Cross-species and mammal-to-mammal transmission of clade 2.3.4.4b highly pathogenic avian influenza A/H5N1 viruses with PB2 mammalian adaptations

Raw data from surveillance activities during the 2023 Highly Pathogenic Avian Influenza H5N1 outbreak in Chile.

Supplementary Table 1. Summary of HPAIV animal cases and samples according to host orders from December 05, 2022, to April 19, 2023, in Chile.

Supplementary Table 2. Summary of positive cases during the Chilean HPAIV H5N1 outbreak from December 05, 2022, to April 19, 2023.

Supplementary Table 3. Summary of sequencing results of the surveillance of H5N1 high pathogenicity avian influenza virus in Chile, December 05, 2022, to April 19, 2023.

Supplementary Table 4. Complete list of minor variant analysis of the Chilean HPAIV genomes according to allele frequency across all genome segments.

Supplementary Table 5. Summary of minor variant mutations analysis of the D701 Cluster sequences.

Supplementary Figure 1. Distribution of positive samples collected between December 1, 2022, and April 19st, 2023.

Supplementary Figure 2. Single introduction of HPAIV H5N1 clade 2.3.4.4b from North America into Peru and Chile.
Supplementary Figure 3. H5N1 Chile/Peru marine PB2 mammal clade.

Supplementary Figure 4. Phylogenetic clustering of H5N1 viruses with D701N PB2 mutation.

Supplementary Figure 5. Hypothetical tree topologies under three transmission scenarios.

本数据集为2023年智利高致病性禽流感H5N1（Highly Pathogenic Avian Influenza H5N1）疫情监测活动所产生的原始数据。

补充表1 2022年12月5日至2023年4月19日智利按宿主类群划分的高致病性禽流感病毒（Highly Pathogenic Avian Influenza Virus, HPAIV）动物病例及样本汇总。

补充表2 2022年12月5日至2023年4月19日智利高致病性禽流感病毒H5N1疫情阳性病例汇总。

补充表3 2022年12月5日至2023年4月19日智利H5N1高致病性禽流感病毒监测测序结果汇总。

补充表4 智利高致病性禽流感病毒全基因组片段按等位基因频率划分的次要变异体分析完整列表。

补充表5 D701簇序列的次要变异体突变分析汇总。

补充图1 2022年12月1日至2023年4月19日采集的阳性样本分布情况。

补充图2 高致病性禽流感病毒H5N1分支2.3.4.4b从北美单次传入秘鲁与智利的过程。

补充图3 H5N1智利/秘鲁海洋来源PB2哺乳动物进化分支。

补充图4 携带D701N PB2突变的H5N1病毒系统发育聚类分析。

补充图5 三种传播情景下的假想树拓扑结构。