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Outline
Getah virus （GETV） is an arbovirus that can cause reproductive failure in pregnant sows， neurological symptoms in piglets， and even death in severe cases， posing a threat to the pig industry. This study aimed to analyze the whole genome sequence and evolutionary characteristics of a GETV strain isolated from dead piglets from an infected pig farm. Metatranscriptomic sequencing was conducted to analyze pathogens in brain and lung tissues from dead piglets. Vero CCL81 cells were used to isolate GETV， and the isolated virus was identified through observation of cytopathic effect （CPE）， plaque purification， RT-PCR， indirect immunofluorescence assay （IFA）， and transmission electron microscopy. The full-length genome sequence of the isolate was determined using Sanger sequencing. The results showed that the major pathogen in the tissue samples was characterized as GETV， and the isolated strain was designated as NM2022. Its genome， excluding a poly（A） tail， has a total length of 11 689 nt. Phylogenetic analysis indicated that NM2022 belongs to the evolutionary Group III of GETV， with nucleotide homology ranging from 93.98% to 99.86%， compared to 135 of GETV strains in the GenBank database. The amino acid sequence of the E2 protein of NM2022 is highly conserved with 21 of the GETV strains， including Chinese strains HNzmd-XP2 and JS201809-2 of porcine origin， as well as the strain NMDK1813-1 of mosquito origin， except for a serine-to-alanine mutation at position 380. These findings provide a foundation for further research on the evolutionary patterns and pathogenesis mechanisms of GETV.
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| 科 Family | 属数 Number of genus | 种数 Number of species | 占总种数比例 Percentage of total species (%) | 属 Genus | 种数 Number of species | 占总种数比例 Percentage of total species (%) |
|---|---|---|---|---|---|---|
| 鹅膏菌科Amanitaceae | 2 | 11 | 5.26 | 鹅膏菌属 Amanita | 10 | 4.78 |
| 小菇科 Mycenaceae | 2 | 12 | 5.74 | 丝盖伞属 Inocybe | 5 | 2.39 |
| 多孔菌科 Polyporaceae | 8 | 14 | 6.70 | 蜡蘑属 Laccaria | 5 | 2.39 |
| 红菇科 Russulaceae | 3 | 23 | 11.00 | 小皮伞属 Marasmius | 6 | 2.87 |
| 小菇属 Mycena | 11 | 5.26 | ||||
| 光柄菇属 Pluteus | 5 | 2.39 | ||||
| 红菇属 Russula | 17 | 8.13 | ||||
| 栓菌属 Trametes | 5 | 2.39 |
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