Prediction of H5Nx Avian Influenza Virus Cross-reactivity CD4+ T-cell Epitopes

doi:10.13560/j.cnki.biotech.bull.1985.2023-1006

Abstract

Abstract:

【Objective】To evaluate preexisting H5Nx cross-reactivity immune memory and to provide theoretical data for the prevention and treatment of human H5 avian influenza viruses and the development of broad-spectrum vaccines.【Method】Bioinformatics methods were used to screen the common conserved cross-reactivity CD4⁺ T cell epitopes of human H5Nx avian influenza viruses and seasonal influenza viruses, and further analysis of the nested CD8⁺ T cell epitopes and B cell epitopes of conserved epitopes and their coverage among the Chinese population.【Result】92.3%（513/555）of H5Nx CD4⁺ T cell epitopes were cross-reactivity in seasonal influenza A viruses, of which 172 epitopes nested CD8⁺ T cell epitopes and 5 epitopes nested B cell epitopes. These epitopes and the corresponding HLA-DRB1 alleles have a strong coverage rate of 88.65% in the world population.【Conclusion】Due to repeated exposure to seasonal influenza A viruses, there is a certain level of H5Nx cross-reactivity immune memory in the population that may provide partial protection from H5Nx infection.

Key words: H5Nx influenza virus, co-conserved, cross-reactivity, CD4⁺ T-cell epitopes, nested epitopes

XIE Shuang, CHEN Yao, HUANG Jun-qiong. Prediction of H5Nx Avian Influenza Virus Cross-reactivity CD4⁺ T-cell Epitopes[J]. Biotechnology Bulletin, 2024, 40(5): 300-309.

Figures/Tables 8

References 51

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蛋白片段Protein segment	蛋白序列数 Protein sequence number
蛋白片段Protein segment	sH1N1	pH1N1	H3N2	H5N1	H5N6	H5N8	Total
HA	1994	43360	62270	517	37	1	108179
NA	2803	39867	56908	477	37	1	100093
M1	1645	28497	44559	394	37	1	75133
M2	1645	28496	44569	404	37	1	75152
NS1	872	22279	33622	391	37	1	57202
NEP	872	22279	33624	389	37	1	57202
NP	881	22047	35759	384	37	1	59109
PA	877	22522	35229	386	37	1	59052
PB1	871	20601	34524	371	37	1	56405
PB2	900	21837	34855	371	37	1	58001

蛋白片段Protein segment	蛋白序列数 Protein sequence number
蛋白片段Protein segment	sH1N1	pH1N1	H3N2	H5N1	H5N6	H5N8	Total
HA	1994	43360	62270	517	37	1	108179
NA	2803	39867	56908	477	37	1	100093
M1	1645	28497	44559	394	37	1	75133
M2	1645	28496	44569	404	37	1	75152
NS1	872	22279	33622	391	37	1	57202
NEP	872	22279	33624	389	37	1	57202
NP	881	22047	35759	384	37	1	59109
PA	877	22522	35229	386	37	1	59052
PB1	871	20601	34524	371	37	1	56405
PB2	900	21837	34855	371	37	1	58001

蛋白片段 Protein segment	氨基酸序列同源性 Amino acid sequence identity/%
蛋白片段 Protein segment	sH1N1	pH1N1	H3N2	H5N1	H5N6
HA	50.5-56.2	47.1-55.4	32.8-55.6	88.4-94.2	92.5-99.3
NA	16.7-39.4	32.6-39.7	19.1-37.0	38.2-43.1	18.7-22.6
M1	92.2-96.8	91.3-95.5	90.0-96.8	92.5-97.1	93.4-100.0
M2	73.7-91.4	80.7-91.4	72.4-93.6	79.1-92.2	80.7-100.0
NS1	76.2-86.2	72.3-80.7	72.6-86.7	80.6-89.8	58.5-93.2
NEP	85.8-93.2	79.9-89.6	82.9-91.4	82.5-92.3	76.9-96.6
NP	90.5-96.3	90.3-94.5	88.5-95.7	96.4-98.4	93.4-97.6
PA	91.6-96.7	93.5-97.0	92.2-97.0	94.5-98.3	95.1-98.0
PB1	93.9-97.3	93.9-96.4	93.7-98.0	96.0-98.3	96.0-98.5
PB2	93.5-96.1	92.9-96.9	87.7-97.2	95.0-97.9	95.7-98.4

蛋白片段 Protein segment	氨基酸序列同源性 Amino acid sequence identity/%
蛋白片段 Protein segment	sH1N1	pH1N1	H3N2	H5N1	H5N6
HA	50.5-56.2	47.1-55.4	32.8-55.6	88.4-94.2	92.5-99.3
NA	16.7-39.4	32.6-39.7	19.1-37.0	38.2-43.1	18.7-22.6
M1	92.2-96.8	91.3-95.5	90.0-96.8	92.5-97.1	93.4-100.0
M2	73.7-91.4	80.7-91.4	72.4-93.6	79.1-92.2	80.7-100.0
NS1	76.2-86.2	72.3-80.7	72.6-86.7	80.6-89.8	58.5-93.2
NEP	85.8-93.2	79.9-89.6	82.9-91.4	82.5-92.3	76.9-96.6
NP	90.5-96.3	90.3-94.5	88.5-95.7	96.4-98.4	93.4-97.6
PA	91.6-96.7	93.5-97.0	92.2-97.0	94.5-98.3	95.1-98.0
PB1	93.9-97.3	93.9-96.4	93.7-98.0	96.0-98.3	96.0-98.5
PB2	93.5-96.1	92.9-96.9	87.7-97.2	95.0-97.9	95.7-98.4