| Bacterial and virus strains |
|
| Bundibugyo virus/H.sapiens-tc/UGA/2007/Butalya-811250, RefSeq #NC_014373 and GenBank #FJ217161
|
Kuhn et al.22
|
https://www.ncbi.nlm.nih.gov/entrez/viewer.fcgi?db=nucleotide&val=FJ217161 |
|
| Chemicals, peptides, and recombinant proteins |
|
| DNase I |
Thermo Scientific |
EN0521 |
| Trizol-LS reagent |
Thermo Scientific |
10296028 |
|
| Critical commercial assays |
|
| Nextera XT DNA library preparation kit |
Illumina |
FC-131-1024 |
| QIAmp DNA Preparation kit |
QIAGEN |
# 51104 |
|
| Deposited data |
|
|
MT680256 (P0), MT680248 (P1) |
Case ID #4 |
https://www.ncbi.nlm.nih.gov/nuccore/MT680256.1?report=genbankhttps://www.ncbi.nlm.nih.gov/nuccore/MT680248.1?report = GenBank
|
|
MT680245 (P0), MT680262 (P1) |
Case ID #22 |
https://www.ncbi.nlm.nih.gov/nuccore/MT680245.1?report=genbankhttps://www.ncbi.nlm.nih.gov/nuccore/MT680262.1?report = GenBank
|
|
MT680254 (P1) |
Case ID #135 |
https://www.ncbi.nlm.nih.gov/nuccore/MT680254.1?report = GenBank |
|
MT680261 (P0) |
Case ID #130 |
https://www.ncbi.nlm.nih.gov/nuccore/MT680261.1?report = GenBank |
|
MT742157 (P0) |
Case ID #120 |
https://www.ncbi.nlm.nih.gov/nuccore/MT742157.1?report = GenBank |
|
MT680255 (P1) |
Case ID #138 |
https://www.ncbi.nlm.nih.gov/nuccore/MT680255.1?report = GenBank |
|
MT680258 (P0), MT680250 (P1) |
Case ID #74 |
https://www.ncbi.nlm.nih.gov/nuccore/MT680258.1?report = GenBankhttps://www.ncbi.nlm.nih.gov/nuccore/MT680250.1?report = GenBank
|
|
MT680260 (P0) |
Case ID #116 |
https://www.ncbi.nlm.nih.gov/nuccore/MT680260.1?report = GenBank |
|
| Experimental models: Cell lines |
|
|
Chlorocebus aethiops kidney epithelial: Vero E6 |
ATCC |
CRL-1586 |
|
| Oligonucleotides |
|
| Primers for SISPA reaction |
Djikeng et al.23
|
N/A |
|
| Software and algorithms |
|
| TMRCA |
Zhou and Teo |
https://rdrr.io/rforge/coalesceR/man/TMRCA.html |
| Pegas R package |
Paradis24
|
https://cran.r-project.org/web/packages/pegas/index.html |
| MAFFT |
Katoh and Standley25
|
https://mafft.cbrc.jp/alignment/software/ |
| PhyML |
Guidon et al.26
|
http://www.atgc-montpellier.fr/phyml/ |
| Cutadapt |
Martin27
|
https://cutadapt.readthedocs.io/en/stable/ |
| TempEst |
Rambaut et al.28
|
http://tree.bio.ed.ac.uk/software/tempest/ |
| Bayesian Evolutionary Analysis by Sampling Trees (BEAST) |
Baele et al.29
|
https://beast.community/ |
| TreeAnnotator 1.8.4 |
Klinkenberg et al.30
|
https://beast.community/treeannotator |
| Samtools |
Li et al.31
|
http://www.htslib.org/ |
| Inkscape |
N/A |
https://inkscape.org/ |
| PrinSeq |
Schmieder and Edward32
|
http://prinseq.sourceforge.net/ |
| DNASTAR |
SeqMan NGen®. Version 12.0. DNASTAR. Madison, WI. |
https://www.dnastar.com/ |
|
| Other |
|
| Qubit 3.0 fluorometer |
Thermo Scientific |
Q33216 |
