 5 deletions(-) diff --git a/README.md b/README.md index ef58701..172b6a7 100644 --- a/README.md +++ b/README.md @@ -2,26 +2,26 @@ Serum was obtained from a single patient during the 2013 Dengue virus serotype 1 outbreak in Martin County in Florida. Patient serum (250uL) was inoculated into a T-25 flask of C6/36 cells, incubated @ RT for 20 days, blind passaged, and incubated for another 31 days. After this first passage, the sample was split into two and one sample (DV1_Vero) was subject to one additional passage in Vero cells, and the other sample (DV1_c6/36) was subject to one additional passage in C6/36 cells. -**Sequencing** +#### Sequencing RNA was extracted and metagenomic sequencing was performed on the Illumina MiSeq after rRNA depletion following the protocol in Matranga et al. (Genome Biol 2014). -**Samples** +#### Samples DV1_vero One passage in C6/36 cells, one additional passage in Vero cells DV1_c6/36 One passage in C6/36 cells, one additional passage in C6/36 cells Both consensus sequences were identical - this was confirmed by additional sequencing of biological replicates (separate RNA extractions) -**Alignment** +#### Alignment ORF-complete DENV-1 genomes were downloaded from ViPR and an alignment together with the Martin County DENV-1 sequence was created using MAFFT. -**Tree** +#### Tree A tree was created based on the MAFFT multiple sequence alignment using RAxML. -**References** +#### References [Enhanced methods for unbiased deep sequencing of Lassa and Ebola RNA viruses from clinical and biological samples](https://www.ncbi.nlm.nih.gov/pubmed/25403361).