Supplementary Materials for: Discovery of a novel merbecovirus clone contaminating agricultural rice sequencing datasets from Wuhan, China
Creators
- 1. Independent
- 2. Department of Biology, University of Puerto Rico - Rio Piedras, San Juan, PR 00931, USA
- 3. Youthereum Genetics Inc., Toronto, Ontario, Canada
- 4. Department of Chemistry and Physics, Halmos College of Arts and Sciences, Nova Southeastern University. Ft. Lauderdale, FL, USA
- 5. Atossa Therapeutics, Inc., Seattle, WA 98104 USA
Description
Supplementary Materials for
Discovery of a novel merbecovirus DNA clone contaminating agricultural rice sequencing datasets from Wuhan, China
Adrian Jones, Daoyu Zhang, Steven E. Massey, Yuri Deigin, Louis R. Nemzer, Steven C. Quay
Supplementary Information
Supp_Info_1.xlsx: BioProject PRJNA602160 SRA analysis.
Supp_Info_2.xlsx: Mitochondrial sequence analysis for all SRA datasets in BioProject PRJNA602160.
Supp_Info_3.xlsx: MERS-CoV sequence analysis from SRA datasets in BioProject PRJNA602160.
Supp_Infor_4.xlsx: Analysis results for control datasets in PRJNA602115.
Supplementary Data
Snapgene annotated image of HKU4r-HZAU-2020 clone:
SRR10915173_megahit_default_fastp_HKU4r-CoV_IC_k141_13283_del_149bp_Map.png
HKU4r-HZAU-2020 complete sequence in fasta format: HKU4r-HZAU_2020_SRR10915173_k141_13283_del_149.fa
HKU4r-HZAU-2020 annotated full clone in GenBank format: SRR10915173_megahit_default_fastp_HKU4r-CoV_IC_k141_13283_del_149bp.gbk
HKU4r-HZAU-2020 genome only without synthetic vectors in fasta format: HKU4r-HZAU-2020_complete_genome_only.fa
HKU4r-HZAU-2020 annotated genome only in GenBank format: SRR10915173_megahit_default_fastp_HKU4r-CoV_IC_k141_13283_del_149bp_genome_only.gbk
Contigs with high identity to the MERS-CoV genome (NC_019843.3) assembled from pooled SRAs SRR10915167, SRR10915168, SRR10915173, SRR10915174 in fasta format: MEGAHIT_MERS_NC_19843.3_spike_contigs.fa.
Three-dimensional model of the RBD of the HKU4r-HZAU-2020 clone: HKU4r-HZAU-2020_RBD.pdb
Reads in SRR10915167-8 and SRR10915173-4 mapping to the HKU4r-HZAU-2020 clone using minimap2:
SRR10915167-68_73-74_k141_13283_rc_del_149_minimap2_samclip_25.bam
CoronaSPAdes default de novo assembled contigs aligned to the HKU4r-HZAU-2020 clone using minimap2:
SRR10915173_coronaspades_default_k141_13283_rc_del_149_minimap2.bam
SPAdes careful de novo assembled contigs aligned to the HKU4r-HZAU-2020 clone using minimap2:
SRR10915173_spades_careful_k141_13283_rc_del_149_minimap2.bam
metaxa2 rRNA sequences de novo assembled using MEGAHIT:
metaxa2_contigs.zip
Reads from pooled datasets SRR10915167-8 and SRR10915173-4 aligned to S gene section of MERS-CoV genome (NC_019843.3):
SRR10915167-68_73-74_NC_019843_3_S_gene_minimap2.sam
Reads mapping to MERS-CoV (NC_019843.3) S gene and crossing it’s 5’ and 3’ ends showing S gene insertion into HKU4r-HZAU-2020 backbone:
NC_19843.3_spike_gene_3prime_read_stats.txt
NC_19843.3_spike_gene_5prime_read_stats.txt
Files
Supp_Data.zip
Files
(2.3 MB)
Name | Size | Download all |
---|---|---|
md5:d1dea726e9636f0db8831eee17731ae0
|
1.5 MB | Preview Download |
md5:cfc5d5d0c960cfd14e034714f444551a
|
463.0 kB | Download |
md5:ef829b0d248ed0754543caa55d289878
|
113.6 kB | Download |
md5:c0ec180a676cc201c47a895a103ce3e8
|
52.5 kB | Download |
md5:b631b4b3a9b22f05cb88bb5ab02aa788
|
151.6 kB | Download |