Background
Results and Discussion
Phylogenetic reconstruction of DENV-3
Genetic diversity within DENV-3
Molecular epidemiology of DENV-3 in Colombia
Methods
Clinical samples
Strain* | Name | Location | Date | Genbank accession # | Genotype (Subtype) |
---|---|---|---|---|---|
388280 | 375_SAnd03 | San Andrés | 11/09/2003 | EU003494 | SE Asia/S.Pacific (I) |
388887 | 389_Guaj03 | Guajira | 14/11/2003 | EU003495 | SE Asia/S.Pacific (I) |
389520 | 395_NSan04 | Norte de Santander | 20/01/2004 | EU003496 | SE Asia/S.Pacific (I) |
390192 | 400_Guaj04 | Guajira | 09/02/2004 | EU003497 | SE Asia/S.Pacific (I) |
391300 | 417_Guav04 | Guaviare | 15/07/2004 | EU003498 | SE Asia/S.Pacific (I) |
391933 | 429_Huil04 | Huila | 15/10/2004 | EU003499 | SE Asia/S.Pacific (I) |
V-599 | 591VI | - | - | EU003511 | SE Asia/S.Pacific (I) |
- | DV06_Ant05 | Antioquia | 22/06/2005 | EU003514 | SE Asia/S.Pacific (I) |
- | DV20_Ant05 | Antioquia | 21/11/2005 | EU003513 | SE Asia/S.Pacific (I) |
384119 | 520_Guaj02 | Guajira | 22/01/2002 | EU003509 | India (III) |
384584 | 221_Guaj02 | Guajira | 27/03/2002 | EU003483 | India (III) |
384826 | 484_Putu02 | Putumayo | 11/04/2002 | EU003504 | India (III) |
385233 | 352_Putu02 | Putumayo | 04/06/2002 | EU003487 | India (III) |
386891 | 517_Caqu03 | Caquetá | 14/03/2003 | EU003507 | India (III) |
386990 | 358_Sant03 | Santander | 01/04/2003 | EU003488 | India (III) |
387023 | 359_Caqu03 | Caquetá | 04/04/2003 | EU003489 | India (III) |
387124 | 363_Caqu03 | Caquetá | 14/04/2003 | EU003490 | India (III) |
387129 | 366_Caqu03 | Caquetá | 14/04/2003 | EU003491 | India (III) |
387130 | 367_Caqu03 | Caquetá | 14/04/2003 | EU003492 | India (III) |
387131 | 368_Caqu03 | Caquetá | 14/04/2003 | EU003493 | India (III) |
387173 | 464_2003 | - | 24/04/2003 | EU003503 | India (III) |
388446 | 233_Guaj03 | Guajira | 22/09/2003 | EU003484 | India (III) |
391713 | 518_Putu04 | Putumayo | 22/09/2004 | EU003508 | India (III) |
391771 | 535_Huil04 | Huila | 27/09/2004 | EU003512 | India (III) |
392438 | 530_Guav05 | Guaviare | 03/02/2005 | EU003510 | India (III) |
393084 | 449_Meta05 | Meta | 12/05/2005 | EU003500 | India (III) |
393198 | 456_Meta05 | Meta | 26/05/2005 | EU003501 | India (III) |
393273 | 247_Guav05 | Guaviare | 10/06/2005 | EU003485 | India (III) |
393282 | 249_Meta05 | Meta | 10/06/2005 | EU003486 | India (III) |
393492 | 461Guav05 | Guaviare | 07/07/2005 | EU003502 | India (III) |
469-1 | 492VI | - | - | EU003505 | India (III) |
470-12 | 493VI | - | - | EU003506 | India (III) |
Virus isolation
RNA extraction
RT-PCR and nested-PCR
DNA sequencing
Sequence editing
Phylogenetic analysis
GenBank Accesión # | Label | Genotypea | Year | Location |
---|---|---|---|---|
AB189125 | Indones98a | I | 1998 | Indonesia |
AY858037 | Indones04a | I | 2004 | Indonesia |
AY858043 | Indones04b | I | 2004 | Indonesia |
AY858039 | Indones98b | I | 1998 | Indonesia |
AY912455 | Indones98c | I | 1998 | Indonesia |
AY912454 | Indones98d | I | 1998 | Indonesia |
L11428 | Indones85 | I | 1985 | Indonesia |
AY858038 | Indones88 | I | 1988 | Indonesia |
L11429 | Malaysia74 | I | 1974 | Malaysia |
L11425 | Indones73 | I | 1973 | Indonesia |
AB189128 | Indones98e | I | 1998 | Indonesia |
DQ401695 | Philippi97 | I | 1997 | Philippines |
AB219139 | Indones05a | I | 2005 | Indonesia |
AB219138 | Indones05b | I | 2005 | Indonesia |
AY744680 | Tahiti90 | I | 1990 | Tahiti |
L11427 | Malaysia81 | I | 1981 | Malaysia |
L11619 | Tahiti89a | I | 1989 | Tahiti |
AY744678 | Tahiti89b | I | 1989 | Tahiti |
DQ401690 | Indones82 | I | 1982 | Indonesia |
AY744684 | Tahiti92 | I | 1992 | Tahiti |
L11432 | Philippi83 | I | 1983 | Philippines |
AF317645 | China80 | I (V)b | 1980 | China |
M93130 | Philippi56 | I (V)b | 1956 | Philippines |
AB111085 | JaponImp73 | I (V)b | 1973 | Japan |
AF147457 | Malaysia92 | II | 1992 | Malaysia |
AY676370 | Thailand81 | II | 1981 | Thailand |
AY676368 | Thailand85 | II | 1985 | Thailand |
AY676359 | Thailand80 | II | 1980 | Thailand |
AF533079 | Thailan87a | II | 1987 | Thailand |
AY135419 | Thailan87b | II | 1987 | Thailand |
AY145715 | Thailand89 | II | 1989 | Thailand |
AY145716 | Thailand91 | II | 1991 | Thailand |
AY338493 | Malaysia94 | II | 1994 | Malaysia |
AY145730 | Thailand97 | II | 1997 | Thailand |
AY145726 | Thailand96 | II | 1996 | Thailand |
AY145718 | Thailand92 | II | 1992 | Thailand |
AY145723 | Thailand94 | II | 1994 | Thailand |
AY496872 | Banglade01 | II | 2001 | Bangladesh |
AB111080 | Banglade00 | II | 2000 | Bangladesh |
L11424 | India84 | III | 1984 | India |
AY099336 | SriLanka00 | III | 2000 | SriLanka |
AY099337 | Martiniq99 | III | 1999 | Martinique |
AB111081 | Cambodia00 | III | 2000 | Cambodia |
AY702032 | 116_Cuba00 | III | 2000 | Cuba |
AY038605 | Brazil00 | III | 2000 | Brazil |
AY146772 | Venezue01a | III | 2001 | Venezuela |
AY146765 | Venezue00a | III | 2000 | Venezuela |
AY146767 | Venezue00b | III | 2000 | Venezuela |
AY146776 | Venezue01b | III | 2001 | Venezuela |
AY702030 | 580_Cuba01 | III | 2001 | Cuba |
AY702033 | Nicaragu94 | III | 1994 | Nicaragua |
DQ341209 | Panama94 | III | 1994 | Panama |
DQ341208 | Somalia93 | III | 1993 | Somalia |
DQ341202 | Mexico95 | III | 1995 | Mexico |
DQ371245 | Venezue01c | III | 2001 | Venezuela |
DQ177899 | Ecuador00a | III | 2000 | Ecuador |
DQ177900 | Peru01 | III | 2001 | Peru |
DQ367720 | Venezue01d | III | 2001 | Venezuela |
DQ177898 | Ecuador00b | III | 2000 | Ecuador |
DQ177902 | Peru05a | III | 2005 | Peru |
DQ177897 | Peru05b | III | 2005 | Peru |
DQ177887 | Bolivia03 | III | 2003 | Bolivia |
AY960630 | GOI1099 | III | - | Brazil |
L11434 | PRico77a | IV | 1977 | Puerto Rico |
L11439 | Tahiti65 | IV | 1965 | Tahiti |
AY146762 | PRico63a | IV | 1963 | Puerto Rico |
L11433 | PRico63b | IV | 1963 | Puerto Rico |
AY146761 | PRico77b | IV | 1977 | Puerto Rico |