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Volume 20, Number 6—June 2014

Dispatch

Gastroenteritis Outbreaks Caused by a DS-1–like G1P[8] Rotavirus Strain, Japan, 2012–2013

Seiji P. YamamotoComments to Author , Atsushi Kaida, Hideyuki Kubo, and Nobuhiro Iritani
Author affiliations: Osaka City Institute of Public Health and Environmental Sciences, Osaka, Japan

Main Article

Table 2

Nucleotide sequence identity of various RVA strains to RVA DS-1–like G1P[8] strain HC12016, which was detected during an outbreak in Osaka City, Japan, 2012*

Strain name Genogroup % Nucleotide identity by gene segment
VP7 VP4 VP6 VP1 VP2 VP3 NSP1 NSP2 NSP3 NSP4 NSP5
Wa† Wa 91.96 90.30 79.73 79.94 80.92 77.14 75.14 81.59 78.83 81.19 81.69
2007719635‡ Wa 99.60 99.44 79.73 80.07 80.41 77.14 75.16 82.88 78.62 80.41 84.29
DS-1§ DS-1 72.56 87.22 87.68 90.17 93.93 93.06 92.60 85.93 94.65 89.34 92.91
CK20048¶ DS-1 72.96 87.09 98.82 99.25 99.30 87.82 99.02 99.26 97.38 98.28 99.24
CK20030# DS-1 72.76 87.43 98.74 99.41 97.77 87.70 99.09 98.84 97.59 98.28 97.13
CK20038** DS-1 75.18 87.09 96.00 96.78 99.41 98.66 96.65 97.57 99.27 88.71 98.94
PA130†† DS-1 73.24 87.26 98.59 98.97 97.53 87.53 98.60 98.62 97.27 98.43 97.13
Okayama strains‡‡ DS-1 99.78–100 99.90–100 99.84–100 98.75–99.69 99.70–100

*Strain HC12016 is RVA/Human-wt/JPN/HC12016/2012/G1P[8] (G1-P[8]-I2-R2-C2-M2-A2-N2-T2-E2-H2). The various strains included in this table are genetically related to strain HC12016, and of the strains tested, these showed the highest sequence identity to strain HC12016 in each gene segment. Underlining indicates the highest identity to strain HC12016, excluding DS-1–like G1P[8] strains. Dark gray indicates >99% identity to strain HC12016, excluding DS-1–like G1P[8] strains. Light gray indicates >98% identity to strain HC12016, excluding DS-1–like G1P[8] strains. RVA, rotavirus A; VP, viral protein; NSP, nonstructural protein.
†RVA/Human-tc/USA/Wa/1974/G1P[8] (G1-P[8]-I1-R1-C1-M1-A1-N1-T1-E1-H1).
‡RVA/Human-wt/USA/2007719635/2007/G1P[8] (G1-P[8]-I1-R1-C1-M1-A1-N1-T1-E1-H1).
§RVA/Human-tc/USA/DS-1/1976/G2P[4] (G2-P[4]-I2-R2-C2-M2-A2-N2-T2-E2-H2).
¶RVA/Human-wt/AUS/CK20048/2011/G2P[4] (G2-P[4]-I2-R2-C2-M2-A2-N2-T2-E2-H2).
#RVA/Human-wt/AUS/CK20030/2006/G2P[4] (G2-P[4]-I2-R2-C2-M2-A2-N2-T2-E2-H2).
**RVA/Human-wt/AUS/CK20038/2008/G6P[4] (G6-P[4]-I2-R2-C2-M2-A2-N2-T2-E2-H2).
††RVA/Human-wt/ITA/PA130/2010/G2P[4] (G2-P[4]-I2-R2-C2-M2-A2-N2-T2-E2-H2).
‡‡RVA/Human-wt/JPN/OH3385/2012/G1P[8], RVA/Human-wt/JPN/OH3493/2012/G1P[8], RVA/Human-wt/JPN/OH3506/2012/G1P[8], and RVA/Human-wt/JPN/OH3625/2012/G1P[8] (G1-P[8]-I2-Rx-Cx-Mx-Ax-Nx-Tx-E2-H2), which were detected in Okayama Prefecture, Japan (11).

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