Deep functional analysis of synII, a 770-kilobase synthetic yeast chromosome
Yue Shen
(1, 2, 3, 4)
,
Yun Wang
(2, 4)
,
Tai Chen
(2, 4)
,
Feng Gao
(2)
,
Jianhui Gong
(2)
,
Dariusz Abramczyk
(1)
,
Roy Walker
(1)
,
Hongcui Zhao
(2)
,
Shihong Chen
(2)
,
Wei Liu
(1)
,
Yisha Luo
(1)
,
Carolin A Müller
(5)
,
Adrien Paul-Dubois-Taine
(1)
,
Bonnie Alver
(1)
,
Giovanni Stracquadanio
(6, 7)
,
Leslie Mitchell
(8)
,
Zhouqing Luo
(9)
,
Yanqun Fan
(2)
,
Baojin Zhou
(2)
,
Bo Wen
(2)
,
Fengji Tan
(2)
,
Yujia Wang
(2)
,
Jin Zi
(2)
,
Zexiong Xie
(10)
,
Bingzhi Li
(10)
,
Kun Yang
(6)
,
Sarah Richardson
(6, 7)
,
Hui Jiang
(2)
,
Christopher French
(1)
,
Conrad A Nieduszynski
(5)
,
Romain Koszul
(11)
,
Adele Marston
(1)
,
Yingjin Yuan
(10)
,
Jian Wang
(2)
,
Joel Bader
(7, 8)
,
Junbiao Dai
(9)
,
Jef Boeke
(8)
,
Xun Xu
(2, 4)
,
Yizhi Cai
(1)
,
Huanming Yang
(2, 3)
1
Edin. -
University of Edinburgh
2 BGI - Beijing Genomics Institute [Shenzhen]
3 James D. Watson Institute of Genome Sciences
4 BGI Qingdao
5 Sir William Dunn School of Pathology [Oxford]
6 High Throughput Biology Center [Baltimore]
7 JHU - Johns Hopkins University
8 NYU Langone Medical Center - New York University Langone Medical Center
9 THU - Tsinghua University [Beijing]
10 TJU - Tianjin University
11 Régulation spatiale des Génomes - Spatial Regulation of Genomes
2 BGI - Beijing Genomics Institute [Shenzhen]
3 James D. Watson Institute of Genome Sciences
4 BGI Qingdao
5 Sir William Dunn School of Pathology [Oxford]
6 High Throughput Biology Center [Baltimore]
7 JHU - Johns Hopkins University
8 NYU Langone Medical Center - New York University Langone Medical Center
9 THU - Tsinghua University [Beijing]
10 TJU - Tianjin University
11 Régulation spatiale des Génomes - Spatial Regulation of Genomes
Feng Gao
- Fonction : Auteur
- PersonId : 7772
- IdHAL : fgao
- ORCID : 0000-0002-4989-3992
- IdRef : 184742323
Kun Yang
- Fonction : Auteur
- PersonId : 758349
- ORCID : 0000-0002-0809-2371
Conrad A Nieduszynski
- Fonction : Auteur
- PersonId : 937973
Romain Koszul
- Fonction : Auteur
- PersonId : 734994
- IdHAL : romain-koszul
- ORCID : 0000-0002-3086-1173
- IdRef : 08902673X
Joel Bader
- Fonction : Auteur
- PersonId : 801545
- ORCID : 0000-0002-6020-4625
Junbiao Dai
- Fonction : Auteur
- PersonId : 782256
- ORCID : 0000-0002-5299-4700
Xun Xu
- Fonction : Auteur
- PersonId : 801031
- ORCID : 0000-0002-5338-5173
Résumé
Here, we report the successful design, construction, and characterization of a 770-kilobase synthetic yeast chromosome II (synII). Our study incorporates characterization at multiple levels-including phenomics, transcriptomics, proteomics, chromosome segregation, and replication analysis-to provide a thorough and comprehensive analysis of a synthetic chromosome. Our Trans-Omics analyses reveal a modest but potentially relevant pervasive up-regulation of translational machinery observed in synII, mainly caused by the deletion of 13 transfer RNAs. By both complementation assays and SCRaMbLE (synthetic chromosome rearrangement and modification by loxP-mediated evolution), we targeted and debugged the origin of a growth defect at 37°C in glycerol medium, which is related to misregulation of the high-osmolarity glycerol response. Despite the subtle differences, the synII strain shows highly consistent biological processes comparable to the native strain.