Open AccessHaplotype networks of SARS-CoV-2 infections in the Diamond Princess cruise ship outbreak
Author(s) -
Tsuyoshi Sekizuka,
Kentaro Itokawa,
Tsutomu Kageyama,
Shinji Saito,
Ikuyo Takayama,
Hideki Asanuma,
Naganori Nao,
Rina Tanaka,
Masanori Hashino,
Takuri Takahashi,
Hajime Kamiya,
Takashi Yamagishi,
Kensaku Kakimoto,
Motoi Suzuki,
Hideki Hasegawa,
Takaji Wakita,
Makoto Kuroda
Publication year - 2020
Publication title -
proceedings of the national academy of sciences of the united states of america
Language(s) - English
Resource type - Journals
SCImago Journal Rank - 5.011
H-Index - 771
eISSN - 1091-6490
pISSN - 0027-8424
DOI - 10.1073/pnas.2006824117
Subject(s) - outbreak , cruise , coronavirus , covid-19 , quarantine , pandemic , transmission (telecommunications) , virology , geography , biology , disease , medicine , infectious disease (medical specialty) , ecology , oceanography , telecommunications , computer science , pathology , geology
The Diamond Princess cruise ship was put under quarantine offshore Yokohama, Japan, after a passenger who disembarked in Hong Kong was confirmed as a coronavirus disease 2019 case. We performed whole-genome sequencing of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) directly from PCR + clinical specimens and conducted a phylogenetic analysis of the outbreak. All tested isolates exhibited a transversion at G 11083 T, suggesting that SARS-CoV-2 dissemination on the Diamond Princess originated from a single introduction event before the quarantine started. Although further spreading might have been prevented by quarantine, some progeny clusters could be linked to transmission through mass-gathering events in the recreational areas and direct transmission among passengers who shared cabins during the quarantine. This study demonstrates the usefulness of haplotype network/phylogeny analysis in identifying potential infection routes.