Printer Friendly
The Free Library
14,716,107 articles and books
Member login
User name  
Password 
 
Join us Forgot password?

Global distribution of rubella virus genotypes.


Phylogenetic phy·lo·ge·net·ic
adj.
1. Of or relating to phylogeny or phylogenetics.

2. Relating to or based on evolutionary development or history.
 analysis of a collection of 103 E1 gene sequences from rubella viruses isolated from 17 countries from 1961 to 2000 confirmed the existence of at least two genotypes. Rubella rubella or German measles, acute infectious disease of children and young adults. It is caused by a filterable virus that is spread by droplet spray from the respiratory tract of an infected individual.  genotype genotype (jēn`ətīp'): see genetics.
genotype

Genetic makeup of an organism. The genotype determines the hereditary potentials and limitations of an individual.
 I (RGI RGI Ragnar Granit Institute
RGI Resource Group International
RGI Regional Geographical Initiative
RGI Reactant Gas Inlet
) isolates, predominant in Europe, Japan, and the Western Hemisphere Western Hemisphere

Part of Earth comprising North and South America and the surrounding waters. Longitudes 20° W and 160° E are often considered its boundaries.
, segregated into discrete subgenotypes; international subgenotypes present in the 1960s and 1970s were replaced by geographically restricted subgenotypes after ~1980. Recently, active subgenotypes include one in the United States United States, officially United States of America, republic (2005 est. pop. 295,734,000), 3,539,227 sq mi (9,166,598 sq km), North America. The United States is the world's third largest country in population and the fourth largest country in area.  and Latin America Latin America, the Spanish-speaking, Portuguese-speaking, and French-speaking countries (except Canada) of North America, South America, Central America, and the West Indies. , one in China, and a third that apparently originated in Asia and spread to Europe and North America North America, third largest continent (1990 est. pop. 365,000,000), c.9,400,000 sq mi (24,346,000 sq km), the northern of the two continents of the Western Hemisphere. , starting in 1997, indicating the recent emergence of an international subgenotype. A virus that potentially arose as a recombinant between two RGI subgenotypes was discovered. Rubella genotype II (RGII RGII Resource Group International Inc (New York, NY) ) showed greater genetic diversity than did RGI and may actually consist of multiple genotypes. RGII viruses were limited to Asia and Europe; RGI viruses were also present in most of the countries where RGII viruses were isolated.

**********

Rubella virus infection during the first trimester Noun 1. first trimester - time period extending from the first day of the last menstrual period through 12 weeks of gestation
trimester - a period of three months; especially one of the three three-month periods into which human pregnancy is divided
 of pregnancy can lead to severe birth defects birth defects, abnormalities in physical or mental structure or function that are present at birth. They range from minor to seriously deforming or life-threatening. A major defect of some type occurs in approximately 3% of all births.  (congenital rubella syndrome congenital rubella syndrome A malformation complex in a fetus infected in utero with rubella; the defects reflect the embryologic stage at the time of infection, with developmental arrest affecting all 3 embryonal layers, inhibiting mitosis, causing delayed and ) (1). Live attenuated vaccines live attenuated vaccine A vaccine that induces an immune response, which more closely resembles that of a natural infection, than that elicited by killed vaccines, as the organisms contained therein actively reproduce until held in check by the recipient's own , available since the late 1960s (2), are currently in use in roughly half of the countries in the world, including all industrialized in·dus·tri·al·ize  
v. in·dus·tri·al·ized, in·dus·tri·al·iz·ing, in·dus·tri·al·iz·es

v.tr.
1. To develop industry in (a country or society, for example).

2.
 countries, although vaccine coverage varies widely (3). Concentration on comprehensive rubella vaccination has recently increased in developing countries in conjunction with measles elimination efforts, particularly in Latin America (4,5). As part of the surveillance component of these efforts, an understanding of the worldwide molecular epidemiology molecular epidemiology Molecular medicine An evolving field that combines the tools of standard epidemiology–case studies, questionnaires and monitoring of exposure to external factors with the tools of molecular biology–eg, restriction endonucleases,  of rubella virus, which is limited, is necessary.

Rubella virus is an RNA virus RNA virus
n.
Any of a group of viruses whose nucleic acid core is composed of RNA, including the picornaviruses, retroviruses, and paramyxoviruses.
 that is the sole member of the Rubivirus genus, within the Togaviridae family (6). The rubella virus genome is ~10,000 nucleotides and encodes five protein products, including three virion virion

Entire virus particle, consisting of an outer protein shell (called a capsid) and an inner core of nucleic acid (either RNA or DNA). The core gives the virus infectivity, and the capsid provides specificity (i.e., determines which organisms the virus can infect).
 proteins: the C or capsid capsid /cap·sid/ (kap´sid) the shell of protein that protects the nucleic acid of a virus; it is composed of structural units, or capsomers.

cap·sid
n.
 protein and two envelope glycoproteins, E1 and E2. The El gene sequence has been used for genotyping and phylogenetic analysis of rubella virus isolates (7 10). Thus far, rubella viruses from Europe, Asia, and North America have been found for the most part to group in a single genotype (Rubella Genotype I or RGI) that has a maximum diversity at the nucleotide level of ~5%. However, a limited number of viruses from Asia (China and India), and more recently Italy, formed a distant phylogenetic branch, differing from RGI viruses by 8% to 10%, which was designated Rubella Genotype II (RGII) (8,9,11,12). These two genotypes belong to the single rubella virus serotype serotype /se·ro·type/ (ser´o-tip) the type of a microorganism determined by its constituent antigens; a taxonomic subdivision based thereon.

se·ro·type
n.
See serovar.

v.
 (11). Because of limited sampling, the geographic range of RGII has not been determined.

This study was designed to increase information and understanding on worldwide molecular epidemiology of rubella virus. We have performed combined phylogenetic analysis on viruses from earlier studies (8-10) and, to gain further information on RGII viruses, we included viruses collected from the Eastern Hemisphere Eastern Hemisphere

Part of the Earth east of the Atlantic Ocean. It includes Europe, Asia, Australia, and Africa. Longitudes 20° W and 160° E are often considered its boundaries.
, namely Russia, South Korea, China, New Zealand New Zealand (zē`lənd), island country (2005 est. pop. 4,035,000), 104,454 sq mi (270,534 sq km), in the S Pacific Ocean, over 1,000 mi (1,600 km) SE of Australia. The capital is Wellington; the largest city and leading port is Auckland. , and Israel.

Materials and Methods

Rubella Isolates and Sequences

A total of 103 rubella virus El gene nucleotide sequences were used in this study; "new" sequences not reported in previous studies are shown in Table 1, a complete list is available online (http://www.cdc.gov/ncidod/EID/vol09no12/03-0242.htm#tablel). The length of the sequence was 1179 nt, which covered 8291-9469 nt of the rubella virus genome (the complete E1 gene is between nts 8258-9700 [13]). This collection consisted of sequences from new isolates from China, Israel, Japan, Korea, New Zealand, and Russia and representative sequences from previous studies (8-10). Methods of isolate propagation and E1 gene sequence determination were as previously described (9).

Genetic Sequence Similarities and Distances

Distance matrix tables were computed by using the Old distance with Simple correction method in the GCG GCG Genetics Computer Group
GCG Glucagon
GCG Good Corporate Governance
GCG Global Consumer Group
GCG Global Church of God
GCG Generalized Conjugate Gradient
GCG Global Change Game
GCG Geological Curators' Group
GCG Giant-Cell Granuloma
 software package (Wisconsin package version 10.0, Genetics Computer Group, Madison, WI). These tables were used to calculate the average genetic distance among viruses in a single genotypic group or between viruses in two genotypic groups.

Phylogenetic Analysis

The phylogenetic trees (Figures 1 and 2) were made using Tree-Puzzle 5.0 (14) (maximum likelihood [ML] criterion with 10,000 or 25,000 quartet puzzling steps and HKY HKY Hickory, NC, USA (Airport Code) 85 model of substitution [15]) and viewed by using TreeView (16). To test the consistency of branching, additional software packages were used to construct trees, including PAUP PAUP Phylogenetic Analysis Using Parsimony  (David L Swofford. 2001. ver 4.0, Sinauer Associates, Sunderland, MA) and PHYLIP PHYLIP Phylogeny Inference Package (genetics software)  (Joseph Felsenstein, ver 3.6 [alpha], July 2000, WA). Both ML and maximum parsimony Maximum parsimony, often simply referred to as "parsimony," is a non-parametric statistical method commonly used in computational phylogenetics for estimating phylogenies. Under maximum parsimony, the preferred phylogenetic tree is the tree that requires the least number of  (MP) algorithms in these packages were used. A histogram histogram
 or bar graph

Graph using vertical or horizontal bars whose lengths indicate quantities. Along with the pie chart, the histogram is the most common format for representing statistical data.
 of the ML distances computed by Tree Puzzle TREE-PUZZLE is a computer program used to construct phylogenetic trees from sequence data by maximum likelihood analysis. Branch lengths can be calculated with and without the molecular clock hypothesis.  5.0 (14) was constructed with Excel (Microsoft, Redmond, WA).

Results

The sequences used in this study consist of representative sequences from three earlier studies (Europe, North America, and Asia, 1961-1997 [8]; Italy, 1991-1997 [9]; and the United States, 1997-2001 [10]) and sequences of viruses collected in Russia, South Korea, New Zealand, Israel, China, Japan, and the United States that have not been reported (these new sequences are listed in Table 1; a complete sequence list is available online (http://www.cdc.gov/ncidod/EID/vol09no12/03-0242.htm#table1). The sequences from the three earlier studies have not previously been amalgamated a·mal·ga·mate  
v. a·mal·ga·mat·ed, a·mal·ga·mat·ing, a·mal·ga·mates

v.tr.
1. To combine into a unified or integrated whole; unite. See Synonyms at mix.

2.
 into a single phylogenetic study. Phylogenetic trees produced with different programs yielded the same major branches, and only representative trees are shown (Figure 1). Branches were defined as reproducible clusterings of sequences by these different programs.

[FIGURE 1 OMITTED]

Most of the new sequences belonged to RGI, which emanate from a single node in the tree shown in Figure 1. For simplicity, the tree shown in Figure 1A contains only half of the RGI sequences; the RGI node with all of the RGI sequences is shown in Figure 1B. New sequences belonging to RGI included both from China, all three from New Zealand, all four from Japan, five of six from Israel, two of four from South Korea, and one of five from Russia. Additionally, all of the sequences from the U.S. study (10) and 19 of 21 from the Italy study (9) were RGI. Fourteen sequences were grouped on branches removed from the RGI node, including the three viruses originally used to define RGII, two RGII viruses isolated from Italy (1994) [9], and 9 of the new sequences: 4 from Russia (3 from 1967 to 1969 and 1 from 1997), 2 from South Korea (1996), 1 from Israel (1968), 1 from China (1979), and 1 isolated in the United States from a case contracted in India (2000).

RGI Viruses

The sequences of viruses isolated before 1980 are colored black in the expanded RGI node (Figure 1B). These sequences, which were from viruses isolated in Europe, North America, and Asia, congregated around the central node (International 1964-1981) or segregated into one of two branches, denoted International 1961-1986 and Europe 1972-1991. Many of these sequences were used in our previous study (8; marked with an asterisk) in which the sequences in the International 1961-1986 branch formed three related branches, the sequences in the International 1964-1981 nodal Having to do with nodes. See node.

NODAL - Interpreted language implemented on Norsk Data's NORD-10 computers. Used by CERN and DESY high energy physics labs to control their accelerator hardware, PADAC and SEDAC. Included trackball input, graphics.
 congregation were spread along the baseline of the dendogram, and the sequences in the Europe 1972-1991 branch were at the base of the Europe branch. Additions to the International 1964-1981 nodal congregation included sequences from a virus isolated in Russia in 1973 and a virus isolated in New Zealand in 1981; a sequence from a virus from Israel 1978 was added to the International 1961-1986 branch. The Europe 1972-1991 branch (colored gold in Figure 1) contained viruses from Israel (1972, 1975, 1979, and 1988), Italy (1991), and the United Kingdom (1978 and 1986; both used in the previous study [8]). The TCRB TCRB T-Cell Antigen Receptor, Beta Subunit  vaccine strain (Japan, 1967) sequence segregated onto this branch; in our previous study (8); the TCRB sequence was at the base of the European branch. In summary, while the branching pattern of sequences of viruses isolated internationally before ~1980 (8) was basically preserved, the addition of sequences led to definition of a new branch of viruses from Europe and Israel, isolated between 1972 and 1991.

Newly added sequences of viruses isolated after 1990 segregated primarily onto the three continent-restricted branches defined in our earlier study (8), generally in a geographically consistent manner. These branches, designated Europe, Japan-Hong Kong, and US-Japan in the earlier study (8), are colored green, dark blue, and light blue (the US-Japan branch was redesignated USA 1990-2000; see below). The Europe branch was augmented by sequences of viruses from Italy, Germany and Israel (1991-1998) and subdivided into two sub-branches, one containing sequences of viruses isolated in Europe from 1986 to 1994 (Europe 1986-1994) and a second containing sequences of viruses isolated in Europe and Israel from 1991 to 1995 (Europe 1991-1998). Several newly added sequences of viruses from the United States and Latin America (1997-2000) enlarged the USA 1990-2000 branch; these viruses are thought to be endemic in regions bordering the United States and to seed rubella outbreaks and clusters in that country (10). The only two viruses from Japan in this branch were isolated from a single province in 1991; it was previously hypothesized that this finding represented transport of viruses from the United States to Japan or vice versa VICE VERSA. On the contrary; on opposite sides.  (8). In light of the isolation of several viruses in this group subsequently from the United States or Latin America and no viruses from Japan (either before or after 1991), the former transport pathway likely occurred; thus, this branch has been redesignated USA 1990-2000.

The Japan-Hong Kong branch expanded considerably to include sequences of a pair of viruses from Japan and the Philippines (1997) that were related to each other, two sequences of viruses from New Zealand (1991) that were related to each other, and sequences of a group of five related viruses isolated in Japan and South Korea from 1995 to 1996. Another distinct sub-branch was formed by a closely related group of sequences of viruses associated with outbreaks in Europe, the United States, and the Caribbean from 1997 to 2000 (International, 1996 -2000). The viruses in this branch caused several outbreaks in the northeastern United States and on cruise ships This is a list of cruise ships, both those in service and those that have since ceased to operate. Both cruise ships and cruiseferries are included in this list. (Ocean liners are not included on this list, see List of ocean liners.  in Florida (10) and were isolated during a rubella epidemic in Italy in 1997 (9); the relatedness of these viruses was not previously recognized. A novel branch contained sequences of two viruses from China (1999) (China, 1999, gold in Figure 1B).

RGII Viruses

The tree depicted in Figure IA indicated that sequence divergence was greater among RGII viruses than among RGI viruses. RGII viruses segregated into three distinct clusters (RGIIA, RGIIB, and RGIIC), all of which were supported by bootstrapping Bootstrapping

A procedure used to calculate the zero coupon yield curve from market figures.

Notes:
Since the T-bills offered by the government are not available for every time period, the bootstrapping method is used to fill in the missing figures in order to derive the
 values of>90. Only the RGIIA cluster contained more than one virus isolated within the past decade, and this active cluster contained viruses from diverse locations (India, China, Korea, Italy). The other two clusters contained viruses from a single location (RGIIB-Russia; RGIIC-Beijing, China). The RGII clusters were more distant from each other than were the RGI branches. Variability between RGI and the three RGII clusters is shown in Table 2. Maximal variability among RGI viruses was ~5.8%, however, RGII viruses varied by up to ~8.0%. Viruses within each of the three RGII clusters varied by up to 5.5% and the clusters differed from each other by an average of ~7% (range of variability between viruses in the RGII clusters: RGIIA-RGIIB: 6.35%-7.78%; RGIIA-RGIIC: 6.86%-7.95%; RGIIB-RGIIC: 6.85%-7.53%). Average variation of the RGII clusters from RGI was from ~6% to 8% (range 5.5%-10.3%, which translates to a range of 0.8% to 2.1% variation at the amino acid amino acid (əmē`nō), any one of a class of simple organic compounds containing carbon, hydrogen, oxygen, nitrogen, and in certain cases sulfur. These compounds are the building blocks of proteins.  level).

Evidence for Recombinant Virus

Use of the entire El gene resulted in excessive time being required to run phylogenetic programs with the large number of sequences included in this study (e.g., trees in Figure 1 took days to compute). We therefore investigated using smaller segments within the E1 gene (five windows of ~400 nt encompassing nt 8291-8640, 8491-8890, 8687-9088, 8891-9290, and 9100-9469 of the genome) to construct phylogenetic trees. All major branches shown in Figure 1 were preserved in trees constructed from each of these windows, although placement and joining of the branches varied at the base of the tree. During this investigation, the sequence of one isolate, FAR-GER89, was found to group with three contemporaneous viruses in the Europe 1986--1994 branch (TOM-UK86, FEL-UK88, and D075-GER92) in the three 5'-most windows within the E1 gene, but with three International 1964-1981 viruses (RA27-USA64, JCI-NEZ81, and THE-USA64) in the two 3'-most windows (illustrated in Figure 2). When these seven sequences were aligned, over the 5' 630 nt, 14 nt characteristics of the TOMI/FEL/D075 or THE/JCI/RA27 sequences were identified; of these, FAR had 12 characteristics to the TOMI/FEL/D075 sequences, 1 characteristic to the THE/JCI/RA27, sequences and 1 unique nucleotide (data not shown). In contrast, over the 3' 540 nt of the E1 gene, 11 nt characteristics of the TOM/FEL/D075 or THE sequence were identified and of these 11 characteristic nts, FAR shared all 11 with the THE sequence and none with the TOM/FEL/D075 sequences. These results indicate that FAR may be a recombinant between viruses from these two Genotype I groups. The FAR-GER89 sequence is on its own branch, emanating from the RGI node (Figure 1): similar observations have been made with poliovirus poliovirus /po·lio·vi·rus/ (pol´-e-o-vi?rus) the causative agent of poliomyelitis, separable, on the basis of specificity of neutralizing antibody, into three serotypes designated types 1, 2, and 3.  recombinants (17).

[FIGURE 2 OMITTED]

Discussion

In this study, we extended phylogenetic analysis of rubella viruses collected worldwide. The baseline for this study was an analysis (8) of viruses collected from Europe, North America, and Asia, 1961-1997; we found that an international genotypic group existed until ~1980 and was replaced by continent-restricted genotypic groups after ~1980. In this study, this analysis was augmented by inclusion of comprehensive collections from Italy (9) and the United States (10) as well as viruses collected from new locations. In the previous analysis (8), a second genotype was identified among a limited number of specimens collected from Asia and a specific goal of this study was to analyze viruses from new locations in hopes of learning more about this second genotype.

Use of the entire E1 gene resulted in excessive time being required to run phylogenetic programs with the large number of sequences included in this study. We therefore investigated using ~400-nt segments within the E1 gene. While the major genotypic and subgenotypic grouping were preserved in these segmental segmental /seg·men·tal/ (seg-men´t'l)
1. pertaining to or forming a segment or a product of division, especially into serially arranged or nearly equal parts.

2. undergoing segmentation.
 trees, the trees produced from the nt 8687-9088 window were most similar to those produced from the entire E1 gene. This window was named the "molecular epidemiology window." As shown in Table 3, this window had a similar to somewhat higher interscquence variability than the E1 gene and preserved the GC content and interseqnence transition/transversion ratio exhibited by the El gene. Although virus isolates were used in this study, amplification and sequencing of El gene segments directly from clinical specimens using reverse transcription-polymerase chain reaction (RT-PCR RT-PCR

reverse transcriptase-polymerase chain reaction. See PCR1.
) are at hand (18-22). Our findings indicate that RT-PCR products from any region of the E1 gene will produce phylogenetic trees consistent with those from the entire El gene. However, thus far the regions amplified by in these studies have not been standardized.

Analysis of the segmental trees indicated that the FARGER89 isolate might have arisen by a recombination recombination, process of "shuffling" of genes by which new combinations can be generated. In recombination through sexual reproduction, the offspring's complete set of genes differs from that of either parent, being rather a combination of genes from both parents.  event within the El gene between a virus from the Europe 1986-1994 branch (TOM-UK86, FEE-UK88, D075GER GER German/Germany
GER Gastroesophageal Reflux
GER Geriatrics
GER General Education Requirement
GER Great Eastern Railway (UK)
GER Gross Enrollment Ratio (education)
GER Gain Electrons Reduction
92) and a virus from the International 1964-1981 nodal cluster (THE-US64, RA27-USA64, JC1-NEZ81). Such an event is temporally consistent because viruses related to the International 1964-1981 nodal cluster have been isolated in Italy as late as 1991 (9) but were not included in this study. Although rubella virus recombination in cell culture has been documented (23), this report is the first of a natural recombinant. Although the FARGER89 isolate was related to the RA27/3 vaccine strain in the 3' end of the El gene, the FAR-GER89 sequence contains none of the nucleotides characteristic of the RA27/3 sequence (7); thus, the recombination event did not involve a vaccine virus.

In our previous analysis (8), all of the viruses isolated in Europe, North America, and Japan were RGI. This finding was maintained with the expanded collections from all three regions used in this study with the exception of two RGII viruses isolated in Italy. Additionally, most of the viruses in the expanded RGI collection from these regions segued into the previously defined RGI branches (8), with the exception of a newly defined Europe 1972-1991 branch that contained viruses at the base of the Europe branch defined in the previous study and a novel branch consisting of two viruses from China (1999). In the case of viruses from Europe, with a larger number of viruses representing a longer time span, these viruses belonged to two branches, the second of which divided into two subbranches. The RGI viruses from Israel were related to the European viruses and fit into the temporal pattern of isolation of the European viruses. The temporal pattern of isolation of viruses in the European branches and sub-branches (1972-1991, 1986-1994, and 1991-1998) indicated that temporal displacement of genotypic groups occurred, as had been noted in our previous study on viruses from Italy (9). These European branches and sub-branches have been more recently displaced by the International 1997-2000 sub-branch of the Japan-Hong Kong branch. The addition of viruses isolated recently in the United States (10) clarified that the US-Japan branch in the previous study (8) was a United States branch, viruses from which, when transported to Japan, caused an outbreak in 1991. Viruses in the USA 1990-2000 branch were related to the limited number of viruses available from Latin America.

The branch termed a Japan-Hong Kong branch in our earlier study (8) contained viruses from Japan and Hong Kong Hong Kong (hŏng kŏng), Mandarin Xianggang, special administrative region of China, formerly a British crown colony (2005 est. pop. 6,899,000), land area 422 sq mi (1,092 sq km), adjacent to Guangdong prov.  isolated between 1976 and 1991. Ten representative viruses were selected from that branch for this study, including 2 viruses from Japan (1976 and 1977) and 1 virus from Hong Kong (1985) that grouped at the base of the branch as well as several viruses from Japan (1987-1991) that formed a sub-branch. This branch was expanded by the addition of four sub-branches containing viruses from New Zealand, 1991; Japan and Korea, 1994-1996; Japan and the Philippines, 1997; and an international sub-branch that contained viruses associated with epidemics and outbreaks in Europe and the United States during 1997 to 2000 that were unrelated to viruses previously isolated from those regions. Recent evidence indicates that these viruses are closely related to viruses from China (Z. Zhen et al., unpub, data). Thus, the appearance of this sub-branch in Europe and the United States was likely due to intercontinental transport. Considering that viruses from this sub-branch have been predominant in Europe since 1997 and have been one of the two genotypic groups isolated recently in the United States (USA 1990-2000 is the other), an international genotypic branch of rubella virus appears to have emerged after a ~20-year hiatus since the previous demonstrable international branch. Along with this branch, the two other currently active branches are the USA 1990-2000 branch and the China 1999 branch, only represented by two viruses from the collection used in this study.

With its expanded virus collection, this study demonstrates that RGI rubella virus isolates segregate seg·re·gate  
v. seg·re·gat·ed, seg·re·gat·ing, seg·re·gates

v.tr.
1. To separate or isolate from others or from a main body or group. See Synonyms at isolate.

2.
 into discrete subgenotypic groups (i.e., branches) that exhibit geographic and temporal consistency. These groups could provide the basis for a standard classification scheme, as has been developed for other viruses. In this study, the number of available RGII viruses also increased to 14 in contrast to the 3 available in the previous analysis; the RGII viruses segregated into three discrete clusters (RGIIA, RGIIB, and RGIIC). RGI viruses formed a discrete cluster clearly distinguishable from the most closely related RGII cluster (RGIIB) with no indication of intermediate viruses. The maximum diversity within RGI was 5.8%, and RGI viruses were an average of >7% different from the RGII viruses (Table 2); when one considers the extensive nature of the RGI virus collection, this is a working definition of a rubella virus genotype. RGII was originally defined to contain a limited number of sequences (three) that distinctly differed from the RGI viruses that made up most of the collection (8). The sequences in each of the RGII clusters vary by up to 5.4%, and the average distance between viruses in each of the clusters is >7% (Table 2). Thus, each of these clusters could represent a genotype. This hypothesis is strengthened by a histogram of the intersequence distances that show a bimodal distribution bimodal distribution

a distribution with two peaks separated by a region of low frequency of observations.
 with peaks from 0.5%-6.0% to 6.5%-11.0%, corresponding to intra- and intergenotypic distances (Figure 3). The bimodal distribution also indicated equivalency of genotypic groups (24). However, in light of the limited number of RGII specimens, more specimens are needed to fully characterize the extent of the diversity within non-RGI viruses, and criteria need to be established for definition of additional genotypes. In this regard, as represented by the viruses in this collection, only one of the RGII clusters (RGIIA) has been repeatedly active in the past decade. However, viruses belonging to the RGII C cluster (China) have been recently isolated (Z. Zhen et al., unpub, data).

[FIGURE 3 OMITTED]

Figure 4 shows the countries from which RGI and RGII viruses have been isolated. RGII has not been isolated from an indigenous case outside of the Eastern Hemisphere. Only RGI viruses have been isolated from the United Kingdom, Belgium, Germany, Japan, and New Zealand; other studies have shown RGI viruses in Brazil (10) and Greece (23). Only RGII viruses have been isolated from India, and both genotypes have been isolated from Russia, Italy, Israel, China, and Korea. In Italy and Korea, the two genotypes were isolated in the same year. In both Italy and Israel, isolation of RGII viruses was only during a single year. By contrast, RGI viruses were isolated in both previous and subsequent years. This finding indicates that these RGII viruses were imports, although the relative distant relatedness of the two Italy isolates suggests at least two importation events, albeit in a single year (9). In China, RGII viruses were isolated in 1979 and 1980; the most recent isolates (1999) were RGI, although RGIIC viruses were recently isolated (Z. Zhen et al., unpub, data). These data indicate that RGI has a wider worldwide distribution than does RGII and that in much of the world RGI is the sole genotype. Recent RGII activity is confined to Asia and overlaps with RGI; however, the dataset from areas in which RGII viruses appear to circulate is limited. Additionally, as shown in Figure 4, large regions of the world remain to be sampled to complete the rubella virus genotypic picture.

[FIGURE 4 OMITTED]
Table 1. "New" rubella virus E1 gene sequences used in this
study (a)

Isolate               Isolation site and y     GenBank no.

China
  AH2/AH-CHN99          Anhui, China 1999      AY326350
  AH5/AH-CHN99          Anhui, China 1999      AY326351
Germany
  BCM/-GER91              Germany 1991         AY326341
  G696/-GER98             Germany 1998         AY326342
Israel
  I11/TA-ISR68        Tel Aviv, Israel 1968    AY326335
  I19/HF-ISR72         Haifa, Israel 1972      AY326338
  I9/JS-ISR75        Jerusalem, Israel 1975    AY326334
  I13/BB-ISR79       Bene-Berak, Israel 1979   AY326336
  I15/JF-ISR78         Jaffa, Israel 1978      AY326337
  I34/TB-ISR88        Tiberias, Israel 1988    AY326339
  I76/EV-ISR92       Ein-Vered, Israel 1992    AY326340
India
  MTS/-IND00               India 2000          AY326343 (b)
Japan
  J05/TK-JPN93          Tokyo, Japan 1993      AB072382
  J91/GM-JAP94          Gunma, Japan 1994      AB072384
  J86/ST-JAP95         Saitama, Japan 1995     AB072397
  J13/HS-JAP97        Hiroshima, Japan 1997    AY397695
Korea
  AN1/SO-KOR95          Seoul, Korea 1995      AY326345
  AN3/SO-KOR96          Seoul, Korea 1996      AY326346
  AN5/SO-KOR96          Seoul, Korea 1996      AY326347
  AN6/SO-KOR96          Seoul, Korea 1996      AY326348
New Zealand
  JC1/AL-NEZ81          Auckland, NZ 1981      AY326331
  JC2/AL-NEZ91          Auckland, NZ 1991      AY326332
  JC5C/AL-NEZ91         Auckland, NZ 1991      AY326333
Russia
  C4/MO-RUS67          Moscow, Russia 1967     AY247015
  C19/MO-RUS68         Moscow, Russia 1968     AY247016
  C44/MO-RUS69         Moscow, Russia 1969     AY247017
  C68/MO-RUS73         Moscow, Russia 1973     AY247018
  C74/MO-RUS97         Moscow, Russia 1997     AY247019

(a) New E1 gene sequences not previously reported in earlier
studies (8-12) are listed in this Table. A complete list of
sequences used in this study is available online
(http://www.cdc.gov/ncidod/EID/vol09no12/03-0242.htm#table 1).

(b) Isolated in Seattle, WA, USA.

Table 2. Intra- and intergoup genetic distances among rubella
genotype I (RGI) and RGII clusters (a)

                                      Mean distance from
                   Intragroup
Genotype/cluster   variability   RGII   RGIIA   RGIIB   RGIIC

RGI                 0.08-5.75    7.28   7.59    6.20    8.21
RGII                 0-7.95
RGIIA                0-5.41                     7.24    7.13
RGIIB               0.42-1.95                           7.19
RGIIC                 2.54

(a) Ranges and mean genetic distances (% nucleotide difference) were
determined from all pairwise combinations from viruses in these
groups (Figure 1).

Table 3. Comparison of genotypic statistics using the E1 gene and
the molecular epidemiology window (MEW)

                                        Intergenotypic distance (a,b)

            G+C         Transition/                          Mean
Window  content (a)   transversion (a)    Range     Mean  RGI vs RGII

E1          66.6            6.34        0.08~10.32  4.92     7.28
MEW         66.1            6.15         0~11.69    4.97     8.32

            Intragenotypic distances (a,c)

                   RGI             RGII

Window       Range     Mean   Range    Mean

E1         0.08~5.75   3.55   0~7.95   5.66
MEW         0~5.97     3.49   0~8.71   6.61

(a) Statistics were determined from all sequences listed in Table 1.

(b) The range and mean of genetic distances (% difference) were
determined by using all sequences. The mean rubella genotype I
(RGI) vs. RGII was determined from all of the pairwise RGI-RGII
combinations.

(c) The range and mean of genetic distances were determined for RGI
and RGII viruses separately.


Acknowledgments

We thank Tamie Ando for assistance with histogram analysis.

This research was supported by a grant from the Public Health Service (AI21389). This research was done as part of Dr. Zheng's Ph.D. program at Georgia State University History
Georgia State University was founded in 1913 as the Georgia School of Technology's "School of Commerce." The school focused on what was called "the new science of business.
. D.P.Z. was supported in part by a fellowship from the National Immunization immunization: see immunity; vaccination.  Program of Centers for Disease Control and Prevention Centers for Disease Control and Prevention (CDC), agency of the U.S. Public Health Service since 1973, with headquarters in Atlanta; it was established in 1946 as the Communicable Disease Center.  and in part by funding from the Research Program Enhancement, Office of Research and Sponsored Programs, Georgia State University.

References

(1.) Chantler J, Wolinsky JS, Tingle A. Rubella virus. In: Knipe DM, Howley PM, editors. Fields virology virology, study of viruses and their role in disease. Many viruses, such as animal RNA viruses and viruses that infect bacteria, or bacteriophages, have become useful laboratory tools in genetic studies and in work on the cellular metabolic control of gene expression . 4th ed. Philadelphia: Lippincott, Williams, and Wilkins; 2001. p. 963-90.

(2.) Plotkin SA. Rubella. In: Plotkin SA, Orenstein WA, editors. Vaccines. 3rd ed. Philadelphia: Saunders; 1999. p. 409-40.

(3.) World Health Organization. Preventing congenital rubella syndrome. Wkly Epidemiol Rec 2000;75:289-96.

(4.) Castillo-Solorzano C, Carrasco P, Tambini G, Reef S, Brana M, De Quadros CA. New horizons in the control of rubella and prevention of congenital rubella syndrome in the Americas. J Infect Dis 2003;187(Suppl 1):S146-52.

(5.) Venczel L, Rota J, Dietz M Morris-Glasgow V. Siqueira M, Quirogz E, et al. The measles laboratory network in the region of the Americas. J Infect Dis 2003;187(Suppl 1):S140-5.

(6.) Frey TK. Molecular biology molecular biology, scientific study of the molecular basis of life processes, including cellular respiration, excretion, and reproduction. The term molecular biology was coined in 1938 by Warren Weaver, then director of the natural sciences program at the Rockefeller  of rubella virus. Adv Virus Res 1994;44:69-160.

(7.) Frey TK, Abernathy ES. Identification of strain-specific nucleotide sequences in the RA27/3 rubella virus vaccine rubella virus vaccine
n.
A vaccine containing live attenuated rubella virus prepared in duck embryo or human diploid cell culture and administered as a single subcutaneous injection to immunize against rubella.
. J Infect Dis 1993;168:854-64.

(8.) Frey TK, Abernathy ES, Bosma TJ, Starkey WG, Corbett KM, Best JM, et al. Molecular analysis of rubella virus epidemiology across three continents, North America, Europe, and Asia, 1961-1977. J Infect Dis 1998;178:642-50.

(9.) Zheng DP. Zhu II, Revello MG, Gerna G, Frey TK. Phylogenetic analysis of rubella virus isolated during a period of epidemic transmission in Italy, 1991-1997. J Infect Dis. 2003;187:1587-97.

(10.) Reef SE, Frey TK, Theall K, Abernathy E, Burnett CL, Icenogle J, et al. The changing epidemiology of rubella in the 1990s, on the verge On the Verge (or The Geography of Yearning) is a play written by Eric Overmyer. It makes extensive use of esoteric language and pop culture references from the late nineteenth century to 1955.  of elimination and new challenges for control and prevention. JAMA JAMA
abbr.
Journal of the American Medical Association
 2002;287:464-72.

(11.) Katow S, Minahara H, Fukushima M, Yamaguchi Y. Molecular epidemiology of rubella by nucleotide sequences of the rubella virus El gene in three East Asia East Asia

A region of Asia coextensive with the Far East.



East Asian adj. & n.
 countries. J Infect Dis 1997;176:602-16.

(12.) Bosma TJ, Best JM, Corbett KM, Banatvala JE, Starkey WG. Nucleotide sequence analysis of a major antigenic domain of the El glycoprotein glycoprotein (glī'kōprō`tēn), organic compound composed of both a protein and a carbohydrate joined together in covalent chemical linkage.  of 22 rubella virus isolates. J Gen Virol 1996;77:2523-30.

(13.) Pugachev KV, Abernathy ES, Frey TK. Genomic sequence of the RA27/3 vaccine strain of rubella virus. Arch Virol 1997;142:1165-80.

(14.) Schmidt HA, Strimmer Strimmer
Noun

Trademark an electrical tool for trimming the edges of lawns

Strimmer® ncortacéspedes m inv (especial para los bordes)

 K, Vingron M, von Haeseler A. TREE-PUZZLE: maximum likelihood phylogenetic analysis using quartets and parallel computing Solving a problem with multiple computers or computers made up of multiple processors. It is an umbrella term for a variety of architectures, including symmetric multiprocessing (SMP), clusters of SMP systems, massively parallel processors (MPPs) and grid computing. . Bioinformatics 2002;18:502-4.

(15.) Hasegawa M, Kishino H, Yano K. Dating of the human-ape splitting by a molecular clock of mitochondrial DNA Mitochondrial DNA (mtDNA) is the DNA located in organelles called mitochondria. Most other DNA present in eukaryotic organisms is found in the cell nucleus. Nuclear and mitochondrial DNA are thought to be of separate evolutionary origin, with the mtDNA being derived from the . J Mol Evol 1985;22:160 74.

(16.) Page RDM RDM Ring Deutscher Makler (German Realty Association)
RDM Red Mage (Final Fantasy, gaming)
RDM Remote Device Management (protocol used in theatre lighting equipment) 
. TreeView: an application to display phylogenetic trees on personal computers. Comp. Appl Biosci 1996;12:357-8.

(17.) Zheng DP, Zhang LB, Fang ZY. Yang CV, Mulders M, Pallansch MA, et al. Distribution of wild type 1 poliovirus genotypes in China. J Infect Dis 1993;168:1361-7.

(18.) Jin L, Vyse A, Brown DW. The role of RT-PCR assay of oral fluid for diagnosis and surveillance of measles, mumps and rubella. Bull World Health Organ 2002;80:76-7.

(19.) Vyse A J, Lin L. An RT-PCR assay using oral fluid samples to detect rubella virus genuine for epidemiological surveillance Epidemiological surveillance is the discipline of continuously gathering, analysing, and interpreting data about diseases, and disseminating conclusions of the analyses to relevant organisations. As such, it is a key element in epidemiology. . Mol (Tell Probes 2002;16:93-7.

(20.) Bosma TJ, Corbett KM, Eckstein MB, O'Shea S, Vijayalakshmi P, Banatvala JE, et al. Use of PCR PCR polymerase chain reaction.

PCR
abbr.
polymerase chain reaction


Polymerase chain reaction (PCR) 
 for prenatal and postnatal postnatal /post·na·tal/ (-na´t'l) occurring after birth, with reference to the newborn.

post·na·tal
adj.
Of or occurring after birth, especially in the period immediately after birth.
 diagnosis of congenital rubella. J Clin Microbiol 1995;33:2881-7.

(21.) Bosma TJ, Corbett KM, O'Shea S, Banatvala JE, Best JM. PCR for detection of rubella virus RNA RNA: see nucleic acid.
RNA
 in full ribonucleic acid

One of the two main types of nucleic acid (the other being DNA), which functions in cellular protein synthesis in all living cells and replaces DNA as the carrier of genetic
 in clinical samples. J Clin Microbiol 1995;33:1075-9.

(22.) Tanemura M, Suzumori K. Yagami Y, Katow S. Diagnosis of fetal rubella infection with reverse transcription reverse transcription
n.
The process by which DNA is synthesized from an RNA template.
 and nested polymerase chain reaction Nested polymerase chain reaction is a modification of polymerase chain reaction intended to reduce the contaminations in products due to the amplification of unexpected primer binding sites. : a study of 34 cases diagnosed in fetuses. Am J Obstet Gynecol 1996;174:578-82.

(23.) Adams SD, Tzeng W-P, Chen M-H M-H Miami Herald (Miami, FL newspaper) , Frey TK. Analysis of intermaolecular RNA-RNA recombination by rubella virus. Virology 2003;309:258-71.

(24.) Ando T, Noel JS, Fankhauser L. Genetic classification of "Norwalk-like viruses." J Infect Dis 2000;181(Suppl 2):336-48.

Du-Ping Zheng, * (1) Teryl K. Frey, * Joseph Icenogle, ([dagger]) Shigetaka Katow, ([dagger]) ([double dagger double dagger
n.
A reference mark () used in printing and writing. Also called diesis.

Noun 1.
]) Emily S. Abernathy, * ([dagger]) Ki-Joon Song, ([section]) Wen-Bo Xu, ([paragraph]) Vitaly Yarulin, (#) R.G Desjatskova, (#) Yair Aboudy, ** Gisela Enders, ([dagger]) ([dagger]) and Margaret Croxson, ([double dagger]) ([double dagger])

* Georgia State University, Atlanta, Georgia, USA; ([dagger]) Centers for Disease Control and Prevention, Atlanta, Georgia, USA; ([double dagger]) National Institute of Infectious Diseases infectious diseases: see communicable diseases. , Tokyo, Japan; ([section]) Korea University This article is about the university in Seoul, South Korea. For the Chongryon-affiliated school in Tokyo, Japan, see Korea University (Japan).

Along the modern Korean history, Korea University has been one of the craddles of manpower in Korean society
, Seoul, Korea; ([paragraph]) Chinese Centers for Disease Control and Prevention, Beijing, China; (#) Institute of Viral Preparations, Moscow, Russia; ** Chaim Sheba Chaim Sheba (1908, Frasin, near Gura Humora, Romania—1971) was an Israeli physician.

Born to the well known Scheiber Hasidic family, in 1929, he ended his medical studies in Vienna and made aliyah in 1933.
 Medical Center, Tel-Hashomer, Israel; ([dagger]) ([dagger]) Institute for Virology, Infectiology and Epidemiology, Stuttgart, Germany; and ([double dagger]) ([double dagger]) Auckland Hospital, Auckland, New Zealand

(1) Current address: Respiratory and Enteric Viruses Branch, Division of Viral and Rickettsial Diseases, National Center for Infectious Diseases, Centers for Disease Control and Prevention, Atlanta, GA, USA.

Dr. Zheng spent 4 years as a research scientist in the Respiratory and Enteric Viruses Branch (REVB REVB Respiratory and Enteric Viruses Branch (Centers for Disease Control and Prevention) ) at the Centers for Disease Control and Prevention (CDC), where he studied the molecular epidemiology of poliovirus, specifically with regard to the elimination of wild poliovirus from China in 1994. He worked as a virologist virologist

microbiologist specializing in virology.
 at the Chinese Center for Disease Control and Prevention Noun 1. Center for Disease Control and Prevention - a federal agency in the Department of Health and Human Services; located in Atlanta; investigates and diagnoses and tries to control or prevent diseases (especially new and unusual diseases)
CDC
 in Beijing. Dr. Zheng currently works on Norovirus molecular epidemiology in the REVB at CDC. His scientific research interests are viral molecular genetics molecular genetics
n.
The branch of genetics that deals with hereditary transmission and variation on the molecular level.
 and molecular epidemiology.

Address for correspondence: Teryl K. Frey, Georgia State University, Biology Department, P.O. Box 4010, Atlanta, GA 30303. USA; fax: 404 651 3105; email: tfrey@gsu.edu
COPYRIGHT 2003 U.S. National Center for Infectious Diseases
No portion of this article can be reproduced without the express written permission from the copyright holder.
Copyright 2003, Gale Group. All rights reserved. Gale Group is a Thomson Corporation Company.

 Reader Opinion

Title:

Comment:



 

Article Details
Printer friendly Cite/link Email Feedback
Title Annotation:Research
Author:Croxson, Margaret
Publication:Emerging Infectious Diseases
Date:Dec 1, 2003
Words:5237
Previous Article:Raccoon roundworm eggs near homes and risk for larva migrans disease, California communities.(Research)
Next Article:Risk factors for Marburg hemorrhagic fever, Democratic Republic of the Congo.(Research)
Topics:



Related Articles
Congenital rubella and the rehabilitation counselor.
Genetic homogeneity of measles viruses associated with a measles outbreak, Sao Paulo, Brazil, 1997. (Research).
Molecular epidemiology of measles viruses in the United States, 1997-2001. (Research).
New lyssavirus genotype from the Lesser Mouse-eared Bat (Myotis blythi), Kyrghyzstan. (Research).
Wild-type measles virus in brain tissue of children with subacute sclerosing panencephalitis, Argentina.(Dispatches)
Rubella epidemic strain, Greece, 1999.(Letters)(Letter to the Editor)
Rubella elimination and improving health care for women.(International Conference On Women And Infectious Diseases)
Dengue virus type 3, Cuba, 2000-2002.(LETTERS)(Letter to the Editor)
New measles genotype, Uganda.
Identical genotype B3 sequences from measles patients in 4 countries, 2005.(DISPATCHES)

Terms of use | Copyright © 2009 Farlex, Inc. | Feedback | For webmasters | Submit articles