We studied two genome regions, VP1 and 3D, of 48 echovirus 30 (E30) isolates from Russia and the new independent states. In VP1, most isolates were similar to European strains reported earlier, and frequent change of circulating subgroups was noticed. We also observed, in [2003][2004][2005][2006], the reemergence of a group of E30 strains with a VP1 region very distant from most modern E30 strains and remotely similar to E30 isolates from the 1960s and the 1970s. A study of the 3D genome region detected multiple recombination events among the studied strains. Recombination presumably occurred every few years, and therefore, the study of a single VP1 genome region cannot accurately describe the phylogenetic history of the virus or predict pathogenetic properties of an isolate. In general, a comparison of the VP1 and 3D genome region phylogenies revealed, in some instances, virtually independent circulation of enterovirus genome fragments on a scale of years.Echovirus 30 (E30) is a member of the human enterovirus B (HEV-B) species, which also includes 28 serotypes of echoviruses, 6 coxsackie B viruses, coxsackie A9 virus and several new enterovirus serotypes. Enteroviruses cause a wide spectrum of clinical manifestations. Most frequently, the infection is asymptomatic or subclinical; however, severe and life-threatening forms are not rare (18). E30 has recently been a common cause of meningitis in many countries (4,5,7,9,12,14,19) and was a subject of several epidemiological studies (2, 15, 21); therefore, many sequences for the VP1 genome region are available in GenBank for comparison. Previously, however, most studies of E30 epidemiology were conducted by using only the VP1 genome region. A number of recent publications revealed that intertypic recombination is a very frequent event in circulating enteroviruses, thus allowing virtually independent evolution of different genome regions (8,10,16). In this work, we studied the epidemiology of E30 in Russia and the new independent states (NIS) in 1998-2006 by using two genome regions, VP1 and 3D, to estimate the role of recombination in the short-term epidemiology of enteroviruses.
MATERIALS AND METHODSWe used 48 strains of E30 isolated in the course of the WHO polio surveillance program and enterovirus surveillance (Table 1). Virus isolation and identification were carried out according to a standard WHO protocol (24) by using RD and Hep-2 cell cultures. Strain serotypes were identified by neutralization test with antisera produced by RIVM (Bilthoven, The Netherlands). Virus RNA was isolated from cell culture supernatant by guanidine thiocyanate lysis and adsorption to silica (3). Reverse transcription was carried out using Moloney murine leukemia virus reverse transcriptase (Promega) and random hexanucleotide primers. PCR was performed with previously published oligonucleotides for VP1 (15) and 3D (11). All nucleotide positions are given according to the prototype E30 strain Bastianni (GenBank accession no. AF311938). After amplification, bands were excised from a...