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A yeast platform for high-level synthesis of tetrahydroisoquinoline alkaloids.

Author(s): Pyne ME, Kevvai K, Grewal PS, Narcross L, Choi B, Bourgeois L, Dueber JE, Martin VJJ

Nat Commun. 2020 Jul 03;11(1):3337 Authors: Pyne ME, Kevvai K, Grewal PS, Narcross L, Choi B, Bourgeois L, Dueber JE, Martin VJJ

Article GUID: 32620756
Author Correction: Building a global alliance of biofoundries.

Author(s): Hillson N, Caddick M, Cai Y, Carrasco JA, Chang MW, Curach NC, Bell DJ, Feuvre RL, Friedman DC, Fu X, Gold ND, Herrgård MJ, Holowko MB, John...

Nat Commun. 2019 Jul 11;10(1):3132 Authors: Hillson N, Caddick M, Cai Y, Carrasco JA, Chang MW, Curach NC, Bell DJ, Feuvre RL, Friedman DC, Fu X, Gold ND, Herrgård MJ, Holowko MB, Johnson JR,...

Article GUID: 31296848
An Engineered Aro1 Protein Degradation Approach for Increased cis,cis-Muconic Acid Biosynthesis in Saccharomyces cerevisiae.

Author(s): Pyne ME, Narcross L, Melgar M, Kevvai K, Mookerjee S, Leite GB, Martin VJJ

Appl Environ Microbiol. 2018 Sep 01;84(17): Authors: Pyne ME, Narcross L, Melgar M, Kevvai K, Mookerjee S, Leite GB, Martin VJJ

Article GUID: 29934332
A Highly Characterized Synthetic Landing Pad System for Precise Multicopy Gene Integration in Yeast.

Author(s): Bourgeois L, Pyne ME, Martin VJJ

ACS Synth Biol. 2018 Nov 16;7(11):2675-2685 Authors: Bourgeois L, Pyne ME, Martin VJJ

Article GUID: 30372609
Microbial Factories for the Production of Benzylisoquinoline Alkaloids.

Author(s): Narcross L, Fossati E, Bourgeois L, Dueber JE, Martin VJJ

Trends Biotechnol. 2016 Mar;34(3):228-241 Authors: Narcross L, Fossati E, Bourgeois L, Dueber JE, Martin VJJ

Article GUID: 26775900
Determinants of selection in yeast evolved by genome shuffling.

Author(s): Biot-Pelletier D, Pinel D, Larue K, Martin VJJ

Biotechnol Biofuels. 2018;11:282 Authors: Biot-Pelletier D, Pinel D, Larue K, Martin VJJ

Article GUID: 30356826
A Combinatorial Approach To Study Cytochrome P450 Enzymes for De Novo Production of Steviol Glucosides in Baker's Yeast.

Author(s): Gold ND, Fossati E, Hansen CC, DiFalco M, Douchin V, Martin VJJ

ACS Synth Biol. 2018 Dec 21;7(12):2918-2929 Authors: Gold ND, Fossati E, Hansen CC, DiFalco M, Douchin V, Martin VJJ

Article GUID: 30474973
Engineering Plant Secondary Metabolism in Microbial Systems.

Author(s): Pyne ME, Narcross L, Martin VJJ

Plant Physiol. 2019 03;179(3):844-861 Authors: Pyne ME, Narcross L, Martin VJJ PMID: 30643013 [PubMed - indexed for MEDLINE]

Article GUID: 30643013
Building a global alliance of biofoundries.

Author(s): Hillson N, Caddick M, Cai Y, Carrasco JA, Chang MW, Curach NC, Bell DJ, Le Feuvre R, Friedman DC, Fu X, Gold ND, Herrgård MJ, Holowko MB, Jo...

Nat Commun. 2019 05 09;10(1):2040 Authors: Hillson N, Caddick M, Cai Y, Carrasco JA, Chang MW, Curach NC, Bell DJ, Le Feuvre R, Friedman DC, Fu X, Gold ND, Herrgård MJ, Holowko MB, Johnson JR...

Article GUID: 31068573
Title:Determinants of selection in yeast evolved by genome shuffling.
Authors:Biot-Pelletier D,  Pinel D,  Larue K,  Martin VJJ
Link:https://www.ncbi.nlm.nih.gov/pubmed/30356826?dopt=Abstract
DOI:10.1186/s13068-018-1283-9
Category:Biotechnol Biofuels
PMID:30356826
Dept Affiliation: GENOMICS
1 1Department of Biology, Centre for Structural and Functional Genomics, Centre for Applied Synthetic Biology, Concordia University, 7141 Sherbrooke Street West, Montreal, QC H4B 1R6 Canada.
2 2Present Address: Lallemand Inc., Montréal, QC H4P 2R2 Canada.
3 3Present Address: Amyris Inc, Emeryville, CA 94608 USA.
4 Present Address: Charles River Laboratories, Senneville, QC H9X 3R3 Canada.

Description:

Determinants of selection in yeast evolved by genome shuffling.

Biotechnol Biofuels. 2018;11:282

Authors: Biot-Pelletier D, Pinel D, Larue K, Martin VJJ

Abstract

Background: Genome shuffling (GS) is a widely adopted methodology for the evolutionary engineering of desirable traits in industrially relevant microorganisms. We have previously used genome shuffling to generate a strain of Saccharomyces cerevisiae that is tolerant to the growth inhibitors found in a lignocellulosic hydrolysate. In this study, we expand on previous work by performing a population-wide genomic survey of our genome shuffling experiment and dissecting the molecular determinants of the evolved phenotype.

Results: Whole population whole-genome sequencing was used to survey mutations selected during the experiment and extract allele frequency time series. Using growth curve assays on single point mutants and backcrossed derivatives, we explored the genetic architecture of the selected phenotype and detected examples of epistasis. Our results reveal cohorts of strongly correlated mutations, suggesting prevalent genetic hitchhiking and the presence of pre-existing founder mutations. From the patterns of apparent selection and the results of direct phenotypic assays, our results identify key driver mutations and deleterious hitchhikers.

Conclusions: We use these data to propose a model of inhibitor tolerance in our GS mutants. Our results also suggest a role for compensatory evolution and epistasis in our genome shuffling experiment and illustrate the impact of historical contingency on the outcomes of evolutionary engineering.

PMID: 30356826 [PubMed]