8. Databases

8.1. EDGE provided databases

8.1.2. NCBI Refseq

EDGE prebuilt blast db and bwa_index of NCBI RefSeq genomes.

see $EDGE_HOME/database/bwa_index/id_mapping.txt for all gi/accession to genome name lookup table.

8.1.3. Krona taxonomy

8.1.3.1. Update Krona taxonomy db

Go to the folder in the KronaTools installation and run (internet required)

cd $EDGE_HOME/thirdParty/KronaTools-2.7/
./updateTaxonomy.sh
./updateAccessions.sh

This uses about 16 GB of disk space and an additional 16 GB of scratch space during installation (at the time of this writing; it is always growing) and takes minutes or up to an hour to run.

8.1.4. Metaphlan4 database

MetaPhlAn 4 relies on ~5.1M unique clade-specific marker genes identified from ~1M microbial genomes (~236,600 references and 771,500 metagenomic assembled genomes) spanning 26,970 species-level genome bins (SGBs, http://segatalab.cibio.unitn.it/data/Pasolli_et_al.html), 4,992 of them taxonomically unidentified at the species level.

8.1.5. Human Genome

The bwa index is prebuilt in the EDGE. The human hs_ref_GRCh38 sequences from NCBI ftp site.

8.1.6. Kraken2 DB

Kraken2 is a system for assigning taxonomic labels to short DNA sequences, usually obtained through metagenomic studies. Kraken2 database in EDGE is a pre-built database constructed from Refseq bacteria, archaea, and viral libraries and the GRCh38 human genome and UniVec_Core in RefSeq (as of Dec, 2021).

8.1.7. Centrifuge DB

Centrifuge is a very rapid and memory-efficient system for the classification of DNA sequences from microbial samples, with better sensitivity than and comparable accuracy to other leading systems. The database includes human genome, prokaryotic genomes, and viral genomes including 106 SARS-CoV-2 complete genomes. (as of Mar 29, 2020)

8.1.8. GOTTCHA DB

A novel, annotation-independent and signature-based metagenomic taxonomic profiling tool.

8.1.9. SNPdb

SNP database based on whole genome comparison. Current available db are Ecoli, Yersinia, Francisella, Brucella, Bacillus .

8.1.10. Invertebrate Vectors of Human Pathogens

The bwa index is prebuilt in the EDGE.

version: 2014 July 24

8.1.11. NCBI Nucleotide database (NT) database

8.1.12. VFDB

A Microbial database of virulence factors

8.1.13. ARDB

Antibiotic Resistance Genes Database

8.1.14. CARD

The Comprehensive Antibiotic Resistance Database

8.1.15. Amplicon: 16s/18s/ITS

For QIIME (Quantitative insights into Microbial Ecology) analysis (scikit-learn=0.24.1)

8.2. Building bwa index

Here take human genome as example.

  1. Download the human hs_ref_GRCh38 sequences from NCBI ftp site:

    wget ftp://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/000/001/405/GCA_000001405.28_GRCh38.p13/GCA_000001405.28_GRCh38.p13_genomic.fna.gz
    
  2. Use the installed bwa to build the index:

    $EDGE_HOME/bin/bwa index -p human_ref_GRCh38 GCA_000001405.28_GRCh38.p13_genomic.fna.gz
    
Now, you can configure the config file with “host=/path/to/human_ref_GRCh38” for host removal step.

8.3. SNP database genomes

SNP database was pre-built from the below genomes.

8.3.1. Ecoli Genomes

Name Description URL
Ecoli_042 Escherichia coli 042, complete genome http://www.ncbi.nlm.nih.gov/nuccore/387605479
Ecoli_11128 Escherichia coli O111:H- str. 11128, complete genome http://www.ncbi.nlm.nih.gov/nuccore/260866153
Ecoli_11368 Escherichia coli O26:H11 str. 11368 chromosome, complete genome http://www.ncbi.nlm.nih.gov/nuccore/260853213
Ecoli_12009 Escherichia coli O103:H2 str. 12009, complete genome http://www.ncbi.nlm.nih.gov/nuccore/260842239
Ecoli_2009EL2050 Escherichia coli O104:H4 str. 2009EL-2050 chromosome, complete genome http://www.ncbi.nlm.nih.gov/nuccore/410480139
Ecoli_2009EL2071 Escherichia coli O104:H4 str. 2009EL-2071 chromosome, complete genome http://www.ncbi.nlm.nih.gov/nuccore/407466711
Ecoli_2011C3493 Escherichia coli O104:H4 str. 2011C-3493 chromosome, complete genome http://www.ncbi.nlm.nih.gov/nuccore/407479587
Ecoli_536 Escherichia coli 536, complete genome http://www.ncbi.nlm.nih.gov/nuccore/110640213
Ecoli_55989 Escherichia coli 55989 chromosome, complete genome http://www.ncbi.nlm.nih.gov/nuccore/218693476
Ecoli_ABU_83972 Escherichia coli ABU 83972 chromosome, complete genome http://www.ncbi.nlm.nih.gov/nuccore/386637352
Ecoli_APEC_O1 Escherichia coli APEC O1 chromosome, complete genome http://www.ncbi.nlm.nih.gov/nuccore/117622295
Ecoli_ATCC_8739 Escherichia coli ATCC 8739 chromosome, complete genome http://www.ncbi.nlm.nih.gov/nuccore/170018061
Ecoli_BL21_DE3 Escherichia coli BL21(DE3) chromosome, complete genome http://www.ncbi.nlm.nih.gov/nuccore/387825439
Ecoli_BW2952 Escherichia coli BW2952 chromosome, complete genome http://www.ncbi.nlm.nih.gov/nuccore/238899406
Ecoli_CB9615 Escherichia coli O55:H7 str. CB9615 chromosome, complete genome http://www.ncbi.nlm.nih.gov/nuccore/291280824
Ecoli_CE10 Escherichia coli O7:K1 str. CE10 chromosome, complete genome http://www.ncbi.nlm.nih.gov/nuccore/386622414
Ecoli_CFT073 Escherichia coli CFT073 chromosome, complete genome http://www.ncbi.nlm.nih.gov/nuccore/26245917
Ecoli_DH1 Escherichia coli DH1, complete genome http://www.ncbi.nlm.nih.gov/nuccore/387619774
Ecoli_Di14 Escherichia coli str. ‘clone D i14’ chromosome, complete genome http://www.ncbi.nlm.nih.gov/nuccore/386632422
Ecoli_Di2 Escherichia coli str. ‘clone D i2’ chromosome, complete genome http://www.ncbi.nlm.nih.gov/nuccore/386627502
Ecoli_E2348_69 Escherichia coli O127:H6 str. E2348/69 chromosome, complete genome http://www.ncbi.nlm.nih.gov/nuccore/215485161
Ecoli_E24377A Escherichia coli E24377A chromosome, complete genome http://www.ncbi.nlm.nih.gov/nuccore/157154711
Ecoli_EC4115 Escherichia coli O157:H7 str. EC4115 chromosome, complete genome http://www.ncbi.nlm.nih.gov/nuccore/209395693
Ecoli_ED1a Escherichia coli ED1a chromosome, complete genome http://www.ncbi.nlm.nih.gov/nuccore/218687878
Ecoli_EDL933 Escherichia coli O157:H7 str. EDL933 chromosome, complete genome http://www.ncbi.nlm.nih.gov/nuccore/16445223
Ecoli_ETEC_H10407 Escherichia coli ETEC H10407, complete genome http://www.ncbi.nlm.nih.gov/nuccore/387610477
Ecoli_HS Escherichia coli HS, complete genome http://www.ncbi.nlm.nih.gov/nuccore/157159467
Ecoli_IAI1 Escherichia coli IAI1 chromosome, complete genome http://www.ncbi.nlm.nih.gov/nuccore/218552585
Ecoli_IAI39 Escherichia coli IAI39 chromosome, complete genome http://www.ncbi.nlm.nih.gov/nuccore/218698419
Ecoli_IHE3034 Escherichia coli IHE3034 chromosome, complete genome http://www.ncbi.nlm.nih.gov/nuccore/386597751
Ecoli_K12_DH10B Escherichia coli str. K-12 substr. DH10B chromosome, complete genome http://www.ncbi.nlm.nih.gov/nuccore/170079663
Ecoli_K12_MG1655 Escherichia coli str. K-12 substr. MG1655 chromosome, complete genome http://www.ncbi.nlm.nih.gov/nuccore/49175990
Ecoli_K12_W3110 Escherichia coli str. K-12 substr. W3110, complete genome http://www.ncbi.nlm.nih.gov/nuccore/388476123
Ecoli_KO11FL Escherichia coli KO11FL chromosome, complete genome http://www.ncbi.nlm.nih.gov/nuccore/386698504
Ecoli_LF82 Escherichia coli LF82, complete genome http://www.ncbi.nlm.nih.gov/nuccore/222154829
Ecoli_NA114 Escherichia coli NA114 chromosome, complete genome http://www.ncbi.nlm.nih.gov/nuccore/386617516
Ecoli_NRG_857C Escherichia coli O83:H1 str. NRG 857C chromosome, complete genome http://www.ncbi.nlm.nih.gov/nuccore/387615344
Ecoli_P12b Escherichia coli P12b chromosome, complete genome http://www.ncbi.nlm.nih.gov/nuccore/386703215
Ecoli_REL606 Escherichia coli B str. REL606 chromosome, complete genome http://www.ncbi.nlm.nih.gov/nuccore/254160123
Ecoli_RM12579 Escherichia coli O55:H7 str. RM12579 chromosome, complete genome http://www.ncbi.nlm.nih.gov/nuccore/387504934
Ecoli_S88 Escherichia coli S88 chromosome, complete genome http://www.ncbi.nlm.nih.gov/nuccore/218556939
Ecoli_SE11 Escherichia coli O157:H7 str. Sakai chromosome, complete genome http://www.ncbi.nlm.nih.gov/nuccore/15829254
Ecoli_SE15 Escherichia coli SE11 chromosome, complete genome http://www.ncbi.nlm.nih.gov/nuccore/209917191
Ecoli_SMS35 Escherichia coli SE15, complete genome http://www.ncbi.nlm.nih.gov/nuccore/387828053
Ecoli_Sakai Escherichia coli SMS-3-5 chromosome, complete genome http://www.ncbi.nlm.nih.gov/nuccore/170679574
Ecoli_TW14359 Escherichia coli O157:H7 str. TW14359 chromosome, complete genome http://www.ncbi.nlm.nih.gov/nuccore/254791136
Ecoli_UM146 Escherichia coli UM146 chromosome, complete genome http://www.ncbi.nlm.nih.gov/nuccore/386602643
Ecoli_UMN026 Escherichia coli UMN026 chromosome, complete genome http://www.ncbi.nlm.nih.gov/nuccore/218703261
Ecoli_UMNK88 Escherichia coli UMNK88 chromosome, complete genome http://www.ncbi.nlm.nih.gov/nuccore/386612163
Ecoli_UTI89 Escherichia coli UTI89 chromosome, complete genome http://www.ncbi.nlm.nih.gov/nuccore/91209055
Ecoli_W Escherichia coli W chromosome, complete genome http://www.ncbi.nlm.nih.gov/nuccore/386707734
Ecoli_Xuzhou21 Escherichia coli Xuzhou21 chromosome, complete genome http://www.ncbi.nlm.nih.gov/nuccore/387880559
Sboydii_CDC_3083_94 Shigella boydii CDC 3083-94 chromosome, complete genome http://www.ncbi.nlm.nih.gov/nuccore/187730020
Sboydii_Sb227 Shigella boydii Sb227 chromosome, complete genome http://www.ncbi.nlm.nih.gov/nuccore/82542618
Sdysenteriae_Sd197 Shigella dysenteriae Sd197, complete genome http://www.ncbi.nlm.nih.gov/nuccore/82775382
Sflexneri_2002017 Shigella flexneri 2002017 chromosome, complete genome http://www.ncbi.nlm.nih.gov/nuccore/384541581
Sflexneri_2a_2457T Shigella flexneri 2a str. 2457T, complete genome http://www.ncbi.nlm.nih.gov/nuccore/30061571
Sflexneri_2a_301 Shigella flexneri 2a str. 301 chromosome, complete genome http://www.ncbi.nlm.nih.gov/nuccore/344915202
Sflexneri_5_8401 Shigella flexneri 5 str. 8401 chromosome, complete genome http://www.ncbi.nlm.nih.gov/nuccore/110804074
Ssonnei_53G Shigella sonnei 53G, complete genome http://www.ncbi.nlm.nih.gov/nuccore/377520096
Ssonnei_Ss046 Shigella sonnei Ss046 chromosome, complete genome http://www.ncbi.nlm.nih.gov/nuccore/74310614

8.3.2. Yersinia Genomes

Name Description URL
Ypestis_A1122 Yersinia pestis A1122 chromosome, complete genome http://www.ncbi.nlm.nih.gov/nuccore/384137007
Ypestis_Angola Yersinia pestis Angola chromosome, complete genome http://www.ncbi.nlm.nih.gov/nuccore/162418099
Ypestis_Antiqua Yersinia pestis Antiqua chromosome, complete genome http://www.ncbi.nlm.nih.gov/nuccore/108805998
Ypestis_CO92 Yersinia pestis CO92 chromosome, complete genome http://www.ncbi.nlm.nih.gov/nuccore/16120353
Ypestis_D106004 Yersinia pestis D106004 chromosome, complete genome http://www.ncbi.nlm.nih.gov/nuccore/384120592
Ypestis_D182038 Yersinia pestis D182038 chromosome, complete genome http://www.ncbi.nlm.nih.gov/nuccore/384124469
Ypestis_KIM_10 Yersinia pestis KIM 10 chromosome, complete genome http://www.ncbi.nlm.nih.gov/nuccore/22123922
Ypestis_Medievalis_Harbin_35 Yersinia pestis biovar Medievalis str. Harbin 35 chromosome, complete genome http://www.ncbi.nlm.nih.gov/nuccore/384412706
Ypestis_Microtus_91001 Yersinia pestis biovar Microtus str. 91001 chromosome, complete genome http://www.ncbi.nlm.nih.gov/nuccore/45439865
Ypestis_Nepal516 Yersinia pestis Nepal516 chromosome, complete genome http://www.ncbi.nlm.nih.gov/nuccore/108810166
Ypestis_Pestoides_F Yersinia pestis Pestoides F chromosome, complete genome http://www.ncbi.nlm.nih.gov/nuccore/145597324
Ypestis_Z176003 Yersinia pestis Z176003 chromosome, complete genome http://www.ncbi.nlm.nih.gov/nuccore/294502110
Ypseudotuberculosis_IP_31758 Yersinia pseudotuberculosis IP 31758 chromosome, complete genome http://www.ncbi.nlm.nih.gov/nuccore/153946813
Ypseudotuberculosis_IP_32953 Yersinia pseudotuberculosis IP 32953 chromosome, complete genome http://www.ncbi.nlm.nih.gov/nuccore/51594359
Ypseudotuberculosis_PB1 Yersinia pseudotuberculosis PB1/+ chromosome, complete genome http://www.ncbi.nlm.nih.gov/nuccore/186893344
Ypseudotuberculosis_YPIII Yersinia pseudotuberculosis YPIII chromosome, complete genome http://www.ncbi.nlm.nih.gov/nuccore/170022262

8.3.3. Francisella Genomes

Name Description URL
Fnovicida_U112 Francisella novicida U112 chromosome, complete genome http://www.ncbi.nlm.nih.gov/nuccore/118496615
Ftularensis_holarctica_F92 Francisella tularensis subsp. holarctica F92 chromosome, complete genome http://www.ncbi.nlm.nih.gov/nuccore/423049750
Ftularensis_holarctica_FSC200 Francisella tularensis subsp. holarctica FSC200 chromosome, complete genome http://www.ncbi.nlm.nih.gov/nuccore/422937995
Ftularensis_holarctica_FTNF00200 Francisella tularensis subsp. holarctica FTNF002-00 chromosome, complete genome http://www.ncbi.nlm.nih.gov/nuccore/156501369
Ftularensis_holarctica_LVS Francisella tularensis subsp. holarctica LVS chromosome, complete genome http://www.ncbi.nlm.nih.gov/nuccore/89255449
Ftularensis_holarctica_OSU18 Francisella tularensis subsp. holarctica OSU18 chromosome, complete genome http://www.ncbi.nlm.nih.gov/nuccore/115313981
Ftularensis_mediasiatica_FSC147 Francisella tularensis subsp. mediasiatica FSC147 chromosome, complete genome http://www.ncbi.nlm.nih.gov/nuccore/187930913
Ftularensis_TIGB03 Francisella tularensis TIGB03 chromosome, complete genome http://www.ncbi.nlm.nih.gov/nuccore/379716390
Ftularensis_tularensis_FSC198 Francisella tularensis subsp. tularensis FSC198 chromosome, complete genome http://www.ncbi.nlm.nih.gov/nuccore/110669657
Ftularensis_tularensis_NE061598 Francisella tularensis subsp. tularensis NE061598 chromosome, complete genome http://www.ncbi.nlm.nih.gov/nuccore/385793751
Ftularensis_tularensis_SCHU_S4 Francisella tularensis subsp. tularensis SCHU S4 chromosome, complete genome http://www.ncbi.nlm.nih.gov/nuccore/255961454
Ftularensis_tularensis_TI0902 Francisella tularensis subsp. tularensis TI0902 chromosome, complete genome http://www.ncbi.nlm.nih.gov/nuccore/379725073
Ftularensis_tularensis_WY963418 Francisella tularensis subsp. tularensis WY96-3418 chromosome, complete genome http://www.ncbi.nlm.nih.gov/nuccore/134301169

8.3.4. Brucella Genomes

Name Description URL
Babortus_1_9941 Brucella abortus bv. 1 str. 9-941 http://www.ncbi.nlm.nih.gov/bioproject/58019
Babortus_A13334 Brucella abortus A13334 http://www.ncbi.nlm.nih.gov/bioproject/83615
Babortus_S19 Brucella abortus S19 http://www.ncbi.nlm.nih.gov/bioproject/58873
Bcanis_ATCC_23365 Brucella canis ATCC 23365 http://www.ncbi.nlm.nih.gov/bioproject/59009
Bcanis_HSK_A52141 Brucella canis HSK A52141 http://www.ncbi.nlm.nih.gov/bioproject/83613
Bceti_TE10759_12 Brucella ceti TE10759-12 http://www.ncbi.nlm.nih.gov/bioproject/229880
Bceti_TE28753_12 Brucella ceti TE28753-12 http://www.ncbi.nlm.nih.gov/bioproject/229879
Bmelitensis_1_16M Brucella melitensis bv. 1 str. 16M http://www.ncbi.nlm.nih.gov/bioproject/200008
Bmelitensis_Abortus_2308 Brucella melitensis biovar Abortus 2308 http://www.ncbi.nlm.nih.gov/bioproject/16203
Bmelitensis_ATCC_23457 Brucella melitensis ATCC 23457 http://www.ncbi.nlm.nih.gov/bioproject/59241
Bmelitensis_M28 Brucella melitensis M28 http://www.ncbi.nlm.nih.gov/bioproject/158857
Bmelitensis_M590 Brucella melitensis M5-90 http://www.ncbi.nlm.nih.gov/bioproject/158855
Bmelitensis_NI Brucella melitensis NI http://www.ncbi.nlm.nih.gov/bioproject/158853
Bmicroti_CCM_4915 Brucella microti CCM 4915 http://www.ncbi.nlm.nih.gov/bioproject/59319
Bovis_ATCC_25840 Brucella ovis ATCC 25840 http://www.ncbi.nlm.nih.gov/bioproject/58113
Bpinnipedialis_B2_94 Brucella pinnipedialis B2/94 http://www.ncbi.nlm.nih.gov/bioproject/71133
Bsuis_1330 Brucella suis 1330 http://www.ncbi.nlm.nih.gov/bioproject/159871
Bsuis_ATCC_23445 Brucella suis ATCC 23445 http://www.ncbi.nlm.nih.gov/bioproject/59015
Bsuis_VBI22 Brucella suis VBI22 http://www.ncbi.nlm.nih.gov/bioproject/83617

8.3.5. Bacillus Genomes

Name Description URL
Banthracis_A0248 Bacillus anthracis str. A0248, complete genome http://www.ncbi.nlm.nih.gov/nuccore/229599883
Banthracis_Ames Bacillus anthracis str. ‘Ames Ancestor’ chromosome, complete genome http://www.ncbi.nlm.nih.gov/nuccore/50196905
Banthracis_Ames_Ancestor Bacillus anthracis str. Ames chromosome, complete genome http://www.ncbi.nlm.nih.gov/nuccore/30260195
Banthracis_CDC_684 Bacillus anthracis str. CDC 684 chromosome, complete genome http://www.ncbi.nlm.nih.gov/nuccore/227812678
Banthracis_H9401 Bacillus anthracis str. H9401 chromosome, complete genome http://www.ncbi.nlm.nih.gov/nuccore/386733873
Banthracis_Sterne Bacillus anthracis str. Sterne chromosome, complete genome http://www.ncbi.nlm.nih.gov/nuccore/49183039
Bcereus_03BB102 Bacillus cereus 03BB102, complete genome http://www.ncbi.nlm.nih.gov/nuccore/225862057
Bcereus_AH187 Bacillus cereus AH187 chromosome, complete genome http://www.ncbi.nlm.nih.gov/nuccore/217957581
Bcereus_AH820 Bacillus cereus AH820 chromosome, complete genome http://www.ncbi.nlm.nih.gov/nuccore/218901206
Bcereus_anthracis_CI Bacillus cereus biovar anthracis str. CI chromosome, complete genome http://www.ncbi.nlm.nih.gov/nuccore/301051741
Bcereus_ATCC_10987 Bacillus cereus ATCC 10987 chromosome, complete genome http://www.ncbi.nlm.nih.gov/nuccore/42779081
Bcereus_ATCC_14579 Bacillus cereus ATCC 14579, complete genome http://www.ncbi.nlm.nih.gov/nuccore/30018278
Bcereus_B4264 Bacillus cereus B4264 chromosome, complete genome http://www.ncbi.nlm.nih.gov/nuccore/218230750
Bcereus_E33L Bacillus cereus E33L chromosome, complete genome http://www.ncbi.nlm.nih.gov/nuccore/52140164
Bcereus_F837_76 Bacillus cereus F837/76 chromosome, complete genome http://www.ncbi.nlm.nih.gov/nuccore/376264031
Bcereus_G9842 Bacillus cereus G9842 chromosome, complete genome http://www.ncbi.nlm.nih.gov/nuccore/218895141
Bcereus_NC7401 Bacillus cereus NC7401, complete genome http://www.ncbi.nlm.nih.gov/nuccore/375282101
Bcereus_Q1 Bacillus cereus Q1 chromosome, complete genome http://www.ncbi.nlm.nih.gov/nuccore/222093774
Bthuringiensis_AlHakam Bacillus thuringiensis str. Al Hakam chromosome, complete genome http://www.ncbi.nlm.nih.gov/nuccore/118475778
Bthuringiensis_BMB171 Bacillus thuringiensis BMB171 chromosome, complete genome http://www.ncbi.nlm.nih.gov/nuccore/296500838
Bthuringiensis_Bt407 Bacillus thuringiensis Bt407 chromosome, complete genome http://www.ncbi.nlm.nih.gov/nuccore/409187965
Bthuringiensis_chinensis_CT43 Bacillus thuringiensis serovar chinensis CT-43 chromosome, complete genome http://www.ncbi.nlm.nih.gov/nuccore/384184088
Bthuringiensis_finitimus_YBT020 Bacillus thuringiensis serovar finitimus YBT-020 chromosome, complete genome http://www.ncbi.nlm.nih.gov/nuccore/384177910
Bthuringiensis_konkukian_9727 Bacillus thuringiensis serovar konkukian str. 97-27 chromosome, complete genome http://www.ncbi.nlm.nih.gov/nuccore/49476684
Bthuringiensis_MC28 Bacillus thuringiensis MC28 chromosome, complete genome http://www.ncbi.nlm.nih.gov/nuccore/407703236

8.4. Ebola Reference Genomes

Accession Description URL
NC_014372 Tai Forest ebolavirus isolate Tai Forest virus H.sapiens-tc/CIV/1994/Pauleoula-CI, complete genome. http://www.ncbi.nlm.nih.gov/nuccore/NC_014372
FJ217162 Cote d’Ivoire ebolavirus, complete genome. http://www.ncbi.nlm.nih.gov/nuccore/FJ217162
FJ968794 Sudan ebolavirus strain Boniface, complete genome. http://www.ncbi.nlm.nih.gov/nuccore/FJ968794
NC_006432 Sudan ebolavirus isolate Sudan virus H.sapiens-tc/UGA/2000/Gulu-808892, complete genome. http://www.ncbi.nlm.nih.gov/nuccore/NC_006432
KJ660348 Zaire ebolavirus isolate H.sapiens-wt/GIN/2014/Gueckedou-C05, complete genome. http://www.ncbi.nlm.nih.gov/nuccore/KJ660348
KJ660347 Zaire ebolavirus isolate H.sapiens-wt/GIN/2014/Gueckedou-C07, complete genome. http://www.ncbi.nlm.nih.gov/nuccore/KJ660347
KJ660346 Zaire ebolavirus isolate H.sapiens-wt/GIN/2014/Kissidougou-C15, complete genome. http://www.ncbi.nlm.nih.gov/nuccore/KJ660346
JN638998 Sudan ebolavirus - Nakisamata, complete genome. http://www.ncbi.nlm.nih.gov/nuccore/JN638998
AY354458 Zaire ebolavirus strain Zaire 1995, complete genome. http://www.ncbi.nlm.nih.gov/nuccore/AY354458
AY729654 Sudan ebolavirus strain Gulu, complete genome. http://www.ncbi.nlm.nih.gov/nuccore/AY729654
EU338380 Sudan ebolavirus isolate EBOV-S-2004 from Sudan, complete genome. http://www.ncbi.nlm.nih.gov/nuccore/EU338380
KM655246 Zaire ebolavirus isolate H.sapiens-tc/COD/1976/Yambuku-Ecran, complete genome. http://www.ncbi.nlm.nih.gov/nuccore/KM655246
KC242801 Zaire ebolavirus isolate EBOV/H.sapiens-tc/COD/1976/deRoover, complete genome. http://www.ncbi.nlm.nih.gov/nuccore/KC242801
KC242800 Zaire ebolavirus isolate EBOV/H.sapiens-tc/GAB/2002/Ilembe, complete genome. http://www.ncbi.nlm.nih.gov/nuccore/KC242800
KC242799 Zaire ebolavirus isolate EBOV/H.sapiens-tc/COD/1995/13709 Kikwit, complete genome. http://www.ncbi.nlm.nih.gov/nuccore/KC242799
KC242798 Zaire ebolavirus isolate EBOV/H.sapiens-tc/GAB/1996/1Ikot, complete genome. http://www.ncbi.nlm.nih.gov/nuccore/KC242798
KC242797 Zaire ebolavirus isolate EBOV/H.sapiens-tc/GAB/1996/1Oba, complete genome. http://www.ncbi.nlm.nih.gov/nuccore/KC242797
KC242796 Zaire ebolavirus isolate EBOV/H.sapiens-tc/COD/1995/13625 Kikwit, complete genome. http://www.ncbi.nlm.nih.gov/nuccore/KC242796
KC242795 Zaire ebolavirus isolate EBOV/H.sapiens-tc/GAB/1996/1Mbie, complete genome. http://www.ncbi.nlm.nih.gov/nuccore/KC242795
KC242794 Zaire ebolavirus isolate EBOV/H.sapiens-tc/GAB/1996/2Nza, complete genome. http://www.ncbi.nlm.nih.gov/nuccore/KC242794