Literature DB >> 28280149

Engineering the ribosomal DNA in a megabase synthetic chromosome.

Weimin Zhang1,2, Guanghou Zhao1,3, Zhouqing Luo1, Yicong Lin1, Lihui Wang1, Yakun Guo1, Ann Wang1, Shuangying Jiang1, Qingwen Jiang1, Jianhui Gong4, Yun Wang4, Sha Hou1, Jing Huang1, Tianyi Li1,2, Yiran Qin1, Junkai Dong1, Qin Qin1, Jiaying Zhang1,2, Xinzhi Zou1, Xi He1, Li Zhao1, Yibo Xiao1, Meng Xu1, Erchao Cheng1, Ning Huang1, Tong Zhou1, Yue Shen4,5,6, Roy Walker5, Yisha Luo5, Zheng Kuang7, Leslie A Mitchell7, Kun Yang8, Sarah M Richardson8, Yi Wu9, Bing-Zhi Li9, Ying-Jin Yuan9, Huanming Yang4,10, Jiwei Lin11, Guo-Qiang Chen1, Qingyu Wu1, Joel S Bader8, Yizhi Cai5, Jef D Boeke7, Junbiao Dai12.   

Abstract

We designed and synthesized a 976,067-base pair linear chromosome, synXII, based on native chromosome XII in Saccharomyces cerevisiae SynXII was assembled using a two-step method, specified by successive megachunk integration and meiotic recombination-mediated assembly, producing a functional chromosome in S. cerevisiae. Minor growth defect "bugs" detected in synXII, caused by deletion of tRNA genes, were rescued by introducing an ectopic copy of a single tRNA gene. The ribosomal gene cluster (rDNA) on synXII was left intact during the assembly process and subsequently replaced by a modified rDNA unit used to regenerate rDNA at three distinct chromosomal locations. The signature sequences within rDNA, which can be used to determine species identity, were swapped to generate a Saccharomyces synXII strain that would be identified as Saccharomyces bayanus by standard DNA barcoding procedures.
Copyright © 2017, American Association for the Advancement of Science.

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Year:  2017        PMID: 28280149     DOI: 10.1126/science.aaf3981

Source DB:  PubMed          Journal:  Science        ISSN: 0036-8075            Impact factor:   47.728


  49 in total

1.  Synthetic Biology: Building a custom eukaryotic genome de novo.

Authors:  Darren J Burgess
Journal:  Nat Rev Genet       Date:  2017-04-12       Impact factor: 53.242

2.  A spring collection of designer yeast chromosomes.

Authors:  Katarzyna Marcinkiewicz
Journal:  Nat Biotechnol       Date:  2017-06-07       Impact factor: 54.908

3.  Synthetic genome engineering gets infectious.

Authors:  Leslie A Mitchell; Tom Ellis
Journal:  Proc Natl Acad Sci U S A       Date:  2017-10-09       Impact factor: 11.205

Review 4.  Protein Engineering for Improving and Diversifying Natural Product Biosynthesis.

Authors:  Chenyi Li; Ruihua Zhang; Jian Wang; Lauren Marie Wilson; Yajun Yan
Journal:  Trends Biotechnol       Date:  2020-01-15       Impact factor: 19.536

5.  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

6.  Beyond editing to writing large genomes.

Authors:  Raj Chari; George M Church
Journal:  Nat Rev Genet       Date:  2017-08-30       Impact factor: 53.242

7.  3D organization of synthetic and scrambled chromosomes.

Authors:  Guillaume Mercy; Julien Mozziconacci; Vittore F Scolari; Kun Yang; Guanghou Zhao; Agnès Thierry; Yisha Luo; Leslie A Mitchell; Michael Shen; Yue Shen; Roy Walker; Weimin Zhang; Yi Wu; Ze-Xiong Xie; Zhouqing Luo; Yizhi Cai; Junbiao Dai; Huanming Yang; Ying-Jin Yuan; Jef D Boeke; Joel S Bader; Héloïse Muller; Romain Koszul
Journal:  Science       Date:  2017-03-10       Impact factor: 47.728

8.  Deep functional analysis of synII, a 770-kilobase synthetic yeast chromosome.

Authors:  Yue Shen; Yun Wang; Tai Chen; Feng Gao; Jianhui Gong; Dariusz Abramczyk; Roy Walker; Hongcui Zhao; Shihong Chen; Wei Liu; Yisha Luo; Carolin A Müller; Adrien Paul-Dubois-Taine; Bonnie Alver; Giovanni Stracquadanio; Leslie A Mitchell; Zhouqing Luo; Yanqun Fan; Baojin Zhou; Bo Wen; Fengji Tan; Yujia Wang; Jin Zi; Zexiong Xie; Bingzhi Li; Kun Yang; Sarah M Richardson; Hui Jiang; Christopher E French; Conrad A Nieduszynski; Romain Koszul; Adele L Marston; Yingjin Yuan; Jian Wang; Joel S Bader; Junbiao Dai; Jef D Boeke; Xun Xu; Yizhi Cai; Huanming Yang
Journal:  Science       Date:  2017-03-10       Impact factor: 47.728

9.  Bug mapping and fitness testing of chemically synthesized chromosome X.

Authors:  Yi Wu; Bing-Zhi Li; Meng Zhao; Leslie A Mitchell; Ze-Xiong Xie; Qiu-Hui Lin; Xia Wang; Wen-Hai Xiao; Ying Wang; Xiao Zhou; Hong Liu; Xia Li; Ming-Zhu Ding; Duo Liu; Lu Zhang; Bao-Li Liu; Xiao-Le Wu; Fei-Fei Li; Xiu-Tao Dong; Bin Jia; Wen-Zheng Zhang; Guo-Zhen Jiang; Yue Liu; Xue Bai; Tian-Qing Song; Yan Chen; Si-Jie Zhou; Rui-Ying Zhu; Feng Gao; Zheng Kuang; Xuya Wang; Michael Shen; Kun Yang; Giovanni Stracquadanio; Sarah M Richardson; Yicong Lin; Lihui Wang; Roy Walker; Yisha Luo; Ping-Sheng Ma; Huanming Yang; Yizhi Cai; Junbiao Dai; Joel S Bader; Jef D Boeke; Ying-Jin Yuan
Journal:  Science       Date:  2017-03-10       Impact factor: 47.728

10.  De novo assembly and delivery to mouse cells of a 101 kb functional human gene.

Authors:  Leslie A Mitchell; Laura H McCulloch; Sudarshan Pinglay; Henri Berger; Nazario Bosco; Ran Brosh; Milica Bulajić; Emily Huang; Megan S Hogan; James A Martin; Esteban O Mazzoni; Teresa Davoli; Matthew T Maurano; Jef D Boeke
Journal:  Genetics       Date:  2021-05-17       Impact factor: 4.562

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