Efficient assembly of a large fragment of monkeypox virus genome as a qPCR template using dual-selection based transformation-associated recombination

Lei Yang; Lingqian Tian; Leshan Li; Qiuhong Liu; Xiang Guo; Yuan Zhou; Rongjuan Pei; Xinwen Chen; Yun Wang

doi:10.1016/j.virs.2022.02.009

June 2022

Citation: Lei Yang, Lingqian Tian, Leshan Li, Qiuhong Liu, Xiang Guo, Yuan Zhou, Rongjuan Pei, Xinwen Chen, Yun Wang. Efficient assembly of a large fragment of monkeypox virus genome as a qPCR template using dual-selection based transformation-associated recombination .VIROLOGICA SINICA, 2022, 37(3) : 341-347. http://dx.doi.org/10.1016/j.virs.2022.02.009

Efficient assembly of a large fragment of monkeypox virus genome as a qPCR template using dual-selection based transformation-associated recombination

Lei Yang ^a,b ,
Lingqian Tian ^a,b ,
Leshan Li ^a,b ,
Qiuhong Liu ^a,b ,
Xiang Guo ^a,b ,
Yuan Zhou ^a ,
Rongjuan Pei ^a ,
Xinwen Chen ^{a
,,} ,
Yun Wang ^{a
,,}

a State Key Laboratory of Virology, Wuhan Institute of Virology, Center for Biosafety Mega-Science, Chinese Academy of Sciences, Wuhan, 430071, China;

Corresponding author: Xinwen Chen, chenxw@wh.iov.cn
Yun Wang, wangyun@wh.iov.cn
Received Date: 10 August 2021
Accepted Date: 23 February 2022
Available online: 28 February 2022

Abstract

Transformation-associated recombination (TAR) has been widely used to assemble large DNA constructs. One of the significant obstacles hindering assembly efficiency is the presence of error-prone DNA repair pathways in yeast, which results in vector backbone recircularization or illegitimate recombination products. To increase TAR assembly efficiency, we prepared a dual-selective TAR vector, pGFCS, by adding a P_ADH1-URA3 cassette to a previously described yeast-bacteria shuttle vector, pGF, harboring a P_HIS3-HIS3 cassette as a positive selection marker. This new cassette works as a negative selection marker to ensure that yeast harboring a recircularized vector cannot propagate in the presence of 5-fluoroorotic acid. To prevent pGFCS bearing ura3 from recombining with endogenous ura3-52 in the yeast genome, a highly transformable Saccharomyces cerevisiae strain, VL6-48B, was prepared by chromosomal substitution of ura3-52 with a transgene conferring resistance to blasticidin. A 55-kb genomic fragment of monkeypox virus encompassing primary detection targets for quantitative PCR was assembled by TAR using pGFCS in VL6-48B. The pGFCS-mediated TAR assembly showed a zero rate of vector recircularization and an average correct assembly yield of 79% indicating that the dual-selection strategy provides an efficient approach to optimizing TAR assembly.
- Monkeypox virus
- , Transformation-associated recombination(TAR)
- , TAR assembly

Electronic Supplementary Material

10.1016j.virs.2022.02.009-ESM.doc
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