Literature DB >> 32833212

In-Yeast Assembly of Coronavirus Infectious cDNA Clones Using a Synthetic Genomics Pipeline.

Tran Thi Nhu Thao1,2,3, Fabien Labroussaa2,4, Nadine Ebert1,2, Joerg Jores5,6, Volker Thiel7,8.   

Abstract

The Escherichia coli and vaccinia virus-based reverse genetics systems have been widely applied for the manipulation and engineering of coronavirus genomes. These systems, however, present several limitations and are sometimes difficult to establish in a timely manner for (re-)emerging viruses. In this chapter, we present a new universal reverse genetics platform for the assembly and engineering of infectious full-length cDNAs using yeast-based transformation-associated recombination cloning. This novel assembly method not only results in stable coronavirus infectious full-length cDNAs cloned in the yeast Saccharomyces cerevisiae but also fosters and accelerates the manipulation of their genomes. Such a platform is widely applicable for the scientific community, as it requires no specific equipment and can be performed in a standard laboratory setting. The protocol described can be easily adapted to virtually all known or emerging coronaviruses, such as Middle East respiratory syndrome coronavirus (MERS-CoV).

Entities:  

Keywords:  Coronavirus; Full-length cDNA clone; Homologous recombination; RNA virus; Reverse genetics; Saccharomyces cerevisiae; Synthetic genomics; Transformation-associated recombination (TAR) cloning

Mesh:

Substances:

Year:  2020        PMID: 32833212     DOI: 10.1007/978-1-0716-0900-2_13

Source DB:  PubMed          Journal:  Methods Mol Biol        ISSN: 1064-3745


  13 in total

1.  Engineering the largest RNA virus genome as an infectious bacterial artificial chromosome.

Authors:  F Almazán; J M González; Z Pénzes; A Izeta; E Calvo; J Plana-Durán; L Enjuanes
Journal:  Proc Natl Acad Sci U S A       Date:  2000-05-09       Impact factor: 11.205

2.  Infectious RNA transcribed in vitro from a cDNA copy of the human coronavirus genome cloned in vaccinia virus.

Authors:  Volker Thiel; Jens Herold; Barbara Schelle; Stuart G Siddell
Journal:  J Gen Virol       Date:  2001-06       Impact factor: 3.891

3.  Reverse genetics system for the avian coronavirus infectious bronchitis virus.

Authors:  R Casais; V Thiel; S G Siddell; D Cavanagh; P Britton
Journal:  J Virol       Date:  2001-12       Impact factor: 5.103

4.  Creation of a bacterial cell controlled by a chemically synthesized genome.

Authors:  Daniel G Gibson; John I Glass; Carole Lartigue; Vladimir N Noskov; Ray-Yuan Chuang; Mikkel A Algire; Gwynedd A Benders; Michael G Montague; Li Ma; Monzia M Moodie; Chuck Merryman; Sanjay Vashee; Radha Krishnakumar; Nacyra Assad-Garcia; Cynthia Andrews-Pfannkoch; Evgeniya A Denisova; Lei Young; Zhi-Qing Qi; Thomas H Segall-Shapiro; Christopher H Calvey; Prashanth P Parmar; Clyde A Hutchison; Hamilton O Smith; J Craig Venter
Journal:  Science       Date:  2010-05-20       Impact factor: 47.728

5.  Specific cloning of human DNA as yeast artificial chromosomes by transformation-associated recombination.

Authors:  V Larionov; N Kouprina; J Graves; X N Chen; J R Korenberg; M A Resnick
Journal:  Proc Natl Acad Sci U S A       Date:  1996-01-09       Impact factor: 11.205

6.  Genome-wide engineering of an infectious clone of herpes simplex virus type 1 using synthetic genomics assembly methods.

Authors:  Lauren M Oldfield; Peter Grzesik; Alexander A Voorhies; Nina Alperovich; Derek MacMath; Claudia D Najera; Diya Sabrina Chandra; Sanjana Prasad; Vladimir N Noskov; Michael G Montague; Robert M Friedman; Prashant J Desai; Sanjay Vashee
Journal:  Proc Natl Acad Sci U S A       Date:  2017-09-19       Impact factor: 11.205

7.  Functional copies of a human gene can be directly isolated by transformation-associated recombination cloning with a small 3' end target sequence.

Authors:  N Kouprina; L Annab; J Graves; C Afshari; J C Barrett; M A Resnick; V Larionov
Journal:  Proc Natl Acad Sci U S A       Date:  1998-04-14       Impact factor: 11.205

8.  One-step assembly in yeast of 25 overlapping DNA fragments to form a complete synthetic Mycoplasma genitalium genome.

Authors:  Daniel G Gibson; Gwynedd A Benders; Kevin C Axelrod; Jayshree Zaveri; Mikkel A Algire; Monzia Moodie; Michael G Montague; J Craig Venter; Hamilton O Smith; Clyde A Hutchison
Journal:  Proc Natl Acad Sci U S A       Date:  2008-12-10       Impact factor: 11.205

9.  Complete chemical synthesis, assembly, and cloning of a Mycoplasma genitalium genome.

Authors:  Daniel G Gibson; Gwynedd A Benders; Cynthia Andrews-Pfannkoch; Evgeniya A Denisova; Holly Baden-Tillson; Jayshree Zaveri; Timothy B Stockwell; Anushka Brownley; David W Thomas; Mikkel A Algire; Chuck Merryman; Lei Young; Vladimir N Noskov; John I Glass; J Craig Venter; Clyde A Hutchison; Hamilton O Smith
Journal:  Science       Date:  2008-01-24       Impact factor: 47.728

10.  GC Preps: Fast and Easy Extraction of Stable Yeast Genomic DNA.

Authors:  Benjamin A Blount; Maureen R M Driessen; Tom Ellis
Journal:  Sci Rep       Date:  2016-05-31       Impact factor: 4.379

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  1 in total

1.  Genome-Scale Identification of SARS-CoV-2 and Pan-coronavirus Host Factor Networks.

Authors:  William M Schneider; Joseph M Luna; H-Heinrich Hoffmann; Francisco J Sánchez-Rivera; Andrew A Leal; Alison W Ashbrook; Jérémie Le Pen; Inna Ricardo-Lax; Eleftherios Michailidis; Avery Peace; Ansgar F Stenzel; Scott W Lowe; Margaret R MacDonald; Charles M Rice; John T Poirier
Journal:  Cell       Date:  2020-12-09       Impact factor: 66.850

  1 in total

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