RVdb-Rhinovirus Database

Basic information

Title	Genetic clustering of all 102 human rhinovirus prototype strains: serotype 87 is close to human enterovirus 70.
Author	Savolainen, Carita; Blomqvist, Soile; Mulders, Mick N; Hovi, Tapani
Journal	J Gen Virol	Publication Year/Month	2002-Feb
PMID	11807226	PMCID	-N/A-
Affiliation	1.Enterovirus Laboratory, Department of Microbiology, National Public Health Institute (KTL), Mannerheimintie 166, FIN-00300 Helsinki, Finland1.

Abstract

Human rhinoviruses (HRV), common agents of respiratory infections, comprise 102 designated serotypes. The genetic relationships of HRV prototype strains and the possibility of using genetic identification of a given HRV field strain were studied. Genomic sequences in the VP4/VP2 region were obtained from all 102 prototype strains. Phylogenetic analysis included 61 recently isolated Finnish field strains. Seventy-six out of the 102 prototype strains clustered in the HRV genetic group A and 25 in group B. Serotype 87 clustered separately and together with human enterovirus 70. The \'percentage\' interserotypic differences were generally similar to those between different enterovirus serotypes, but for six pairs of HRV serotypes they were less than 10%. The maximum variation in genetic group A was 41% at the nucleotide level and 28% at the amino acid level, and in genetic group B 34% and 20%, respectively. Judging from the observed interserotypic differences, the 61 Finnish field isolates might represent as many as 19 different serotypes. One cluster of the field strains did not directly associate with any of the prototype strains and might represent a new serotype. However, larger numbers of field isolates of known serotype need to be characterized, possibly also in the VP1 region, to evaluate the feasibility of genetic typing of HRV strains.

MeSH terms

Capsid/*genetics

Rhinovirus/*classification/*genetics

Capsid Proteins

Enterovirus D, Human/classification/genetics

Humans

Molecular Sequence Data

Phylogeny

Picornaviridae Infections/virology

Sequence Analysis, DNA

Serotyping

Virology/methods

Related RV Strain

StrainID	RV Species	Serotype	Length(nt)	Country	Year	Strain Name
ANC08544	A	45	420	Finland	1996	prototype strain 45
ANM08540	A	58	420	None		prototype 58 21-CV 20
ANM08545	A	78	420	Finland	1996	prototype strain 78
ANP08542	A	82	420	None		prototype 82 03647
ANP08547	A	28	420	Finland	1996	prototype strain 28
ANS08543	A	43	420	None		prototype 43 58750
ANS08548	A	12	420	Finland	1996	prototype strain 12
ANZ08541	A	46	419	None		prototype 46 Baylor2
ANZ08546	A	18	420	Finland	1996	prototype strain 18
BNC01714	B	92	420	None		prototype 92 SF-1662
BNC01719	B	37	420	Finland	1996	prototype strain 37
BNM01710	B	97	420	None		prototype 97 SF-1372
BNM01715	B	91	420	None		prototype 91 JM1
BNM01720	B	48	420	Finland	1996	prototype strain 48
BNP01712	B	84	420	None		prototype 84 432D
BNP01717	B	3	420	Finland	1996	prototype strain 3; FEB
BNP01722	B	52	420	Finland	1996	prototype strain 52
BNS01713	B	93	420	None		prototype 93 SF-1492
BNS01718	B	6	420	Finland	1996	prototype strain 6; Thompson
BNZ01711	B	35	419	None		prototype 35 164A
BNZ01716	B	42	420	Finland	1996	prototype strain 42
BNZ01721	B	69	420	Finland	1996	prototype strain 69
UNS00412	Unclassified	None	420	Finland	1994	prototype 31
UNS00413	Unclassified	None	418	Finland	1994	prototype 32
UNS00414	Unclassified	None	420	Finland	1994	prototype 51
UNS00415	Unclassified	None	420	Finland	1994	prototype 65
UNS00416	Unclassified	None	420	Finland	1994	prototype 71
UNS00417	Unclassified	None	420	Finland	1994	prototype 36
UNS00418	Unclassified	None	420	Finland	1994	prototype 7
UNS00419	Unclassified	None	420	Finland	1994	prototype 88; CVD01-0165
UNS00420	Unclassified	None	420	Finland	1994	prototype 68
UNS00421	Unclassified	None	420	Finland	1994	prototype 53
UNS00422	Unclassified	None	420	Finland	1994	prototype 80; 277G
UNS00423	Unclassified	None	420	Finland	1994	prototype 8
UNS00424	Unclassified	None	420	Finland	1994	prototype 95; SF-998
UNS00425	Unclassified	None	420	Finland	1994	prototype 30
UNS00426	Unclassified	None	420	Finland	1994	prototype 23
UNS00427	Unclassified	None	420	Finland	1994	prototype 49
UNS00428	Unclassified	None	420	Finland	1994	prototype 13; 353
UNS00429	Unclassified	None	420	Finland	1994	prototype 41
UNS00430	Unclassified	None	420	Finland	1994	prototype 61
UNS00431	Unclassified	None	420	Finland	1994	prototype 73
UNS00432	Unclassified	None	420	Finland	1994	prototype 67
UNS00433	Unclassified	None	420	Finland	1994	prototype 96; SF-1426
UNS00434	Unclassified	None	420	Finland	1994	prototype 9
UNS00435	Unclassified	None	420	Finland	1994	prototype 81; 483F2
UNS00436	Unclassified	None	420	Finland	1994	prototype 47
UNS00437	Unclassified	None	420	Finland	1994	prototype 77
UNS00438	Unclassified	None	420	Finland	1994	prototype 10
UNS00439	Unclassified	None	420	Finland	1994	prototype 56
UNS00440	Unclassified	None	420	Finland	1994	prototype 59
UNS00441	Unclassified	None	420	Finland	1994	prototype 54
UNS00442	Unclassified	None	420	Finland	1994	prototype 98; SF-4006
UNS00443	Unclassified	None	420	Finland	1994	prototype 38
UNS00444	Unclassified	None	420	Finland	1994	prototype 29
UNS00445	Unclassified	None	420	Finland	1994	prototype 44; 71560
UNS00446	Unclassified	None	420	Finland	1994	prototype 25
UNS00447	Unclassified	None	420	Finland	1994	prototype 62
UNS00448	Unclassified	None	420	Finland	1994	prototype 24
UNS00449	Unclassified	None	420	Finland	1994	prototype 90; K2305
UNS00450	Unclassified	None	420	Finland	1994	prototype 55
UNS00451	Unclassified	None	420	Finland	1994	prototype 57; CH47
UNS00452	Unclassified	None	420	Finland	1994	prototype 11
UNS00453	Unclassified	None	420	Finland	1994	prototype 76
UNS00454	Unclassified	None	420	Finland	1994	prototype 33
UNS00455	Unclassified	None	420	Finland	1994	prototype 21
UNS00456	Unclassified	None	420	Finland	1994	prototype 60
UNS00457	Unclassified	None	420	Finland	1994	prototype 22
UNS00458	Unclassified	None	420	Finland	1994	prototype 64
UNS00459	Unclassified	None	420	Finland	1994	prototype 15; 1734
UNS00460	Unclassified	None	420	Finland	1994	prototype 74
UNS00461	Unclassified	None	420	Finland	1994	prototype 19
UNS00462	Unclassified	None	420	Finland	1994	prototype 1A; JH
UNS00463	Unclassified	None	420	Finland	1994	prototype 34
UNS00464	Unclassified	None	420	Finland	1994	prototype 50
UNS00465	Unclassified	None	420	Finland	1994	prototype 63
UNS00466	Unclassified	None	420	Finland	1994	prototype 39
UNS00467	Unclassified	None	420	Finland	1994	prototype 94; SF-1803
UNS00468	Unclassified	None	420	Finland	1994	prototype 75
UNS00469	Unclassified	None	384	Finland	1994	prototype 66
UNS00470	Unclassified	None	390	Finland	1994	prototype 40
UNS00471	Unclassified	None	420	Finland	1994	prototype 85
UNS00472	Unclassified	None	420	Finland	1994	prototype 100; K6579
UNS00473	Unclassified	None	417	Finland	1994	prototype 20
UNS00474	Unclassified	None	420	Finland	1994	prototype 17; 33342
UNS00475	Unclassified	None	420	Finland	1994	prototype 70
UNS00476	Unclassified	None	420	Finland	1994	prototype 83; Baylor 7
UNS00477	Unclassified	None	420	Finland	1994	prototype 86
UNS00478	Unclassified	None	411	Finland	1994	prototype 79
UNS00479	Unclassified	None	420	Finland	1994	prototype 72
UNS00480	Unclassified	None	420	Finland	1994	prototype 5; Norman
UNS00481	Unclassified	None	420	Finland	1994	prototype 99; 604
UNS00482	Unclassified	None	420	Finland	1994	prototype 26
UNS00483	Unclassified	None	420	Finland	1994	prototype 27
UNS00484	Unclassified	None	420	Finland	1994	prototype 4; 16/60
UNS00570	Unclassified	None	416	Finland	1994	Hanks

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