Transboundary and Emerging Diseases

Research Article

Genomic Epidemiology of African Swine Fever Virus Identified in Domestic Pig Farms in South Korea during 2019–2021

Table 2

Next-generation sequencing results of ASFV isolates analyzed in this study.


Strain	Total number of reads	Percent of reads mapped to ASFV genome^A,D	Mean depth of coverage^B	Genome coverage^C (%)	Recovered genome size	GenBank acc. number

ASFV/Korea/Pig/Paju1/2019	926,922	99.7	73	100	187,848	MT748042.2
ASFV/Korea/Pig/Yeoncheon1/2019	4,801,388	99.8	72.2	100	187,848	MW049116.2
ASFV/Korea/Pig/Gimpo1/2019	3,398,636	99.8	73	100	187,848	OR031244
ASFV/Korea/Pig/Paju2/2019	2,689,770	99.8	73.7	100	187,848	OR145817
ASFV/Korea/Pig/Ganghwa1/2019	2,426,070	99.8	73.8	100	187,848	OR145818
ASFV/Korea/Pig/Ganghwa2/2019	2,971,264	99.9	74.8	100	187,849	OR145819
ASFV/Korea/Pig/Ganghwa3/2019	1,467,574	99.8	74.2	100	187,848	OR145820
ASFV/Korea/Pig/Ganghwa4/2019	597,060	99.8	72.7	100	187,848	OR145821
ASFV/Korea/Pig/Ganghwa5/2019	1,817,732	99.8	60.8	100	187,848	OR145822
ASFV/Korea/Pig/Paju3/2019	3,416,744	99.8	73.3	100	187,849	OR145823
ASFV/Korea/Pig/Paju4/2019	2,400,358	99.7	69.1	100	187,849	OR145824
ASFV/Korea/Pig/Paju5/2019	3,785,414	99.7	77.5	99.9	187,848	OR145825
ASFV/Korea/Pig/Gimpo2/2019	2,521,942	99.4	75.4	100	187,848	OR145826
ASFV/Korea/Pig/Yeuncheon2/2019	3,556,236	99.6	79.9	100	187,848	OR145827
ASFV/Korea/Pig/Hwacheon1/2020	1,927,628	99.9	61.9	100	187,847	OR145828
ASFV/Korea/Pig/Hwacheon2/2020	1,256,522	62.2	48	99.2	187,848	OR145829
ASFV/Korea/Pig/Yeongwol/2021	5,396,554	96.7	66.4	100	187,850	OR145830
ASFV/Korea/Pig/Goseong/2021	5,228,860	34.8	72.2	99.7	187,854	OR145831
ASFV/Korea/Pig/Inje1/2021	8,490,160	14.9	47.7	99.2	187,849	OR145832
ASFV/Korea/Pig/Hongcheon/2021	6,711,708	26.2	77.9	100	187,848	OR145833
ASFV/Korea/Pig/Inje2/2021	8,774,068	50.7	71.6	99.9	187,849	OR145834

The number of total reads and percent of reads mapped to ASFV genome. ^ATaxonomic classification of sequencing reads wereas assigned using KRAKEN2 program to calculate the percentage of ASFV genomes to the total reads. ^BThe mean number of reads per each nucleotide site. ^CThe percentage of the sequenced genome compared to with the whole-genome sequence. ^DThe four viruses detected in 2021 (Goseong/2021, Inje1/2021, Hongcheon/2021, and Inje2/2021) are targeted for enrichment in NGS.