TABLE 4.
Association of phylogenetic influenza virus gene clades with host species
| Probe name | Determined animal source(s)a |
|---|---|
| PhyloFlu_S1_PB2_C0 | Equine |
| PhyloFlu_S1_PB2_C1 | AVIAN/human, swineb |
| PhyloFlu_S1_PB2_C2 | NAc |
| PhyloFlu_S2_PB1_C0 | HUMAN/swine |
| PhyloFlu_S2_PB1_C1 | EQUINE/canine |
| PhyloFlu_S2_PB1_C2 | Equine |
| PhyloFlu_S2_PB1_C3 | NA |
| PhyloFlu_S3_PA_C0 | Swine |
| PhyloFlu_S3_PA_C1 | Equine |
| PhyloFlu_S3_PA_C2 | EQUINE/canine |
| PhyloFlu_S3_PA_C3 | AVIAN/human |
| PhyloFlu_S3_PA_C4 | Human |
| PhyloFlu_S4_H1_C0 | Human |
| PhyloFlu_S4_H1_C1 | SWINE/human |
| PhyloFlu_S4_H1_C2 | Avian |
| PhyloFlu_S4_H1_C3 | Swine |
| PhyloFlu_S4_H2_C0 | NA |
| PhyloFlu_S4_H2_C1 | Avian |
| PhyloFlu_S4_H3_C0 | HUMAN/swine |
| PhyloFlu_S4_H3_C1 | Equine |
| PhyloFlu_S4_H3_C2 | Avian |
| PhyloFlu_S4_H3_C3 | Avian |
| PhyloFlu_S4_H3_C4 | Avian |
| PhyloFlu_S4_H4_C0 | Avian |
| PhyloFlu_S4_H4_C1 | Avian |
| PhyloFlu_S4_H4_C2 | Avian |
| PhyloFlu_S4_H4_C3 | Avian |
| PhyloFlu_S4_H5_C0 | AVIAN/human |
| PhyloFlu_S4_H5_C1 | Avian |
| PhyloFlu_S4_H6_C0 | Avian |
| PhyloFlu_S4_H6_C1 | Avian |
| PhyloFlu_S4_H6_C2 | Avian |
| PhyloFlu_S4_H7_C0 | Avian |
| PhyloFlu_S4_H7_C1 | Equine |
| PhyloFlu_S4_H7_C2 | Avian |
| PhyloFlu_S4_H7_C3 | Avian |
| PhyloFlu_S4_H8_C0 | Avian |
| PhyloFlu_S4_H9_C0 | Avian |
| PhyloFlu_S4_H9_C1 | Avian |
| PhyloFlu_S4_H9_C2 | Avian |
| PhyloFlu_S4_H10_C0 | Avian |
| PhyloFlu_S4_H10_C1 | Avian |
| PhyloFlu_S4_H11_C0 | Avian |
| PhyloFlu_S4_H11_C1 | Avian |
| PhyloFlu_S4_H12_C0 | Avian |
| PhyloFlu_S4_H12_C1 | Avian |
| PhyloFlu_S4_H13_C0 | Avian |
| PhyloFlu_S4_H13_C1 | AVIAN/otherd |
| PhyloFlu_S4_H14_C0 | Avian |
| PhyloFlu_S4_H15_C0 | Avian |
| PhyloFlu_S4_H16_C0 | Avian |
| PhyloFlu_S4_H16_C1 | Avian |
| PhyloFlu_S4_H16_C2 | Avian |
| PhyloFlu_S4_H16_C3 | Avian |
| PhyloFlu_S5_NP_C0 | Avian |
| PhyloFlu_S5_NP_C1 | NA |
| PhyloFlu_S5_NP_C2 | Equine |
| PhyloFlu_S5_NP_C4 | Human |
| PhyloFlu_S5_NP_C5 | Avian |
| PhyloFlu_S6_N1_C0 | Avian |
| PhyloFlu_S6_N1_C1 | Human |
| PhyloFlu_S6_N1_C2 | Swine |
| PhyloFlu_S6_N1_C3 | NA |
| PhyloFlu_S6_N2_C0 | Human |
| PhyloFlu_S6_N2_C1 | Avian |
| PhyloFlu_S6_N3_C0 | Avian |
| PhyloFlu_S6_N3_C1 | Avian |
| PhyloFlu_S6_N3_C2 | Avian |
| PhyloFlu_S6_N4_C0 | Avian |
| PhyloFlu_S6_N4_C1 | Avian |
| PhyloFlu_S6_N4_C2 | AVIAN/other |
| PhyloFlu_S6_N5_C0 | Avian |
| PhyloFlu_S6_N5_C1 | Avian |
| PhyloFlu_S6_N6_C0 | Avian |
| PhyloFlu_S6_N6_C1 | Avian |
| PhyloFlu_S6_N7_C0 | Avian |
| PhyloFlu_S6_N7_C1 | Avian |
| PhyloFlu_S6_N7_C2 | EQUINE/swine/other |
| PhyloFlu_S6_N8_C0 | NA |
| PhyloFlu_S6_N8_C1 | Avian |
| PhyloFlu_S6_N8_C2 | Avian |
| PhyloFlu_S6_N8_C3 | Avian |
| PhyloFlu_S6_N9_C0 | Avian |
| PhyloFlu_S6_N9_C1 | Avian |
| PhyloFlu_S7_M_C0 | NA |
| PhyloFlu_S7_M_C1 | Equine |
| PhyloFlu_S8_NS_C0 | Avian |
| PhyloFlu_S8_NS_C1 | NA |
a
An animal source was defined when ≥90% of the sequences of the clade were from a single host. Sources written in uppercase letters indicate the host represents at least 75% of all sequences identified; source in lowercase letters beside it represent the other significant host(s).
b
More than one animal source was defined.
c
NA, not assigned.
d
Other is defined as any other mammal from which influenza A virus has been collected; see the full list at http://www.ncbi.nlm.nih.gov/genomes/FLU/Database/nph-select.cgi.