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      A Multiplex RT-PCR Assay for Detection and Differentiation of Avian-Origin Canine H3N2, Equine-Origin H3N8, Human-Origin H3N2, and H1N1/2009 Canine Influenza Viruses

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          Abstract

          Virological and serological surveys have documented that H1N1/2009, avian-origin canine H3N2 (cH3N2), seasonal human-origin H3N2 (hH3N2), and equine-origin H3N8 influenza viruses are consistently circulating in dogs. In the present study, a multiplex reverse-transcriptase polymerase chain reaction (mRT-PCR) assay was developed for simultaneous detection and differentiation of these influenza viruses. Four primer sets were designed to target the hemagglutinin genes of H1N1/2009, cH3N2, hH3N2, and H3N8 canine influenza viruses (CIVs). This mRT-PCR assay demonstrated high specificity and sensitivity for the four CIV subtypes. Additionally, mRT-PCR results obtained from 420 clinical samples were consistent with those obtained by the conventional virus isolation method. Our mRT-PCR assay is reliable for clinical diagnosis and rapid identification of CIVs.

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          Transmission of equine influenza virus to dogs.

          Molecular and antigenic analyses of three influenza viruses isolated from outbreaks of severe respiratory disease in racing greyhounds revealed that they are closely related to H3N8 equine influenza virus. Phylogenetic analysis indicated that the canine influenza virus genomes form a monophyletic group, consistent with a single interspecies virus transfer. Molecular changes in the hemagglutinin suggested adaptive evolution in the new host. The etiologic role of this virus in respiratory disease was supported by the temporal association of rising antibody titers with disease and by experimental inoculation studies. The geographic expansion of the infection and its persistence for several years indicate efficient transmission of canine influenza virus among greyhounds. Evidence of infection in pet dogs suggests that this infection may also become enzootic in this population.
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            Transmission of Avian Influenza Virus (H3N2) to Dogs

            Influenza A virus, a member of the genus Orthomyxovirus, is an economically important virus that causes disease in humans, pigs, horses, and fowl ( 1 ). A crucial feature in the ecology and epidemiology of influenza virus is interspecies transmission ( 2 ). The emergence of new virus subtypes and their interspecies transmission is of great concern; measures to counteract their spread are vital for preventing influenza epidemics and pandemics. One of the basic mechanisms of interspecies transmission of influenza virus is direct transfer of an essentially unaltered virus from 1 species to another ( 3 ); however, some factors restrict this transfer. In particular, the presence or absence of host species–specific influenza virus binding receptors in the upper and lower respiratory tracts serves to prevent such cross-species or zoonotic transmission. Human influenza viruses bind to glycolipids or glycans that contain terminal sialyl-galactosyl residues with α 2,6-gal linkages (SAα 2,6-gal), whereas avian influenza viruses bind to residues with SAα 2,3-gal linkages ( 4 ). Examples of interspecies transmission of influenza viruses include recent human infections with the H5N1 subtype of avian influenza virus, and in canine infections with the H3N8 subtype of equine influenza virus ( 3 , 5 ). In addition, influenza infections were recently reported in species (canine, feline) that historically do not carry influenza virus ( 6 ). However, most directly transmitted infections of entire influenza viruses from a natural host species to a new host species do not result in sustained transmission in the new host species ( 3 ). Therefore, establishing new, long-lived influenza virus lineage is uncommon and difficult ( 7 ). We report interspecies transmission of a complete avian influenza virus (H3N2) to dogs and the emergence of a new canine influenza virus associated with acute respiratory disease in South Korea, where avian influenza viruses (H3N2, H5N1, H6N1, and H9N2) currently circulate or have been previously detected ( 8 ). We investigated pathogenicity of the isolated virus in experimental dogs and evaluated localization of SAα 2,6-gal and SAα 2,3-gal linkages in upper and lower canine respiratory tracts. Materials and Methods Outbreak Histories From May through September 2007, cases of severe respiratory disease occurred in animals at 3 veterinary clinics located 10–30 km apart in Kyunggi Province and 1 kennel located in Jeolla Province (southern part of South Korea). The first case, which occurred in May, was identified in a 5-year-old miniature schnauzer that had nasal discharge for 3 days and sneezing for 2 days, after which the signs subsided and the dog recovered. In August, another case was identified in a 3-year-old cocker spaniel that had fever, cough, nasal discharge, and anorexia and died after the onset of clinical signs. In September, severe respiratory disease was identified in 2 Jindo dogs (a Korean breed of hunting dog that originated on Jindo Island) and a 3-year-old Yorkshire terrier. These animals had severe cough, fever, and nasal discharge and died 2 days after visiting the same animal hospital. Finally, an outbreak of canine influenza occurred in an animal clinic in which all 13 dogs housed in a shelter facility were found to be infected with the same virus; their clinical signs were nasal discharge, cough, and high fever. Of the dogs in the affected kennel in Jeolla Province, paired serum samples showed that 47 (90%) of 52 were seropositive for canine influenza virus (H3N2) at the first sampling and that 100% were seropositive by the second sampling. Nasal swabs from the miniature schnauzer, cocker spaniel, and Yorkshire terrier were submitted to Animal Genetics, Inc. (Suwon, South Korea) for reverse transcription–PCR (RT-PCR) and testing with a commercial rapid influenza virus antigen detection kit (Animal Genetics, Inc.). Hemagglutinin inhibition (HI) tests were performed according to the World Organization for Animal Health recommendations; commercial nucleocapsid protein (NP)–based ELISA (Animal Genetics, Inc.) was used for serologic testing. RT-PCR and Sequencing Nasal swabs from the above-mentioned 3 dogs were also used to isolate the influenza A virus by inoculation into 11-day-old chicken eggs. After 3–4 days of incubation, allantoic fluids were clarified by low speed centrifugation, and these fluids were shown to agglutinate chicken erythrocytes. Virus RNA was extracted from allantoic fluids by using Trizol LS (Molecular Research Center, Inc., Cincinnati, OH, USA) according to the manufacturer’s instructions. RT-PCR was performed under standard conditions with random hexamer primers. Isolated influenza virus was subtyped by RT-PCR analysis by using primers specific for canine, swine, and avian hemagglutinin 3 (H3) genes. Primers for the detection of viral genes H3, neuraminidase 2 (N2), polymerase basic protein (PB) 1, PB2, polymerase acidic protein (PA), NP, matrix protein (M), and nonstructural protein (NS) were designed by using the Primer 3 program with modifications (Whitehead Institute, Massachusetts Institute for Technology Center for Genome Research, Boston, MA, USA). For PCR, pairs of primers were used to detect target genes. cDNA (2 μL) was mixed with a reaction mixture containing 2.5 μL of 10× Taq DNA polymerase buffer, 1.5 mmol/L MgCl2, 2.0 μL of dNTPs (2.5 mmol/L/μL), 1 μL of each specific primer (10 pmol/L each), and 1 μL of Taq DNA polymerase (Promega, Madison, WI, USA). Distilled water was added to make a final volume of 25 μL. PCR was performed by reaction initiation at 94°C for 10 min, amplification for 32 cycles at 94°C for 30 s, 55°C for 30 s, and 72°C for 30 s, and by final extension at 72°C for 10 min. The reaction was held at 4°C until further use. PCR products were analyzed by electrophoresis in 1.5% agarose gel containing ethidium bromide. Sequences of the isolated virus genes were edited and analyzed by using Bioedit software (www.mbio.ncsu.edu/BioEdit/bioedit.html). Phylogenetic trees were generated by using the MEGALIGN program (DNASTAR, Madison, WI, USA) with the ClustalX alignment algorithm (www.megasoftware.net). Experimental Infection with Isolated Virus We experimentally reproduced viral infection in 10-week-old conventional beagle puppies that had been divided into inoculated (I) and noninoculated (NI) groups. Group I puppies (n = 9) were inoculated intranasally with 2 mL of virus isolate with a titer of 106.9 50% egg infectious dose (EID50)/0.1 mL; group NI puppies (n = 6) were inoculated intranasally with 2 mL of sterile phosphate buffered saline. Before they were inoculated, the animals were sedated by intramuscular injection of 0.1 mg/kg acepromazine malate (Bayer, Seoul, South Korea). Clinical signs of infection were monitored for 7 days after inoculation, and feces and nasal discharge were examined for virus shedding by RT-PCR for 10 days after inoculation. To detect antibodies against nucleoprotein and HI for hemagglutinin, we analyzed convalescent-phase serum samples from 3 puppies in each group for virus-specific antibodies by ELISA (Animal Genetics, Inc.). HI tests were performed according to World Organization for Animal Health–recommended procedures ( 9 ). At 3, 6, and 9 days postinoculation (dpi), 3 group I puppies and 2 group NI puppies were humanely euthanized for gross and histopathologic examination. All necropsy procedures were performed by veterinary pathologists. All organs from dogs and pigs (positive control) were rapidly immersed in 10% neutral formalin buffer to prevent autolysis and stored overnight. To detect influenza A virus antigens in group I or group NI tissues, we performed immunohistochemical examination by using goat anti–influenza A virus antibody (1:100; Chemicon, Temecula, CA, USA). To determine the presence or absence of SA α2,3-gal linkages comprising avian influenza virus receptors and SA α2,6-gal linkages comprising human influenza receptors in the respiratory tracts of noninfected puppies, lectin-based staining was performed as previously reported ( 10 ). Porcine tissue served as a positive control. All experimental procedures were approved by an independent animal care and use committee, and the guidelines of National Veterinary Research and Quarantine Service for the reproduction of pathogenesis in dogs were respected. Results Isolation of Virus Nasal swabs from the miniature schnauzer, cocker spaniel, and Yorkshire terrier were positive for influenza virus and negative for other pathogens, including canine distemper virus, canine parainfluenza-2 virus, and Bordetella bronchiseptica. The isolated viruses were designated A/canine/Korea/01/2007 (H3N2), A/canine/Korea/02/2007 (H3N2), and A/canine/Korea/03/2007 (H3N2). Nucleotide Sequences Eight gene segments (H3, N2, PB1, PB2, PA, NP, M and NS) of each isolated canine influenza virus were sequenced (EU127500, H gene; EU127501, N gene), and homologous sequences were sought in GenBank (Table). Sequences from avian influenza viruses that displayed homologies from 95.5% to 98.9% were identified for all 8 gene segments from 1 of the 3 subtype H3N2 canine isolates (A/canine/Korea/01/2007). The HA and NA genes of this isolate showed greatest identity with those of Korean avian influenza virus isolate S11, and the NS gene showed greatest identity to that of avian influenza virus (A/chicken/Nanchang/7-010/2000 [H3N6]) isolated from Chinese chickens. All the other genes, including PB1, PB2, PA, NP and M, were closely related to those of avian influenza virus isolated from ducks in Hong Kong, Japan, and China. Table Homology of the genes of A/canine/Korea/01/2007 influenza virus (H3N2) isolated in South Korea with related sequences in GenBank* Gene† Virus with the highest identity Source Identity, % Accession no. HA A/chicken/Korea/S6/2003 (H3N2) Avian 96.6 AY862607 NA A/dove/Korea/S11/2003 (H3N2) Avian 97.4 AY862644 PB1 A/duck/Yangzhou/02/2005 (H8N4) Avian 98.9 EF061124 PB2 A/duck/Zhejiang/11/2000 (H5N1) Avian 97.6 AY585523 PA A/duck/Hokkaido/120/2001 (H6N2) Avian 95.9 AB286878 NP A/duck/Hong Kong/Y439/97 (H9N2) Avian 95.5 AF156406 M A/duck/Jiang Xi/1850/2005 (H5N2) Avian 97.5 EF597295 NS A/chicken/Nanchang/7-010/2000 (H3N6) Avian 97.5 AY180648 *Influenza virus lineage of all RNA segments is avian.
†HA, hemagglutinin, NA, neuraminidase; PB, polymerase basic protein; PA, polymerase acidic protein; NP, nucleocapsid protein; M, matrix protein, NS, nonstructural protein. Phylogenetic Relationships Phylogenetic analysis indicated that the canine influenza virus isolates from South Korea belonged to a different cluster than those of equine and canine influenza subtype H3N8 viruses. The HA and NA genes of the canine isolate (A/canine/Korea/01/2007 [H3N2]) were closely related to those of avian influenza virus (H3N2) from South Korea (Figure 1). Figure 1 Phylogenetic relationship among hemagglutinin genes of canine influenza virus isolates. Tree of hemagglutinin genes from representative isolates from dog, human, bird, pig, and horse. Scale bar represents a difference of 5%. Red boxes indicate strains isolated in this study. Serologic Responses to Inoculation All group I puppies had negative serologic assay results before inoculation. Group NI control puppies remained negative throughout the experiment. In nucleoprotein-specific ELISA, the percent inhibition values for group I at 6 dpi were substantially higher than those for group NI (Figure 2); and the HI antibody titers of group I (HI titer 80) were induced at 8 dpi. Figure 2 Body temperature, virus shedding, and antibody seroconversion after challenge with canine influenza virus. Body temperature was increased from 1 day postinoculation (dpi) and slowly decreased to normal temperature by 7 dpi. Virus shedding was detected from 1 dpi to 6 dpi by reverse transcription–PCR. However, the ELISA antibody titers increased after 6 dpi. Antibody titers were regarded as positive if percent inhibition (PI) was >50. Clinical Responses to Challenge Clinical signs, including sneezing and nasal discharge in group I, were observed at 2–7 dpi. The rectal temperatures of group NI animals remained below 39°C throughout the experiment. At 24 h after inoculation, fever developed in group I puppies (mean rectal temperature 40.14°C) (Figure 2) and lasted through 6 dpi. Virus Shedding Influenza virus was not detected in feces. However, for group I puppies, virus shedding in nasal discharge began at 1 dpi and continued to 6 dpi; the highest titers, 106.1(EID50/0.1 mL), were reached by 4 dpi. RT-PCR products generated from shed viruses were sequenced and identified as identical to the inoculated virus. Histopathologic Findings Gross lesions were limited to the lungs and were characterized by multifocal to coalescing reddish consolidation. In tissues collected on 3, 6 and 9 dpi, histopathologic lesions were observed in the trachea and lungs, and extrapulmonary lesions were absent in puppies infected with the isolate (A/canine/Korea/01/2007 [H3N2]). Severe virus-induced necrosis and inflammation of the upper (trachea and bronchi) and lower (bronchiole and alveoli) respiratory tracts were noted on histologic examination. Although minor differences in the severity of the histologic findings were observed among the 9 infected dogs, all infected dogs shared the following histopathologic features regardless how long after inoculation tissues were collected: 1) moderate to severe multilobular or diffuse necrotizing tracheobronchitis with suppurative inflammation in the lumina and squamous metaplasia of the tracheobronchial epithelium (Figure 3, panel B); 2) moderate to severe multilobular or diffuse necrotizing bronchiolitis and alveolitis (i.e., bronchioalveolitis, occasionally accompanied by chronic peribronchiolar and perivascular inflammation) (Figure 3, panels D and E); and 3) mild to moderate multilobular or diffuse thickening of alveolar septa by infiltrates of inflammatory cells, such as interstitial pulmonary macrophages. At 3, 6, and 9 dpi, large amounts of influenza A virus antigen were found in bronchial and bronchiolar epithelium and lumens (Figure 3, panel F). Figure 3 Histopathologic lesions in the trachea and lungs of control (A and C) or experimentally infected (B, D–F) dogs (A/canine/Korea/01/2007 [H3N2]) at different days postinoculation (dpi). A) Control dog at 9 dpi, showing normal pseudostratified columnar epithelium lining of the trachea; original magnification ×400. Hematoxylin and eosin (HE) stain. B) Influenza-infected dog at 9 dpi, showing necrotizing tracheitis characterized by necrosis (n), squamous metaplasia (s), and hyperplasia of the epithelium and nonsuppurative inflammation (c) in the connective tissue; original magnification ×400. HE stain. C) Control dog at 3 dpi, showing normal alveoli; original magnification ×200. HE stain. D) Influenza-infected dog at 3 dpi, showing severe diffuse necrotizing bronchitis and bronchiolitis with suppurative inflammation in the lumina; original magnification ×100. HE stain. E) Influenza-infected dog at 6 dpi, showing severe necrotizing bronchiolitis; original magnification ×200. HE stain. F) Influenza-infected dog at 6 dpi (serial section of E), showing large amounts of influenza A virus antigens (red stain; arrows) in the bronchiolar epithelium and lumen. Immunohistochemistry; Red Substrate (Dako, Carpinteria, CA, USA); Mayer’s hematoxylin counterstain. G) Influenza-infected dog at 9 dpi, showing severe necrotizing alveolitis with accumulation of necrotic cells in terminal bronchioles (tb) and alveoli (a); original magnification ×200. HE stain. Receptor Binding Assay Consistent with the histologic lung lesions, large amounts of SAα 2,3-gal were found on the surface of bronchial and bronchiolar epithelial cells of group NI puppies and were rarely found on tracheal epithelial cells (Figure 4). In contrast, SAα 2,6-gal was not detected in tracheal, bronchial, or bronchiolar epithelial cells, which suggests that canine species may have a lesser role as intermediate hosts for transmission of human influenza viruses to dogs than for avian influenza viruses. Figure 4 Lectin staining (red stain) for SAα 2,3-gal (avian influenza virus receptors) and SAα 2,6-gal (human influenza virus receptors) in canine trachea, bronchus, and bronchioles, together with porcine tissues as a positive control. Original magnification all x300. −, no staining; ±, rare or few positive cells; +, moderate numbers of positive cells; and ++, many positive cells. Discussion Because all genes of the canine isolates were of avian influenza virus origin, we concluded that the entire genome of the avian influenza virus had been transmitted to the dogs. Transmission of avian influenza A virus to a new mammalian species is of great concern, because it potentially allows the virus to adapt to a new mammalian host, cross new species barriers, and acquire pandemic potential. Transmission of an entire avian influenza virus to an unrelated mammalian species is a rare event. Several outbreaks of avian influenza infection have occurred in mammals. Influenza virus (H7N7) of avian origin was isolated from the lungs and brains of dead seals. In addition, it was replicated to high titers in ferrets, cats, and pigs and caused conjunctivitis in humans ( 11 , 12 ). Avian origin influenza virus (H4N5) was reported as the cause of infection and death in harbor seals along the New England coastline ( 13 ), and avian origin influenza (H5N1) infection was identified in a dog after ingestion of a duck infected with subtype H5N1 during an outbreak in Thailand in 2004 ( 14 ). Previously, outbreaks of hemorrhagic pneumonia caused by equine influenza virus (H3N8) were noted in racing dogs, and a human influenza virus (H3N2) was isolated from dogs ( 15 , 16 ). However, these reports provide limited serologic and virologic evidence for influenza virus infection in dogs. We report the emergence of a new canine influenza virus strain that causes acute respiratory disease in dogs and that differs from previous outbreaks of equine influenza virus (H3N8) infections. Concerning the possible mechanism of avian influenza virus transmission to dogs, we posit that this transmission results from feeding dogs untreated minced meats of ducks or chickens. In South Korea, untreated duck and chicken meats, including internal organs and heads, have been widely used to feed dogs for fattening in local canine farms or kennels. In a previous study, avian influenza virus (H3N2) was isolated from ducks and chickens sold at live-bird markets in South Korea. Live-bird markets are thought to constitute “a missing link in the epidemiology of avian influenza viruses” because they bring together numerous hosts, such as chickens, ducks, turkeys, geese, and doves, in a high-density setting, which represents an ideal environment for virus interspecies transmission ( 17 , 18 ). The S11 strain, whose HA and NA genes showed the greatest identity to those of the A/canine/Korea/01/2007 (H3N2) isolates from dogs, was isolated from a tracheal swab of a healthy chicken and is nonpathogenic in poultry ( 8 ). These observations support the hypothesis that avian influenza virus (H3N2) strains could be transmitted by feeding infected poultry by-products to dogs ( 2 ). It is also possible that cross-species transmission of influenza virus occurs directly by aerosol transmission from infected birds to susceptible dogs as a consequence of close contact between the 2 species. Lectin-staining results showed that canine upper (trachea and bronchi) and lower (bronchiole) respiratory tract epithelium cells display SAα 2,3-gal, to which avian influenza viruses bind, making possible a direct transmission of avian influenza viruses from poultry to dogs. Additionally, according to the animal hospital veterinarian, this outbreak was traced to a Jindo dog purchased at a live-animal market in Kyunggi Province that sold chicken, duck, pheasant, rabbit, cats, pet dogs, and other dogs. The Jindo dog was hospitalized at the local animal hospital and may have infected the other pet dogs at the hospital. This epidemiologic result also suggests that the novel canine influenza virus of avian origin was transmitted within canine species. Antigenic and phylogenetic analyses showed that the HA and NA genes of the A/canine/Korea/01/2007 (H3N2) isolate are closely related to isolates identified in 2003 from chickens and doves in South Korea. Furthermore, HA genes of canine influenza isolates were different from recent isolates from swine in South Korea ( 19 ). The other genes of the canine influenza isolate are more closely related to those of the subtype H9N2 isolate found in ducks from Hong Kong, the subtype H6N2 isolate from ducks in Japan, and several other avian influenza strains from southeastern China in 2000 through 2005. This finding suggests that multiple variants of subtype H3 influenza viruses may be circulating in these regions and causing disease in pet dogs. Our experimental reproduction of the disease caused by this isolate induced severe pathologic changes and showed that infected dogs excreted influenza virus (H3N2) in nasal discharge but not in feces. This finding suggests that dog-to-dog transmission of subtype H3N2 could occur through the nasal route and that dog-to-dog transmission of the virus could play an important role in the epizootiology of the disease. In our study, virologic, serologic, pathologic, and phylogenetic analyses showed cross-species infection of an entire avian influenza A virus (H3N2) to another mammalian species, dogs. Evidence of avian influenza virus infection in pet dogs raises the concern that dogs may be become a new source of transmission of novel influenza viruses, especially where avian influenza viruses are circulating or have been detected.
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              Fatal Avian Influenza A H5N1 in a Dog

              Avian influenza H5N1 virus is known to cross the species barrier and infect humans and felines. We report a fatal H5N1 infection in a dog following ingestion of an H5N1-infected duck during an outbreak in Thailand in 2004. With new reports of H5N1 virus continuing across Asia, Europe, and Africa, this finding highlights the need for monitoring of domestic animals during outbreaks.
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                Author and article information

                Contributors
                Role: Editor
                Journal
                PLoS One
                PLoS ONE
                plos
                plosone
                PLoS ONE
                Public Library of Science (San Francisco, CA USA )
                1932-6203
                20 January 2017
                2017
                : 12
                : 1
                : e0170374
                Affiliations
                [001]Key Laboratory of Animal Epidemiology and Zoonosis, Ministry of Agriculture, College of Veterinary Medicine, China Agricultural University, Beijing, China
                National Institute for Viral Disease Control and Prevention, CHINA
                Author notes

                Competing Interests: The authors have declared that no competing interests exist.

                • Conceptualization: YS.

                • Formal analysis: CW QW JH.

                • Funding acquisition: YS JP JL.

                • Investigation: CW QW JH.

                • Methodology: CW QW JH.

                • Project administration: YS.

                • Resources: HS JP JL.

                • Supervision: YS.

                • Validation: CW QW JH.

                • Visualization: CW QW.

                • Writing – original draft: YS CW QW.

                • Writing – review & editing: YS JL.

                Author information
                http://orcid.org/0000-0002-1813-4299
                Article
                PONE-D-16-32242
                10.1371/journal.pone.0170374
                5249048
                28107507
                8352380c-061d-4d83-a09f-cba41ec5e3ef
                © 2017 Wang et al

                This is an open access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited.

                History
                : 20 August 2016
                : 4 January 2017
                Page count
                Figures: 3, Tables: 3, Pages: 12
                Funding
                Funded by: funder-id http://dx.doi.org/10.13039/501100001809, National Natural Science Foundation of China;
                Award ID: 31522058
                Award Recipient :
                Funded by: Specialized Research Fund for the Doctoral Program of Higher Education (SRFDP)
                Award ID: 20130008120011
                Award Recipient :
                Funded by: Beijing New-star Plan of Science and Technology
                Award ID: xx2016073
                Award Recipient :
                Funded by: Key Technologies Research and Development Program of China
                Award ID: 2013BAD12B01
                Award Recipient :
                Funded by: Chang Jiang Scholars Program
                Award Recipient :
                This work was supported by the National Natural Science Foundation of China (31672573), National Key Technology Research and Development Program (2013BAD12B01), Specialized Research Fund for the Doctoral Program of Higher Education (SRFDP) (20130008120011), Beijing New-star Plan of Science and Technology (xx2016073), and grants from the Chang Jiang Scholars Program. The funders had no role in study design, data collection and analysis, decision to publish, or preparation of the manuscript.
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