Genetic Characterization of Novel H7Nx Low Pathogenic Avian Influenza Viruses from Wild Birds in South Korea during the Winter of 2020–2021
Abstract
:1. Introduction
2. Materials and Methods
3. Results and Discussion
Supplementary Materials
Author Contributions
Funding
Data Availability Statement
Acknowledgments
Conflicts of Interest
References
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Virus Name | Subtype | Samples | Collection Date | Region | Latitude/Longitude | GISAID Isolate ID |
---|---|---|---|---|---|---|
A/wDK/Kr/H296/2020 | H7N9 | Feces | 2020-11-03 | JB | 35°46′4.9692″ N/126°38′22.6278″ E | EPI_ISL_3663323 |
A/wDK/Kr/H333/2020 | H7N8 | Feces | 2020-11-17 | JB | 35°47′56″ N/126°46′16″ E | EPI_ISL_3663324 |
A/wDK/Kr/H42/2021 | H7N3 | Feces | 2021-01-11 | JJ | 33°30′19.22″ N/126°53′31.18″ E | EPI_ISL_3663325 |
A/mallard/Kr/H118/2021 | H7N9 | Feces | 2021-02-01 | CB | 36°39′9.5004″ N/127°22′40.2096″ E | EPI_ISL_3663326 |
A/wDK/Kr/H214/2021 | H7N3 | Feces | 2021-03-02 | JJ | 33°30′22.27″ N/126°53′33.53″ E | EPI_ISL_3663327 |
Gene | Virus with the Highest Nucleotide Sequence Identity [% Nucleotide Sequence Identity] | ||||
---|---|---|---|---|---|
H296/20 (H7N9) | H333/20 (H7N8) | H42/21 (H7N3) | H118/21 (H7N9) | H214/21 (H7N3) | |
PB2 | A/Anas platyrhynchos/South Korea/JB29-91-95/2019 (H11N2) [99.61%] | A/barnacle goose/Netherlands/2/ 2014 (H3N6) [98.07%] | A/duck/Bangladesh/ 41797/2019 (H3N8) [98.90%] | A/duck/Kumamoto/ 431107/2014 (H1N4) [99.04%] | A/duck/Bangladesh/ 41797/2019 (H3N8) [98.90%] |
PB1 | A/mallard/Anhui/3-683/ 2019 (H6N2) [99.47%] | A/Anas platyrhynchos/South Korea/JB31-96/2019 (H11N9) [98.94%] | A/mallard/Anhui/3-617/ 2019 (H6N1) [98.72%] | A/mallard/Anhui/3-683/ 2019 (H6N2) [98.94%] | A/mallard/Anhui/3-617/2019 (H6N1) [98.72%] |
PA | A/mallard/South Korea/KNU2019-54/2019 (H5N3) [99.49%] | A/duck/Mongolia/543/ 2015 (H4N6) [99.63%] | A/duck/Guangdong/ H31/2020 (H3N8) [99.07%] | A/duck/Mongolia/398/ 2018 (H3N8) [98.79%] | A/duck/Guangdong/ H31/2020 (H3N8) [99.11%] |
HA | A/Jiangsu/1/2018(H7N4) [97.74%] | A/Jiangsu/1/2018 (H7N4) [97.68%] | A/Jiangsu/1/2018(H7N4) [97.62%] | A/Jiangsu/1/2018(H7N4) [97.03%] | A/Jiangsu/1/2018 (H7N4) [97.50%] |
NP | A/mallard/Anhui/2-549/ 2019 (H6N1) [99.33%] | A/mallard/South Korea/KNU2019-51/2019 (H5N3) [99.60%] | A/teal/Egypt/ MB-D-487OP/2016 (H7N3) [99.06%] | A/teal/Egypt/ MB-D-487OP/2016 (H7N3) [99.0%] | A/teal/Egypt/ MB-D-487OP/2016 (H7N3) [99.13%] |
NA | A/mallard/Kagoshima/ KU-KGS6/2018 (H11N9) [98.73%] | A/mallard/China/T222(3)/2018 (H3N8) [98.73%] | A/mallard/South Korea/JB21-58/2019 (H5N3) [99.29%] | A/mallard/Kagoshima/ KU-KGS6/2018 (H11N9) [98.58%] | A/mallard/South Korea/JB21-58/2019 (H5N3) [99.36%] |
M | A/duck/Mongolia/ MN18-1/2018 (H3N6) [100%] | A/duck/Mongolia/ MN18-1/2018 (H3N6) [99.59%] | A/duck/Mongolia/ MN18-1/2018 (H3N6) [99.69%] | A/duck/Mongolia/ MN18-1/2018 (H3N6) [99.69%] | A/duck/Mongolia/ MN18-1/2018 (H3N6) [99.39%] |
NS | A/green-winged teal/South Korea/KNU2019-72/2019 (H3N8) [99.40%] | A/green-winged teal/South Korea/KNU2019-72/2019 (H3N8) [99.40%] | A/green-winged teal/South Korea/KNU2019-72/2019 (H3N8) [99. 28%] | A/green-winged teal/South Korea/KNU2019-72/2019 (H3N8) [98. 80%] | A/Environment/Jiangxi/12590/2019 (H10N3) [99.40%] |
Virus † | Subtype | HA ‡ | PB2 | PB1 | PA | NA | M2 | |||||
---|---|---|---|---|---|---|---|---|---|---|---|---|
Cleavage Site | 226 | 228 | 627 | 701 | 368 | 409 | Stalk del. | 274 | 292 | 31 | ||
A/wDK/Kr/H296/2020 | H7N9 | PELPKGR/GLF | Q | G | E | D | I | S | No | H | R | S |
A/wDK/Kr/H333/2020 | H7N8 | PELPKGR/GLF | Q | G | E | D | I | S | No | H | R | S |
A/wDK/Kr/H42/2021 | H7N3 | PELPKGR/GLF | Q | G | E | D | I | S | No | H | R | S |
A/mallard/Kr/H118/2021 | H7N9 | PELPKGR/GLF | Q | G | E | D | I | S | No | H | R | S |
A/wDK/Kr/H214/2021 | H7N3 | PELPKRR/GLF | Q | G | E | D | I | S | No | H | R | S |
A/DK/Cambodia/CAM08a/2019 | H7N6 | PELPKGR/GLF | Q | G | E | D | I | S | No | H | R | S |
A/DK/Cambodia/CAM09a/2019 | H7N6 | PELPKGR/GLF | Q | G | E | D | I | S | No | H | R | S |
A/Jiangsu/1/2018 | H7N4 | PELPKGR/GLF | Q | G | K | D | I | S | No | H | R | S |
A/CK/Jiangsu/1/2018 | H7N4 | PELPKGR/GLF | Q | G | E | D | I | S | No | H | R | S |
A/DK/Jiangsu/4/2018 | H7N4 | PELPKGR/GLF | Q | G | E | D | I | S | No | H | R | S |
A/DK/Cambodia/12T-24-1-D3/2018 | H7N4 | PELPKGR/GLF | Q | G | E | D | I | S | No | H | R | S |
A/DK/Cambodia/C50W8M1/2018 | H7N4 | PELPKGR/GLF | Q | G | E | D | I | S | No | H | R | S |
A/Anhui/1/2013 | H7N9 | PEIPKGR/GLF | L | G | E | D | V | N | Yes | H | R | N |
A/Shanghai/1/2013 | H7N9 | PEIPKGR/GLF | Q | G | E | D | I | N | Yes | H | R/K | N |
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Lee, Y.-N.; Lee, D.-H.; Kwon, J.-H.; Shin, J.-I.; Hong, S.Y.; Cha, R.M.; Baek, Y.-G.; Lee, E.-K.; Sagong, M.; Heo, G.-B.; et al. Genetic Characterization of Novel H7Nx Low Pathogenic Avian Influenza Viruses from Wild Birds in South Korea during the Winter of 2020–2021. Viruses 2021, 13, 2274. https://doi.org/10.3390/v13112274
Lee Y-N, Lee D-H, Kwon J-H, Shin J-I, Hong SY, Cha RM, Baek Y-G, Lee E-K, Sagong M, Heo G-B, et al. Genetic Characterization of Novel H7Nx Low Pathogenic Avian Influenza Viruses from Wild Birds in South Korea during the Winter of 2020–2021. Viruses. 2021; 13(11):2274. https://doi.org/10.3390/v13112274
Chicago/Turabian StyleLee, Yu-Na, Dong-Hun Lee, Jung-Hoon Kwon, Jae-In Shin, Seo Yun Hong, Ra Mi Cha, Yoon-Gi Baek, Eun-Kyoung Lee, Mingeun Sagong, Gyeong-Beum Heo, and et al. 2021. "Genetic Characterization of Novel H7Nx Low Pathogenic Avian Influenza Viruses from Wild Birds in South Korea during the Winter of 2020–2021" Viruses 13, no. 11: 2274. https://doi.org/10.3390/v13112274
APA StyleLee, Y.-N., Lee, D.-H., Kwon, J.-H., Shin, J.-I., Hong, S. Y., Cha, R. M., Baek, Y.-G., Lee, E.-K., Sagong, M., Heo, G.-B., Lee, K.-N., & Lee, Y.-J. (2021). Genetic Characterization of Novel H7Nx Low Pathogenic Avian Influenza Viruses from Wild Birds in South Korea during the Winter of 2020–2021. Viruses, 13(11), 2274. https://doi.org/10.3390/v13112274