Coronavirus HKU1 and Other Coronavirus Infections in Hong Kong
ABSTRACT
MATERIALS AND METHODS
Patients and microbiological methods.
RNA extraction.
RT-PCR for coronaviruses and DNA sequencing.
RT-PCR and sequencing of the complete RNA-dependent RNA polymerase, spike, and nucleocapsid genes of coronavirus-HKU1 and phylogenetic analysis.
Incidence of febrile seizures and clinical characteristics of children hospitalized for various respiratory virus infections.
Statistical analysis.
Nucleotide sequence accession numbers.
RESULTS
Results of respiratory virus detection in nasopharyngeal aspirates.
Clinical and laboratory characteristics of patients with CoV-HKU1 infections.
Characteristics of patients with other coronavirus infections and comparison with CoV-HKU1 infections.
Comparison of frequency of febrile seizure, maximum temperature, duration of fever, and duration of hospitalization for children with different respiratory virus infections.
RT-PCR and sequencing of the complete RNA-dependent RNA polymerase, spike, and nucleocapsid genes of coronavirus-HKU1 and phylogenetic analysis.
DISCUSSION
Coronavirus | Primer name | Primer direction, sequence (5′-3′) | Gene target | Purpose |
---|---|---|---|---|
CoV-HKU1 | LPW1926 | Forward, AAAGGATGTTGACAACCCTGTT | pol | Detection of CoV-HKU1 from NPA |
LPW1927 | Reverse, ATCATCATACTAAAATGCTTACA | pol | Detection of CoV-HKU1 from NPA | |
LPW1465 | Forward, GTTCAAGTGTCGCTGTTCA | pol | Sequencing of complete pol gene | |
LPW1822 | Reverse, CTATCATTATCACAATCCACAG | pol | Sequencing of complete pol gene | |
LPW1467 | Forward, GGGTATGAAGTATCATCCTA | pol | Sequencing of complete pol gene | |
LPW1825 | Reverse, GATAATCCCAACCCATAAGAAC | pol | Sequencing of complete pol gene | |
LPW1826 | Forward, CATCTTATAAAGGATGTTGAC | pol | Sequencing of complete pol gene | |
LPW1829 | Reverse, ACAAACAACACATGCACCTACAC | pol | Sequencing of complete pol gene | |
LPW1887 | Forward, TAGTGTATGGATACTGCCTTGT | N | Sequencing of complete N gene | |
LPW1890 | Reverse, GCTTTAACATTTCAGMATTACCA | N | Sequencing of complete N gene | |
LPW1891 | Forward, CAGTGTTTTGGTAAAAGAGGACC | N | Sequencing of complete N gene | |
LPW1892 | Reverse, TACCACCTAGTGTCGAATTAGG | N | Sequencing of complete N gene | |
LPW1830 | Forward, TTGCCTATTATTTTACAAGGT | S | Sequencing of complete S gene | |
LPW1864 | Reverse, ACACTACCTATAACTATAGTAC | S | Sequencing of complete S gene | |
LPW1832 | Forward, TATGTTAATAAWACTTTGTATAGTG | S | Sequencing of complete S gene | |
LPW1866 | Reverse, TACAATTGACAAGAACTAGAAG | S | Sequencing of complete S gene | |
LPW1836 | Forward, GATTTGCARTTGGGCAGTTCTGG | S | Sequencing of complete S gene | |
LPW1868 | Reverse, CCATTAGAATCATACAAAAGAT | S | Sequencing of complete S gene | |
LPW1840 | Forward, GGTATTTTTAAAGAAGTTTCTGC | S | Sequencing of complete S gene | |
LPW1870 | Reverse, AGCTTCAACAAAACCWACATCTG | S | Sequencing of complete S gene | |
LPW1844 | Forward, TAGGTYCACAMTGYGGTTCTTC | S | Sequencing of complete S gene | |
LPW1872 | Reverse, AMCCTTGYTTAGGTGCAATACCT | S | Sequencing of complete S gene | |
LPW1848 | Forward, TTAAAACTGTYTTAGTAAGTCC | S | Sequencing of complete S gene | |
LPW1874 | Reverse, TAGTAAAACTAGTTAYAACACC | S | Sequencing of complete S gene | |
HCoV-OC43 | LPW3064 | Forward, CTGGGATGATATGTTACGCCG | pol | Detection of HCoV-OC43 from NPA |
LPW3065 | Reverse, TATTCTGTGACAAAGGTTG | pol | Detection of HCoV-OC43 from NPA | |
HCoV-229E | LPW2905 | Forward, GTGTGATAGAGCTATGCCCTCA | pol | Detection of HCoV-229E from NPA |
LPW2906 | Reverse, GTAACCAAGTCCAGCATAAGTT | pol | Detection of HCoV-229E from NPA | |
HCoV-NL63 | LPW2907 | Forward, AATAATATGTTGCGTACTTTA | pol | Detection of HCoV-NL63 from NPA |
LPW2908 | Reverse, TCATTGAAAAATGTTTCCTA | pol | Detection of HCoV-NL63 from NPA |
Virus | No. (%) of patients infected |
---|---|
CoV-HKU1 | 13 (0.3) |
HCoV-OC43 | 53 (1.3) |
HCoV-229E | 4 (0.1) |
HCoV-NL63 | 17 (0.4) |
Influenza A virus | 545 (13.0) |
Influenza B virus | 120 (2.9) |
Adenovirus | 210 (5.0) |
Human parainfluenza virus 1 | 31 (0.7) |
Human parainfluenza virus 2 | 8 (0.2) |
Human parainfluenza virus 3 | 183 (4.4) |
Respiratory syncytial virus | 420 (10.0) |
Human metapneumovirus | 117 (2.8) |
None | 2,460 (58.8) |
Characteristic | Description or value for patientb: | |||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
1 | 2 | 3 | 4 | 5 | 6 | 7 | 8 | 9 | 10 | 11 | 12 | 13 | ||||||
Sex/age (yr)a | F/2 | F/7 | M/84 | M/3 | M/87 | F/4 | M/2 | M/19 mo | M/3 | F/9 | F/3 | M/5 | M/4 | |||||
Ethnic origin | Chinese | Chinese | Chinese | Chinese | Chinese | Chinese | Chinese | Arabian | Chinese | Chinese | Chinese | Chinese | Chinese | |||||
Underlying condition(s) | Prematurity, cerebral palsy, epilepsy | COPD, old PTB, IHD, BPH, ex-smoker | Recurrent febrile exanthema, SMA carrier | MVP, AF, HT, hypercholesterolemia, ex-smoker | Febrile convulsion | Asthma, allergic rhinitis, eczema | Neuroblastoma, 3 mo postautologous PBSCT | Epilepsy, right parietal cavernous hemangioma | ||||||||||
Presenting symptoms | ||||||||||||||||||
Fever | + | + | + | + | + | + | + | + | + | + | + | + | ||||||
Chills | + | + | + | + | ||||||||||||||
Rigor | + | + | + | |||||||||||||||
Cough | + | + | + | + | + | + | + | |||||||||||
Sputum | + | + | + | + | ||||||||||||||
Dyspnea | + | + | ||||||||||||||||
Rhinorrhea | + | + | + | + | + | + | + | + | + | |||||||||
Vomiting | + | + | + | + | + | + | ||||||||||||
Convulsion | + | + | + | + | + | + | + | |||||||||||
Other symptom(s) | Diarrhea | Skin rash | Myalgia | Skin rash, joint swelling | Abdominal pain | Abdominal pain, diarrhea | Right ear pain | |||||||||||
Physical examination finding(s) | Congested throat, shotty generalized lymphadenopathy | Generalized maculopapular rash, shotty cervical lymphadenopathy | Limb and joint swelling, generalized rash, shotty cervical lymphadenopathy | Bilateral basal crackles | Congested throat | Tachypnea, diffuse wheezing, occasional crackles | Inflamed throat, shotty cervical lymphadenopathy | Tachypnea, moderate insucking, diffuse wheezing | Congested throat | |||||||||
Chest radiograph finding(s) | Not taken | Clear | Old tuberculosis | Not taken | Bilateral lower-zone haziness | Clear | Perihilar haziness | Not taken | Not taken | Hyperinflated | Not taken | Not taken | Clear | |||||
Diagnosis | URTI, febrile seizure | URTI, epilepsy | URTI | URTI, angioedema | Pneumonia | URTI, febrile seizure | Acute bronchiolitis | URTI, febrile seizure | URTI, febrile seizure, rotavirus gastro-enteritis | URTI, asthma | URTI, febrile seizure | URTI | URTI, epilepsy | |||||
Duration of hospitalization (no. of days)
|
3
|
5
|
7
|
2
|
5
|
3
|
2
|
3
|
3
|
3
|
2
|
Hospital acquired
|
2
|
Parameter | Value for patients infected with: | ||||||
---|---|---|---|---|---|---|---|
CoV-HKU1 | HCoV-NL63 | HCoV-OC43 | HCoV-229E | ||||
Total no. of patients | 13 | 17 | 53 | 13 | |||
Male-to-female ratio | 8:5 | 8:9 | 28:25 | 1:3 | |||
Age | |||||||
Range | 19 mo-87 yr | 6 mo-86 yr | 1 mo-88 yr | 2 yr-75 yr | |||
Median (yr) | 4 | 2 | 9 | 8.5 | |||
Duration of fever (days) | |||||||
Range | 1-4 | 1-7 | 1-8 | 1-4 | |||
Median | 1 | 1 | 1 | 2.5 | |||
Duration of hospitalization (days) | |||||||
Range | 2-7 | 1-9 | 1-20 | 3-14 | |||
Median | 3 | 3 | 3 | 3 | |||
No. (%) of patients with underlying diseases | 8 (62) | 10 (59) | 34 (64) | 2 (50) | |||
No. (%) of patients with diagnosis ofa: | |||||||
URTIc | 11 (85) | 12 (71) | 41 (77) | 2 (50) | |||
Asthma/COPD exacerbationc | 1 (8) | 2 (12) | 4 (8) | 0 (0) | |||
Acute bronchiolitis | 1 (8) | 1 (6) | 3 (6) | 0 (0) | |||
Pneumonia | 1 (8) | 3 (18) | 8 (15) | 2 (50) | |||
Croup | 0 (0) | 2 (12) | 0 (0) | 0 (0) | |||
Febrile convulsion | 5 (38)b | 3 (18) | 3 (6)b | 0 (0) | |||
Breakthrough seizure | 2 (15)b | 1 (6) | 0 (0)b | 0 (0) | |||
Aseptic meningitis | 0 (0) | 0 (0) | 1 (2) | 0 (0) | |||
Kawasaki disease | 0 (0) | 0 (0) | 1 (2) | 0 (0) | |||
No. (%) of patients who died | 0 (0) | 0 (0) | 1 (2) | 0 (0) |
Virus | Total no. of children | Maximum temp (°C)a | Duration of fever (days)a | Duration of hospitalization (days)a | No. (%) of children with febrile convulsion |
---|---|---|---|---|---|
CoV-HKU1 | 10 | 39 ± 0.6 | 1.7 ± 0.5 | 2.3 ± 0.7 | 5 (50) |
HCoV-OC43 | 22 | 38.7 ± 0.6 | 2 ± 1.9 | 3.1 ± 1.8 | 3 (14)b |
HCoV-229E | 2 | 39.4 ± 0.5 | 3.5 ± 0.7b | 3 | 0 (0) |
HCoV-NL63 | 14 | 39.3 ± 0.7 | 3.2 ± 2.3b | 3.4 ± 2.6 | 4 (29) |
Influenza A virus | 142 | 39.6 ± 0.8 | 5 ± 2.9b | 3.1 ± 1.9 | 35 (25) |
Influenza B virus | 28 | 39 ± 0.9 | 5.2 ± 2.6b | 3 ± 1.2 | 6 (21) |
Adenovirus | 103 | 39.5 ± 0.8 | 6.4 ± 2.7b | 3.2 ± 1.5 | 9 (9)b |
Human parainfluenza virus 1 | 12 | 39.1 ± 0.9 | 4.5 ± 2.6b | 2.8 ± 1.3 | 0 (0)b |
Human parainfluenza virus 2 | 3 | 39.7 ± 1.6 | 5.5 ± 0.7b | 3.7 ± 2.9 | 1 (33) |
Human parainfluenza virus 3 | 82 | 39.3 ± 1.1 | 4.7 ± 3.2b | 3.2 ± 2.3 | 23 (28) |
Respiratory syncytial virus | 191 | 39 ± 0.8 | 5.2 ± 2.5b | 3.8 ± 2.5 | 15 (8)b |
Human metapneumovirus | 20 | 38.9 ± 1.1 | 3.7 ± 1.9b | 3.6 ± 1.8 | 5 (25) |
Acknowledgments
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