detection and genetic diversity of human metapneumovirus in

25
1 Detection and Genetic Diversity of Human Metapneumovirus in 1 Hospitalized Children with Acute Respiratory Infections in Southwest 2 China 3 Cui Zhang, Li-na Du, Zhi-yong Zhang, Xian Qin, Xi Yang, Ping Liu, Xin Chen, Yao Zhao, En-mei 4 Liu, Xiao-dong Zhao* 5 6 Corresponding to: 7 Xiaodong Zhao, MD., Ph.D 8 Division of Immunology, Children’s Hospital of Chongqing Medical University 9 Ministry of Education Key Laboratory of Child Development and Disorders 10 Key Laboratory of Pediatrics in Chongqing 11 Chongqing International Science and Technology Cooperation Center for Child Development and 12 Disorders 13 Chongqing 400014, China 14 Tel: 86 23 6362 2554 15 Fax: 86 23 6360 2136 16 Email: [email protected] 17 18 these authors contributed equally to the article 19 20 Copyright © 2012, American Society for Microbiology. All Rights Reserved. J. Clin. Microbiol. doi:10.1128/JCM.00809-12 JCM Accepts, published online ahead of print on 12 June 2012 on April 4, 2019 by guest http://jcm.asm.org/ Downloaded from

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Page 1: Detection and Genetic Diversity of Human Metapneumovirus in

1

Detection and Genetic Diversity of Human Metapneumovirus in 1

Hospitalized Children with Acute Respiratory Infections in Southwest 2

China 3

Cui Zhang﹟, Li-na Du﹟, Zhi-yong Zhang﹟, Xian Qin, Xi Yang, Ping Liu, Xin Chen, Yao Zhao, En-mei 4

Liu, Xiao-dong Zhao* 5

6

Corresponding to: 7

Xiaodong Zhao, MD., Ph.D 8

Division of Immunology, Children’s Hospital of Chongqing Medical University 9

Ministry of Education Key Laboratory of Child Development and Disorders 10

Key Laboratory of Pediatrics in Chongqing 11

Chongqing International Science and Technology Cooperation Center for Child Development and 12

Disorders 13

Chongqing 400014, China 14

Tel: 86 23 6362 2554 15

Fax: 86 23 6360 2136 16

Email: [email protected] 17

18

﹟ these authors contributed equally to the article 19

20

Copyright © 2012, American Society for Microbiology. All Rights Reserved.J. Clin. Microbiol. doi:10.1128/JCM.00809-12 JCM Accepts, published online ahead of print on 12 June 2012

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ABSTRACT 21

Human metapneumovirus (hMPV) is a main pathogen causing respiratory tract infection in 22

susceptible population, particularly in children and the elderly. Specimens were collected from 23

hospitalized children with acute lower respiratory tract infections (ALRTI) and the hMPV was 24

detected by using real-time RT-PCR. The full length G gene of hMPV was amplified by reverse 25

transcription PCR (RT-PCR). A total of 1410 nasopharyngeal aspirates (NPAs) were collected from 26

April 2008 to March 2011, and 114 (10.2%) were positive for hMPV. Most of hMPV positive children 27

were aged <5 years. The hMPV infection rate peaked in spring-summer season of 2008-2009 and 28

2009-2010, while hMPV circulated predominantly during winter-spring season of 2010-2011. The 29

full length G gene of 23 hMPV strains was amplified and group A and B viruses accounted for 30

95.7% (22/23) and 4.3% (1/23), respectively. Genotype A2b of hMPV appeared to be predominant 31

during the study period. Three genotypes (A2b, A1 and B1) were prevalent in the epidemic season 32

of 2008-2009, and only genotype A2b was identified in the other two seasons (2009-2010 and 33

2010-2011). The G gene of hMPV was predicted to encode proteins with four different lengths, in 34

which one with 210 amino acids was firstly identified in China. These findings suggest that hMPV 35

was an important pathogen of ALRTI in pediatrics, especially those aged <5 years. Group A2b of 36

hMPV likely predominates in Southwest China, and other genotypes also circulate. 37

38

Keywords: human metapneumovirus; genetic variability; epidemiology; attachment protein 39

40

41

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INTRODUCTION 42

Human metapneumovirus (hMPV) was first isolated in 2001 from nasopharyngeal aspirates (NPAs) 43

of children with acute lower respiratory tract infections (ALRTI) in the Netherlands (27). 44

Subsequently it has been identified all over the world (2, 20, 21, 24). Children aged <5 years, elderly 45

adults and immunocompromised patients are at an increased risk for severe hMPV infection (23, 46

24). Morphologically, hMPV consists of a negative-sense, single stranded and non-segmented RNA 47

that encodes at least 9 distinct proteins (26). Among them, the two major transmembrame 48

glycoproteins, G and F proteins, can stimulate the production of protective immune responses and 49

therefore are antigenically significant (11). Unlike the relatively conserved F protein (95% homology 50

at the amino acid level between group A and B hMPV), the G protein is highly variable with only 51

53% amino acid homology between group A and B(3). 52

53

Similar to respiratory syncytial virus (RSV), hMPV strains vary genetically and antigenically and 54

have been classified into two broad groups: group A and group B (4, 26), with each group divided 55

into genetic subgroups 1 and 2 (12). More recently, phylogenetic analysis showed a further 56

bipartition of subgroup A2 into two new genetic clusters designated A2a and A2b (3). Both antigenic 57

group A and group B were noted to co-circulate in the same city during the epidemic periods and 58

had various patterns of predominance. 59

60

Among all the sub-lineages of hMPV, the A2 sub-lineage shows the greatest diversity. Antigenic 61

variability is thought to contribute to re-infection throughout the life and may pose a challenge to 62

vaccine development. Future planning for vaccine development requires in depth understanding of 63

genetic composition of the hMPV strains prevalent in target population. 64

65

However, less information is available on the distribution pattern of hMPV strains in Southwest 66

China. We had conducted a two-year epidemiological study on hMPV in Chongqing area from April 67

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2006 to March 2008 and genotype A2 was found to be the most predominant one during the study 68

period (6). Thus, ongoing epidemiological surveillance in a consecutive manner will help assess the 69

disease burden and genetic diversity of hMPV. The aim of the present study was to evaluate the 70

genetic diversity of the G protein gene of hMPV in hospitalized infants and young children with 71

ALRTI in the past three epidemic periods in Chongqing. Information on distribution of hMPV 72

genotypes in China will be beneficial for the development of hMPV vaccines. 73

74

MATERIALS AND METHODS 75

Collection of specimens 76

From April 2008 to March 2011, NPAs were obtained on three fixed days of each week from all 77

children admitted to Chongqing Children’s hospital due to ALRTI. ALRTI was diagnosed according 78

to the criteria developed by World Health Organization. The specimens were immediately placed at 79

4°C in tubes containing 3 ml of cold viral transport medium (PBS, 100 U/µL, penicillin and 100 80

µg/mL streptomycin) and transported to the Department of Virology within 4~6 h. Specimens were 81

vortexed and centrifuged at 1500 g for 10 min at 4°C to separate the cells for direct 82

immunofluorescence assay (DFA) to detect seven common viral respiratory pathogens ( respiratory 83

syncytial virus, parainfluenza virus 1, 2 and 3, influenza virus A and B and adenovirus) on the same 84

day. Cell pellet was washed with PBS for three times and added to the cytospun slides after being 85

adjusted to suitable concentration. Subsequently cells were fixed with acetone for 10 minutes after 86

being dried in room temperature. A kit from Chemicon was used to stain the cells and the 87

manufacturer’s instructions were followed. The supernatants were stored at -70 °C for use. This 88

study was approved by the Ethics and Research Council of Chongqing Children’s Hospital and 89

informed consent was obtained from their parents or guardians. 90

91

92

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RNA extraction and cDNA synthesis 93

RNA was extracted from 140 µl of frozen specimens with an RNeasy mini kit (QIAGEN, Germany) 94

according to the manufacturer’s instructions. The dried RNA was dissolved in 50 µl of DNAse-free, 95

RNAse-free water. For cDNA synthesis, 100 ng of total RNA was used as a template for reverse 96

transcription polymerase chain reaction (RT-PCR) with random primers. 97

98

Real-time PCR assays 99

All NPAs were tested for hMPV by real-time PCR. Real-time PCR primers and probes for hMPV F 100

gene were used for the diagnosis of hMPV infection and designed based on the sequence in 101

GenBank (accession number: DQ336144). Viral cDNA was amplified by using a real-time PCR with 102

the Premix Ex Taq Kit (Perfect Real Time, TaKaRa, China) in a LightCycler instrument (Roche 103

Diagnostics, American). Two microliters of cDNA was added to a 22uL real-time PCR master 104

mixture containing 200 uM deoxynucleoside triphosphates, 1.5 mM MgCl2, 1.5 U of Taq DNA 105

polymerase, and 50 pM each primer and probe. The thermocycling protocol was 94°C for 2 min, 106

followed by 35 cycles of 94°C for 1 min, 55°C for 1 min, and 72°C for 1 min, with a final extension for 107

7 min at 72°C. The positive was defined at cycle threshold (Ct) of ≤36. Negative and positive control 108

was introduced in each real-time PCR. Positive control was the cDNA from a recombinant hMPV 109

infected Vero-E6 cells. The sequence of real-time PCR primers and probes for hMPV F gene was 110

as followed: hMPV-F(F): 5’-CGTTTCTAACATGCCGACATCTG-3, hMPV-F(R): 111

5’-GCTCCCGTAGACCCCTATCAG-3’, Probe 112

5’(FAM)-CCCTTTCTTCGCACCATCGCACGG(Eclipse)-3’, To verify the presence and sequence of 113

the virus, traditional RT-PCR was also used to amplify the hMPV F and G gene to ensure 114

reproducibility. All PCR assays were verified to be able to amplify F and G gene of the recombinant 115

hMPV positive control. 116

117

PCR amplification of full length G protein gene 118

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We selected 23 hMPV strains by using random digits table, including seven in the epidemic season 119

of 2008-2009, seven in 2009-2010 and nine in 2010-2011. Primers used to amplify the full length G 120

protein were hMPVGF 5'-GAGAACATTCGAGCAATAGACATG-3' and hMPVGR 121

5'-AGATAGACATTAACAGTGGATTCA-3' .DNA amplification was carried out by 35 cycles of 94 °C 122

for 1 min, 58 °C for 1 min, and 72 °C for 1 min, with a final extension at 72 °C for 10 min. Five 123

microliters of PCR products were subjected to 1.5% agarose gel electrophoresis, stained with 124

GoldViewTM nucleic acid stain (SBS genetech) and visualized under UV light. 125

126

DNA sequencing 127

The PCR products were purified with a QIAquick gel extraction kit (QIAGEN, Germany) according to 128

the manufacturer’s instructions. The purified PCR products were sequenced in both directions using 129

the same PCR primers for amplification on an ABI PRISM 310 genetic analyzer (Applied 130

Biosystems) by using an ABI PRISM BigDye Terminator cycle sequencing ready reaction kit 131

(Applied Biosystems). 132

133

Phylogenetic analysis 134

Nucleotide and amino acid sequences of group A and B hMPV were compared independently with 135

the available hMPV sequences in the GenBank database using ClustalX version 1.81 and manually 136

edited with BioEdit version 7.0.1. Phylogenetic trees were constructed by the neighbor-joining 137

method in MEGA version 5. The statistical significance of the tree topology was tested by 138

bootstrapping (1,000 replicas). The phylogenetic analysis included the hMPV sequences in 139

GenBank belonging to four different subgroups: A1: CHN03-06( EF571502), FL-8-01( AY295989), 140

CAN99-81(AY574224) and NL1-00(AY296035); A2a: Arg-4-00(DQ362953), CAN97-83(AY297749); 141

A2b: CHN07-06(EF571506), BJ1819(DQ270215), BJ1887(DQ843659) and KOL-30-06(HQ599198); 142

BI: CHN12-06(EF571511), NL-11-00(AY296035), Arg-1-00(DQ362958) and NL-1-99(AY296034); 143

B2: CAN98-75(AY297748). 144

145

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Nucleotide sequence accession numbers:The GenBank accession numbers of the nucleotide 146

sequences obtained in the present study are JX082172-JX082194.147

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RESULTS 148

Epidemiology of hMPV 149

A total of 1410 specimens were collected from inpatients with ALRTI from April 2008 to March 2011, 150

and 144 (10.2%) were positive for hMPV by real-time RT-PCR. Positive rate of hMPV was 11.8% 151

during 2008-2009, 7.31% during 2009-2010 and 12.8% during 2010-2011. The prevalence of hMPV 152

in Chongqing was high in April, May and June of 2008-2009 and 2009-2010 while hMPV circulated 153

predominantly during the late winter and spring of 2010-2011 (Figure 1). 154

155

hMPV infected children were aged 1~71 months (median: 21 months). Most infected individuals 156

were infants aged 0~6 months, accounting for 45.9% of subjects positive for hMPV infection. Infants 157

aged 6-12 months and children aged 1~2 years accounted for 10.4% and 15.3%, respectively. 158

Children aged 2~5 years accounted for 20.1%. (Table 1) 159

160

All 144 hMPV-positive patients had clinical symptoms. The main clinical presentations included 161

fever (n=62; 41.5%), cough (n=142; 99.1%), wheezing (n=102; 71.1%) and cyanosis (n=110; 162

85.0%). The hMPV-infected children were diagnosed with bronchopneumonia (61.1%; 88/144), 163

bronchiolitis (19.4%; 28/144), bronchial asthma exacerbation (15.9%; 23/144) and acute upper 164

respiratory infection (3.4%; 5/144). (Table 2).Eighteen out of 144 inpatients had co-morbidities 165

including congenital heart disease (15/144), tracheomalacia (3/144) and congenital laryngeal stridor 166

(1/144). Eight patients developed respiratory failure and one required mechanical ventilation. 167

Among the eight patients with respiratory failure, congenital heart disease was identified in 3 168

patients and co-infection of other respiratory viruses was found in 4 patients, including 3 with RSV 169

and 1 with PIV3. 170

171

Other respiratory viruses co-infecting with hMPV 172

In addition, 29.2% (n=42) of hMPV positive patients were found to have concomitant infection of 173

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other respiratory viruses, including 19 with RSV, 11 with PIV3, 6 with ADV, 6 with InfB. Among them, 174

18 (42.9%) were younger than 1 year and diagnosed with ALRTI including pneumonia (n=12) and 175

bronchiolitis (n=3). 176

177

Phylogenetic analysis and genotype distribution patterns 178

Phylogenetic analysis of 23 hMPV strains in Chongqing confirmed two main genetic lineages A and 179

B. Interestingly, all the strains in Chongqing were clustered as A2b, A1 and B1, and subgroup B2 180

was not identified. During 2008 -2009, subgroup A2b,A1 and B1 co-circulated, with 82% (n=9) 181

belonging to A2b. Only one A1 and one B1 hMPV were detected in the same season. Interestingly, 182

only subgroup A2b was identified in the next two epidemic seasons (2009-2010 and 2010-2011). 183

The results of phylogenetic analysis of 23 hMPV strains were showed in Figure 2. 184

185

186

Sequencing of the full length of G protein gene revealed the homology ranged from 55.8- 58.4% at 187

nt level and 44.1-49.7% at the aa level between groups A and B isolates. Subgroup B1 strains 188

shared high homology with the prototype strain NL/1/99 (94.9% at nt.; 91.9% at aa), whereas 189

subgroup A2b strains revealed homology with the prototype strain CAN97-83 ranged from 190

89.6−99.8% at nt level and 82.3-84.9% at aa level. Subgroup A1 strains shared high homology with 191

the prototype strain CAN99-81 (100% in nt.). Compared with the prototype A2 strains circulating 192

from April 2006 to March 2008 in Chongqing, 21 A2 strains prevalent from April 2008 to March 2011 193

revealed homology ranging from 95.7-97.7% at nt level and 94.3-96.2% at aa level. The only one 194

subgroup B1 strains circulating in the present study shared high homology with the prototype B2 195

strains prevalent from April 2006 to March 2008 in Chongqing (92.8% at nt.; 90.7% at aa). 196

197

Amino acid analysis 198

The comparisons of deduced aa sequence of G protein gene of strains in Chongqing with their 199

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prototype strains revealed that intracellular and transmembrane regions were highly conserved 200

across the strains (supplemental data). Most of the changes in aa were observed in the extracellular 201

domain due to nt substitution. Changes in the stop codon were observed among strains of different 202

subgroups {nt 644 (UAG); nt 671 (UAG), nt 694 (UGA); 709(UAA)}, which corresponded to variable 203

lengths in polypeptides. Strains from subgroup A2b had two different stop codons resulting in G 204

proteins with 210aa (UAG) and 219aa (UAG), whereas subgroup B1 strains terminated at UGA stop 205

codon and exhibited protein with 231 aa. The subgroup A1 strains terminated at UAA stop codon 206

and exhibited protein with 236 aa. 207

208

209

210

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DISCUSSION 211

212

Respiratory tract infections are the major cause of hospitalization of young children in the winter 213

worldwide. Viruses most frequently associated with respiratory infections include rhinoviruses, 214

coronaviruses, influenza viruses, parainfluenza viruses, RSV and adenoviruses. In 2001, a new 215

member of the paramyxoviridae associated with respiratory infections, hMPV, was described in the 216

Netherlands. Serological studies indicated that nearly all children had been infected by age of 5 217

years (26). Some previous studies have suggested that hMPV is an important causative pathogen 218

for ALRTI in children in China (13,16), but the epidemiology of hMPV infection in countries with 219

large population remains largely unknown due to the limitations in these studies. 220

221

In the present study, 1410 specimens were collected from pediatric patients with ALRTI from April 222

2008 to March 2011 and tested for hMPV by real-time RT-PCR. The enrolled patients accounted for 223

a significant proportion of total inpatients with ALRTI in that period. Although we designed to enroll 224

all newly admitted patients in three fixed days in every week, the results were not necessarily free 225

from selection bias because we only collected NPAs in the daytime and some of admitted patients 226

refused to provide NPAs. The age and sex distributions and diseases between the enrolled 1410 227

patients in this study and the whole 9231 inpatients in the same period were not statistically different, 228

reflecting that the selected subjects may be relatively representative. To detect hMPV, F protein 229

gene was chosen becasue it is highly conserved and has been used in previous studies (16,17). 230

The frequency of hMPV infection varied from 5% to 30% among hospitalized children with ALRTI in 231

most studies (1, 18, 22, 25,) and 7.31% to 12.8% annually in this study by using real-time PCR to 232

detect the hMPV F protein gene. The prevalence of 46% hMPV infection varied from year to year, 233

with the lowest in the epidemic season from 2009 to 2010. The general prevalence of hMPV 234

infection was relatively high as compared with that in some other regions, probably due to a higher 235

population density in this city. Thus, hMPV appeared to bring a significant disease burden in 236

Chongqing and was a common prevalent virus for ALRTI. Several seroprevalence studies have 237

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previously shown that 90-100% of children are infected by the ages of 5-10 years. Comparable to 238

other reports (4, 5, 20), the present study showed 71.4% of children with hMPV infection were aged 239

<2 years. The high prevalence of hMPV infection in little children (<6 months) might be attributed to 240

weak immune function. The symptoms of hMPV infection among children were similar to those 241

described previously in respiratory syncytial viral infection (11, 21, 27). We found the most common 242

clinical manifestations of hMPV-associated ALRTI were fever, cough, wheezing and cyanosis. The 243

main diseases ranged from acute laryngotracheobronchitis, asthmatic bronchitis, bronchitis, to 244

bronchiolitis and pneumonia. We found hMPV infection was related to wheezing, asthma 245

exacerbations or bronchiolitis, as previous studies described (7, 8, 13). Consistent with our findings, 246

other studies have shown that hMPV infection may lead to severe respratory distress requiring 247

prolonged hospitalization, mechanical ventilation, and admission to an intensive care unit (2, 11, 14). 248

Thus hMPV infection is associated with a substantial clinical and likely economic impact. 249

250

Although the winter-spring season is traditionally regarded as the typical epidemic season of 251

hMPV infection in the temperate regions, our results showed that the hMPV infection peaked in the 252

spring-summer season (April-June) of 2008-2009 and 2009-2010 and winter-spring season 253

(November-February) of 2010-2011. The hMPV seasonality observed in this study was comparable 254

to that reported in Japan, which showed a biennial hMPV infection, with a peak between November 255

and March in odd years and between March and June in the successive even years (19).. The 256

difference in the hMPV seasonality between our study and other studies is unclear. Previous 257

studies have shown that climate can affect the seasonality of hMPV infection (14, 18, 22). However, 258

the climate records for Chongqing fail to indicate significant variability in the same months of 259

different years. Apparently, more studies with long period are needed to elucidate the real pattern of 260

hMPV circulation in this region. 261

262

Because of the similar seasonal distribution of hMPV and other respiratory viruses, the potential 263

co-infection likely existed. Some studies have found a co-infection rate of 10%-75% in hMPV and 264

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other respiratory virus (10, 15, 23). In this study, co-infection of hMPV with other respiratory viruses 265

was detected in 29.2% of hMPV-infected patients, and the co-infected viruses included respiratory 266

syncytial virus, influenza virus, parainfluenza virus and adenovirus. Of 25 patients identified as a 267

co-infection with RSV, 3 developed respiratory failure, indicating that hMPV and RSV co-infection 268

may lead to a more severe disease than infection alone. 269

270

Phylogenetic analysis of G protein gene sequences in the present study showed both the group A 271

and B hMPV circulated in Chongqing. Generally, group A hMPV is reported more common than 272

group B (9, 14, 16). In the present study, among 23 hMPV strains, 22 were grouped as A and 1 as B 273

(subgroup B1). HMPV group A was a likely predominant virus circulating in Chongqing, which was 274

in consistent with other studies (8, 17, 20). Genotype A2b, A1 and B1 viruses were detected in the 275

epidemic season of 2008-2009, of which A2b were more common. In 2009-2010 and 2010-2011, 276

only genotype A2b viruses were identified. Genotype B2 viruses were not identified in the present 277

study. Indeed, circulation of hMPV of different genotypes has been reported to vary annually, with 278

replacement of predominant genotypes every 1-3 years in a given population. Such genotype 279

replacement is believed to result from adaptive immunity of a population to the predominant 280

circulating genotype. However, genotype A2b viruses were predominant in the consecutive three 281

epidemic seasons in Chongqing, which was consistent with the findings in epidemiological study 282

from April 2006 to March 2008 (6). We found that genotype A2b viruses prevalent in the study 283

period revealed high homology with those circulated from April 2006 to March 2008 which may be 284

attributed to the low G gene diversity. 285

286

Although a report described that group A hMPV may be more pathogenic than group B hMPV (22), 287

no significant difference in the severity of ALRTI between groups or subgroups because only one 288

group B hMPV strain was detected. Further studies are required to better understand the clinical 289

significance, seasonality, and molecular epidemiology of hMPV. 290

291

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The predicted G protein of hMPV strains had different lengths which may be attributed to amino acid 292

substitution, insertion, deletion and/or change in the stop codon. G proteins with 4 different lengths 293

were identified in this study and this was the first report showing hMPV strain with 210 amino acids 294

circulating in China. 295

296

In summary, hMPV subgroups are observed among inpatients in Chongqing China in the past three 297

consecutive epidemic seasons. Genotype A2b has become a dominant genotype in the three 298

epidemic seasons. This study thus contributes to a better knowledge on the molecular epidemiology 299

of hMPV in China mainland. Comprehensive information on the prevalence of hMPV is important for 300

the selection of appropriate vaccine strains and thus may contribute to vaccine development. 301

302

Acknowledgements 303

This work was supported by the National Natural Science Foundation of China (No. 30330590) and 304

in part by Program for Chongqing Excellent Young Scientists Fund (CSCT, 2008BA5040). 305

306

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REFERENCES 307

1. Agrawal AS, Roy T, Ghosh S, et a1. 2011. Genetic variability of attachment (G) and Fusion (F) 308

protein genes of human metapneumovirus strains circulating during 2006-2009 in Kolkata, 309

Eastern India. Virol J. 12;8:67-74. 310

2. Bastien N, Normand S, Taylor T, et al. 2003.Sequence analysis of the N, P, M and F genes of 311

Canadian human metapneumovirus strains. Virus Res, 93:51-62. 312

3. Biacchesi S, Skiadopoulos MH, Boivin G, et al. 2003. Genetic diversity between human 313

metapneumovirus subgroups. Virology .315(1):1–9. 314

4. Boivin G, Abed Y, Pelletier G, et al. 2002. Virological features and clinical manifestations 315

associated with human metapneumovirus: A new paramyxovirus responsible for acute 316

respiratory-tract infections in all age groups. J Infect Dis. 186:1330–1334. 317

5. Boivin G, Mackay I, Sloots TP, et al. 2004. Global genetic diversity of human metapneumovirus 318

fusion gene. Emerg Infect Dis. 10:1154–1157. 319

6. Chen X, Zhang ZY, Zhao Y, et al. 2010. Acute lower respiratory tract infections by human 320

metapneumovirus in children in Southwest China: A 2-year study. Pediatric Pulmonology. 321

45:824–831. 322

7. Chung JY, Han TH, Kim SW, et al. 2007. Detection of viruses identified recently in children with 323

acute wheezing. J Med Virol; 79: 1238-43. 324

8. Esper F, Boucher D, Weibel C, et al. 2003. Human metapneumovirus infection in the United 325

States: clinical manifestations associated with a newly emerging respiratory infection in children. 326

Pediatrics; 111: 1407-10. 327

9. Freymouth F, Vabret A, Legrand L, et al. 2003. Presence of the new human metapneumovirus in 328

French children with bronchiolitis. Pediatr Infect Dis J. 22: 92-4. 329

10. Greensill J, McNamara PS, Dove W, et al. 2003. Human metapneumovirus in severe respiratory 330

syncytial virus bronchiolitis. Emerg infect Dis. 9:372-375. 331

11. Hall CB, Walsh EE, Long CE, et al 1991. Immunity to and frequency of reinfection with 332

respiratory syncytial virus. J Infect Dis. 163:693-698. 333

on April 4, 2019 by guest

http://jcm.asm

.org/D

ownloaded from

Page 16: Detection and Genetic Diversity of Human Metapneumovirus in

16

12.Huck B, Scharf G, Neumann-Haefelin D, et al. 2006. Novel human metapneumovirus sublineage. 334

Emerg Infect Dis. 12:147–150. 335

13. Ji, W., Y. Wang, Z. Chen, X. Shao, et al. 2009. Human metapneumovirus in children with acute 336

respiratory tract infections in Suzhou, China 2005-2006. Scand J Infect Dis. 41:735-744. 337

14. Kaplan NM, Dove W, Abd-Eldayem SA, et al. 2008. Molecular epidemiology and disease 338

severity of respiratory syncytial virus in relation to other potential pathogens in children 339

hospitalized with acute respiratory infection in Jordan. J Med Virol. 80:168–174. 340

15. kuypers J, Wright N, Corey L, et al. 2005. Detection and quantification of human 341

metapneumovirus in pediatric specimens by real-time RT-PCR. J Clin Virol. 33:299-305. 342

16. Li, X.Y., J.Y. Chen, M. Kong, X. et al. 2009. Prevalence of human metapneumovirus in 343

hospitalized children with respiratory tract infections in Tianjin, China. Arch Virol. 344

154:1831–1836. 345

17. Loo LH, Tan BH, Ng LM, et al. 2007. Human Metapneumovirus in Children, Singapore. Emerg 346

Infect Dis.13:1396–1398. 347

18. Mackay IM, Bialasiewicz S, Waliuzzaman Z, et a1. 2004. Use of the P gene to genotype human 348

metapneumovirus identifies 4 viral subtypes. J Infect Dis. 190 (11):1913-1918. 349

19. Ordas J, Boga JA, Alvarez-Arguelles M, et al. 2006. Role of metapneumovlrus in viral 350

respiratory infections in young children. J Clin Microbiol. 44(8): 2739-2742. 351

20. Osterhaus A, Fouchier R, 2003. Human metapneumovirus in the community. Lancet, 352

361:890-891. 353

21. Peret TC, Boivin G, Li Y, et al .2002. Characterization of human metapneumoviruses isolated 354

from patients in North America. J Infect Dis. 185:1660–1663. 355

22. Scheltinga SA, Templeton KE, Beemma MF, et a1. 2005. Diagnosis of human metapneumovirus 356

and rhinovirus in patients with respiratory tract infections by an internally controlled multiplex 357

real-time RNA PCR. J Clin Virol. 33(4): 306-311. 358

23. Semple MG, Cowell A, Dove W, et al. 2005. Dual infection of infants by human 359

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metapneumovirus and human respiratory syncytial virus is strongly associated with severe 360

bronchiolitis. J Infect Dis, 191:382-386. 361

24. Stockton J, Stephenson I, Fleming D, Zambon M. 2002. Human metapneumovirus as a cause of 362

community-acquired respiratory illness. Emerg Infect Dis. 8:897-901. 363

25. Sumino KC,Asapov E,Pierce RA , et a1. 2005. Detection of severe human metapneumovirus 364

infection by real-time polymerase chain reaction and histopathological assessment. J Infect 365

Dis. 192(6):1052-1060. 366

26. van den Hoogen BG, Bestebroer TM, Osterhaus ADME, et al. 2002. Analysis of the genomic 367

sequence of a human metapneumovirus.Virology. 295:119-132. 368

27.Van den Hoogen BG, de Jong JC, Groen J, et al. 2001. A newly discovered human pneumovirus 369

isolated from young children with respiratory tract disease. Nat Med. 7: 719–724. 370

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Fig. 1 Season distribution of hMPV infection in infants and children with ALRTI in Chongqing 389

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Fig. 2. Phylogenetic trees of nucleotide sequences of G protein gene of Chinese hMPV group A 403

(panel A) and B (panel B). The numbers at the branch nodes represent the number of bootstrap 404

probabilities. Reference sequences for each genotype (A1, A2a, A2b, B1,B2) were obtained from 405

GenBank. Additional sequences were included for the comparison by selecting representatives of 406

distinct clusters in previous studies and selecting isolates from GenBank that gave the best hits in 407

blast searches with each of the Chinese clusters. The genotype assignment is indicated at the right 408

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415 Table 1. Age distribution of 144 patients with hMPV infection 416

417 Age Number of patients Percentage(%) 0-6 mo 66 45.9

6-12mo 15 10.4 1-2yr 22 15.3 2-5yr 29 20.1 >5yr 12 8.3 Total 144 100

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Table 2. Clinical features of 144 patients with hMPV infection 421 422

Clinical presentation/diagnostic disease

Number of patients

Percentage(%)

fever 62 41.5 cough 142 99.1

wheezing 102 77.1 cyanosis 110 85

bronchopneumonia 88 61.1 bronchiolitis 28 19.4

bronchial asthma exacerbation 23 15.9 acute upper respiratory infection 5 3.4

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Table 1. Age distribution of 144 patients with hMPV infection

Age Number of patients Percentage(%) 0-6 mo 66 45.9

6-12mo 15 10.4 1-2yr 22 15.3 2-5yr 29 20.1 >5yr 12 8.3 Total 144 100

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Table 2. Clinical features of 144 patients with hMPV infection

Clinical presentation/diagnostic disease

Number of patients

Percentage(%)

fever 62 41.5 cough 142 99.1

wheezing 102 77.1 cyanosis 110 85

bronchopneumonia 88 61.1 bronchiolitis 28 19.4

bronchial asthma exacerbation 23 15.9 acute upper respiratory infection 5 3.4

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