Complete Genome Sequence of Middle East Respiratory Syndrome Coronavirus KOR/KNIH/002_05_2015, Isolated in South Korea

Kim, You-Jin; Cho, Yong‐Joon; Kim, Dae‐Won; Yang, Jeong‐Sun; Kim, Hak; Park, Sung-Han; Han, Young Soo; Yun, Mi-Ran; Lee, Han Saem; Kim, A-Reum; Heo, Deok Rim; Kim, Joo Ae; Kim, Su Jin; Jung, Hee-Dong; Kim, Namil; Yoon, Seok-Hwan; Nam, Jeong-Gu; Kang, Hae Ji; Cheong, Hyang-Min; Lee, Joo-Shil; Chun, Jongsik; Kim, Sung Soon

doi:10.1128/genomea.00787-15

Cited by 41 publications

(45 citation statements)

References 6 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…The nucleotide substitutions were all nonsynonymous and occurred in the orf1ab ( n = 3) and S ( n = 4) genes (Table 2). The sequences of the eight isolates had high nucleotide identities (ranging from 99.96% to 100%, with 99.98% to 100% sequence identities in ORF 1a and 1b [ orf1ab ] and 99.85% to 100% identities in the spike glycoprotein gene) with recently published sequences of MERS-CoV isolates from the outbreak in South Korea (Kim et al 2015; Lu et al 2015; Seong et al 2016). The E , M , and N genes were 100% identical to the previously described MERS-CoV isolates from South Korea.…”

Section: Resultsmentioning

confidence: 72%

“…The new sequences clustered together with the other MERS-CoV isolates from the 2015 South Korean outbreak (Supplemental Fig. S2; Kim et al 2015; Lu et al 2015; Seong et al 2016). …”

Section: Resultsmentioning

confidence: 87%

“…KT029139 was reported in Kim et al 2015 and KT374050—KT374057 were in Kim et al 2016a. All sequences were aligned with the National Center for Biotechnology Information (NCBI) reference sequence (NC_019843.3).…”

Section: Resultsmentioning

confidence: 99%

See 2 more Smart Citations

Analysis of intrapatient heterogeneity uncovers the microevolution of Middle East respiratory syndrome coronavirus

Park

Huh

Kim

et al. 2016

Cold Spring Harb Mol Case Stud

View full text Add to dashboard Cite

Genome sequence analysis of Middle East respiratory syndrome coronavirus (MERS-CoV) variants from patient specimens has revealed the evolutionary dynamics and mechanisms of pathogenesis of the virus. However, most studies have analyzed the consensus sequences of MERS-CoVs, precluding an investigation of intrapatient heterogeneity. Here, we analyzed non–consensus sequences to characterize intrapatient heterogeneity in cases associated with the 2015 outbreak of MERS in South Korea. Deep-sequencing analysis of MERS-CoV genomes performed on specimens from eight patients revealed significant intrapatient variation; therefore, sequence heterogeneity was further analyzed using targeted deep sequencing. A total of 35 specimens from 24 patients (including a super-spreader) were sequenced to detect and analyze variants displaying intrapatient heterogeneity. Based on the analysis of non–consensus sequences, we demonstrated the intrapatient heterogeneity of MERS-CoVs, with the highest level in the super-spreader specimen. The heterogeneity could be transmitted in a close association with variation in the consensus sequences, suggesting the occurrence of multiple MERS-CoV infections. Analysis of intrapatient heterogeneity revealed a relationship between D510G and I529T mutations in the receptor-binding domain (RBD) of the viral spike glycoprotein. These two mutations have been reported to reduce the affinity of the RBD for human CD26. Notably, although the frequency of both D510G and I529T varied greatly among specimens, the combined frequency of the single mutants was consistently high (87.7% ± 1.9% on average). Concurrently, the frequency of occurrence of the wild type at the two positions was only 6.5% ± 1.7% on average, supporting the hypothesis that selection pressure exerted by the host immune response played a critical role in shaping genetic variants and their interaction in human MERS-CoVs during the outbreak.

show abstract

Section: Resultsmentioning

confidence: 72%

“…The new sequences clustered together with the other MERS-CoV isolates from the 2015 South Korean outbreak (Supplemental Fig. S2; Kim et al 2015; Lu et al 2015; Seong et al 2016). …”

Section: Resultsmentioning

confidence: 87%

See 1 more Smart Citation

Analysis of intrapatient heterogeneity uncovers the microevolution of Middle East respiratory syndrome coronavirus

Park

Huh

Kim

et al. 2016

Cold Spring Harb Mol Case Stud

View full text Add to dashboard Cite

show abstract

“…The S gene was amplified directly from nucleic acids extracted from respiratory specimens (6 patients) or a viral isolate (1 patient) ( 7 ) by using the QIAamp Viral RNA Mini Kit (QIAGEN, Hilden, Germany). Reverse transcription was performed by using the Superscript III First-Strand Synthesis System (Life Technologies, Bleiswijk, the Netherlands) and virus-specific reverse primers.…”

Section: The Studymentioning

confidence: 99%

Variations in Spike Glycoprotein Gene of MERS-CoV, South Korea, 2015

Kim¹,

Kim²,

Park³

et al. 2016

Emerg. Infect. Dis.

Self Cite

View full text Add to dashboard Cite

show abstract

“…The surface spike glycoprotein (S protein) has gained the most attention because it confers receptor specificity and is the primary target for the humoral immune response during infection. It is currently the key focus of MERS-CoV vaccines and anti-viral therapeutics development efforts [42][43][44].…”

Section: Virologymentioning

confidence: 99%

MERS-CoV as an emerging respiratory illness: A review of prevention methods

Baharoon

Memish

2019

Travel Medicine and Infectious Disease

View full text Add to dashboard Cite

Complete Genome Sequence of Middle East Respiratory Syndrome Coronavirus KOR/KNIH/002_05_2015, Isolated in South Korea

Abstract: The full genome sequence of a Middle East respiratory syndrome coronavirus (MERS-CoV) was identified from cultured and isolated in Vero cells. The viral genome sequence has high similarity to 53 human MERS-CoVs, ranging from 99.5% to 99.8% at the nucleotide level.

Cited by 41 publications

References 6 publications

Analysis of intrapatient heterogeneity uncovers the microevolution of Middle East respiratory syndrome coronavirus

Analysis of intrapatient heterogeneity uncovers the microevolution of Middle East respiratory syndrome coronavirus

Variations in Spike Glycoprotein Gene of MERS-CoV, South Korea, 2015

MERS-CoV as an emerging respiratory illness: A review of prevention methods

Contact Info

Product

Resources

About