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Volume 20, Number 2—February 2014
Research

Genomic Variability of Monkeypox Virus among Humans, Democratic Republic of the Congo

Jeffrey R. Kugelman1, Sara C. Johnston1, Prime M. Mulembakani, Neville Kisalu, Michael S. Lee, Galina Koroleva, Sarah E. McCarthy, Marie C. Gestole, Nathan D. Wolfe, Joseph N. Fair, Bradley S. Schneider, Linda L. Wright, John Huggins, Chris A. Whitehouse, Emile Okitolonda Wemakoy, Jean Jacques Muyembe-Tamfum, Lisa E. Hensley, Gustavo F. Palacios2Comments to Author , and Anne W. Rimoin2Comments to Author 
Author affiliations: United States Army Medical Research Institute of Infectious Diseases, Fort Detrick, Maryland, USA (J.R. Kugelman, S.C. Johnston, M.S. Lee, G. Koroleva, S.E. McCarthy, M.C. Gestole, J. Huggins, C.A. Whitehouse, G.F. Palacios); Kinshasa School of Public Health, Kinshasa, Democratic Republic of the Congo (P.M. Mulembakani, E.O. Wemakoy); University of California, Los Angeles, California, USA (N. Kisalu, A.W. Rimoin); Global Viral Forecasting (now known as Metabiota), San Francisco, California, USA (N.D. Wolfe, J.N, Fair, B.S. Schneider); The Eunice Kennedy Shriver National Institute of Child Health and Human Development, Bethesda, Maryland, USA (L.L. Wright); National Institute of Biomedical Research, Kinshasa (J.J. Muyembe-Tamfum); US Food and Drug Administration, Silver Spring, Maryland, USA (L.E. Hensley)

Main Article

Table

Consolidated patient metadata, phylogenetic lineage, STR, and deletion analysis data for patients with monkeypox virus infection, Democratic Republic of the Congo, November 2005–November 2007*

Patient Age, y, Sex GenBank no. Deletion STR Lineage Date Geographic zone Disease severity Transmission
06–1105 3.8, M NA − 1 A 2006 Dec 8 Vangakete Moderate NA
07–0663 4.8, F NA − 1 A 2007 Sep 11 Lomela Moderate Primary
07–0748 13.0, M NA − 1 A 2007 Nov 13 Lomela Severe Primary
07–0107 6.0, M NA − 2 A 2007 Jan 16 Lodja Severe Secondary
07–0110 24.0, F NA − 2 A 2007 Jan 16 Lodja Moderate Secondary
07–0131 14.0, M NA − 2 A 2007 Jan 28 Lodja Moderate Secondary
07–0132 12.0, F NA − 2 A 2007 Jan 28 Lodja Moderate Secondary
07–0133 0.3, M NA − 2 A 2007 Jan 28 Lodja Mild Secondary
07–0641 32.0, M NA − 2 A 2007 Jun 5 Kole Severe Primary
07–0749 11.0, M NA − 3 A 2007 Nov 17 Lomela Moderate Primary
07–0125 14.0, M NA − 4 A 2007 Jan 14 Lomela Moderate Primary
07–0130 2.1, M NA − 4 A 2007 Jan 20 Lomela Moderate Primary
07–0287 13.0, M JX878422 − 4 A† 2007 Mar 20 Lomela Moderate Primary
07–0288 11.0, M NA − 4 A 2007 Mar 20 Lomela Moderate Primary
07–0480 23.0, M JX878427 − 4 A† 2007 May 25 Lomela Severe Primary
07–0514 7.0. M JX878428 − 4 A† 2007 Jun 30 Lomela Moderate Primary
07–0623 12.0, M NA − 4 A 2007 Jul 15 Lomela Moderate Primary
07–0628 14.0, M NA − 4 A 2007 Jul 22 Lomela Moderate Secondary
07–0665 7.0, F NA − 4 A 2007 Sep 17 Lomela Moderate Secondary
07–0092 11.0, F JX878415 − 5 A† 2006 Dec 26 Lomela Moderate Secondary
07–0045 14.0, F JX878413 − 6 A† 2006 Dec 14 Lomela Severe Primary
07–0047 9.0, F NA − 6 A 2006 Dec 14 Lomela Moderate Secondary
07–0093 10.0, M JX878416 − 6 A† 2006 Dec 26 Lomela Moderate Secondary
07–0094 7.0, F NA − 6 A 2006 Dec 26 Lomela Moderate Secondary
07–0126 13.0, F NA − 6 A 2007 Jan 17 Lomela Moderate Secondary
07–0286 20.0, M JX878421 − 7 A† 2007 Mar 22 Lomela Serious Primary
07–0352 4.9, F NA − 7 A 2007 Apr 15 Lomela Moderate Secondary
07–0046 6.0, F JX878414 − 8 A† 2006 Dec 14 Lomela Moderate Primary
07–0630 22.0, M NA − 10 A 2007 Jul 22 Lomela NA Secondary
06–0999 10.0, M JX878409 − 13 A† 2006 Nov 9 Vangakete Severe NA
06–1070 3.4, M JX878410 − 15 A† 2006 Nov 24 Vangakete Moderate NA
06–1075 5.0, M JX878411 − 15 A† 2006 Nov 30 Vangakete Severe NA
06–1076 2.2, F JX878412 − 14 A† 2006 Nov 30 Vangakete Severe NA
07–0121 15.0, M NA − 1 B 2007 Jan 3 Djalo-Ndjeka Moderate NA
07–0008 3.5, F NA − 2 B 2006 Dec 19 Ototo Moderate NA
07–0038 4.6, M NA − 2 B 2006 Nov 25 Lomela Moderate Primary
06–1009 21.0, M NA − 3 B 2006 Nov 13 Lomela Moderate Secondary
07–0039 0.9, F NA − 3 B 2006 Nov 25 Lomela Moderate Primary
07–0662 1.0, M JX878429 − 5 B† 2007 Sep 4 Lomela Severe Primary
06–0950 2.2, F JX878407 + 2 B† 2006 Oct 9 Kole Serious Secondary
07–0334 NA NA + 2 B NA Kole NA Secondary
07–0336 24.0, M NA + 2 B 2007 Mar 25 Kole Mild Primary
07–0338 3.8, M JX878424 + 2 B† 2007 Mar 25 Kole Mild Secondary
07–0337 0.8, M JX878423 + 3 B† 2007 Mar 25 Kole Severe Secondary
07–0339 20.0, F NA + 3 B 2007 Apr 2 Kole Moderate Secondary
07–0335 4.5, M NA + 4 B 2007 Mar 20 Kole Mild Secondary
07–0010 3.5, M NA + 6 B 2006 Dec 19 Ototo Moderate NA
07–0354 18.0, M JX878425 + 7 B† 2007 Apr 20 Lomela Moderate Secondary
07–0035 1.8, M NA + 1 B 2006 Dec 24 Djalo-Ndjeka Mild NA
06–0970 10.0, F JX878408 − 1 C† 2006 Oct 31 Katako Kombe Serious Primary
07–0120 0.4, F JX878418 − 1 C† 2007 Jan 2 Djalo-Ndjeka Severe NA
07–0275 10.0, F JX878419 − 1 C† 2007 Dec 10 Djalo-Ndjeka Moderate Primary
07–0276 1.5, M NA − 1 C 2007 Dec 10 Djalo-Ndjeka Moderate NA
07–0277 4.0, F NA − 1 C 2007 Dec 10 Djalo-Ndjeka Severe NA
07–0283 0.4, M JX878420 − 1 C† 2007 Feb 26 Djalo-Ndjeka Severe NA
07–0450 11.0, M JX878426 − 1 C† 2007 May 27 Kole Severe Secondary
07–0567 29.0, M NA − 1 C 2007 Aug 5 Vangakete Severe NA
07–0568 37.0, M NA − 1 C 2007 Aug 25 Vangakete Moderate NA
07–0610 4.3, M NA − 1 C 2007 Jul 23 Vangakete Severe NA
07–0104 4.0, F JX878417 − 10 D† 2006 Dec 14 Bena-Dibele Serious Secondary

*Comprehensive overview of data obtained from sequencing and/or PCR analysis. Metadata are presented where available. Phylogenetic lineage (A–D) is defined for samples for which complete genomes were available. All other samples are grouped based on single-nucleotide polymorphism panel validation. The date listed is the date of sample collection. STR, short terminal repeat; NA, data point not available.
†Full genome generated for this sample.

Main Article

1These authors are co–first authors.

2These authors contributed equally to this work.

Page created: January 17, 2014
Page updated: January 17, 2014
Page reviewed: January 17, 2014
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