An automated DIY framework for experimental evolution of
Pseudomonas putida

J 2021

An automated DIY framework for experimental evolution of Pseudomonas putida

ESPESO, David R.; Pavel DVOŘÁK; Tomas APARICIO a Victor DE LORENZO

Základní údaje

Originální název

An automated DIY framework for experimental evolution of Pseudomonas putida

Autoři

ESPESO, David R.; Pavel DVOŘÁK; Tomas APARICIO a Victor DE LORENZO

Vydání

Microbial Biotechnology, Hoboken, Wiley, 2021, 1751-7915

Další údaje

Jazyk

angličtina

Typ výsledku

Článek v odborném periodiku

Obor

10606 Microbiology

Stát vydavatele

Spojené státy

Utajení

není předmětem státního či obchodního tajemství

Odkazy

URL

Impakt faktor

Impact factor: 6.575

Označené pro přenos do RIV

Ano

Kód RIV

RIV/00216224:14310/21:00118777

Organizační jednotka

Přírodovědecká fakulta

Klíčová slova anglicky

adaptive laboratory evolution; pseudomonas putida; synthetic biology; xylose

Štítky

14314010, rivok

Příznaky

Mezinárodní význam, Recenzováno

Změněno: 28. 4. 2022 08:55, Mgr. Marie Novosadová Šípková, DiS.

Anotace

V originále

Adaptive laboratory evolution (ALE) is a general and effective strategy for optimizing the design of engineered genetic circuits and upgrading metabolic phenotypes. However, the specific characteristics of each microorganism typically ask for exclusive conditions that need to be adjusted to the biological chassis at stake. In this work, we have adopted a do-it-yourself (DIY) approach to implement a flexible and automated framework for performing ALE experiments with the environmental bacterium and metabolic engineering platformPseudomonas putida. The setup includes a dual-chamber semi-continuous log-phase bioreactor design combined with an anti-biofilm layout to manage specific traits of this bacterium in long-term cultivation experiments. As a way of validation, the prototype was instrumental for selecting fast-growing variants of aP. putidastrain engineered to metabolize D-xylose as sole carbon and energy source after running an automated 42 days protocol of iterative regrowth. Several genomic changes were identified in the evolved population that pinpointed the role of RNA polymerase in controlling overall physiological conditions during metabolism of the new carbon source.

Návaznosti

GJ19-06511Y, projekt VaV

Název: Ortogonalizace metabolismu sacharidů v bakteriálním šasi Pseudomonas putida EM42 pro ko-utilizaci cukrů z rostlinné biomasy

Investor: Grantová agentura ČR, Ortogonalizace metabolismu sacharidů v bakteriálním šasi Pseudomonas putida EM42 pro ko-utilizaci cukrů z rostlinné biomasy

Citovat

ESPESO, David R.; Pavel DVOŘÁK; Tomas APARICIO a Victor DE LORENZO. An automated DIY framework for experimental evolution of Pseudomonas putida. Microbial Biotechnology. Hoboken: Wiley, 2021, roč. 14, č. 6, s. 2679-2685. ISSN 1751-7915. Dostupné z: https://doi.org/10.1111/1751-7915.13678.

@article{1688743,
   author = {Espeso, David R. and Dvořák, Pavel and Aparicio, Tomas and de Lorenzo, Victor},
   article_location = {Hoboken},
   article_number = {6},
   doi = {https://doi.org/10.1111/1751-7915.13678},
   keywords = {adaptive laboratory evolution; pseudomonas putida; synthetic biology; xylose},
   language = {eng},
   issn = {1751-7915},
   journal = {Microbial Biotechnology},
   title = {An automated DIY framework for experimental evolution of Pseudomonas putida},
   url = {https://doi.org/10.1111/1751-7915.13678},
   volume = {14},
   year = {2021}
}

TY  - JOUR
ID  - 1688743
AU  - Espeso, David R. - Dvořák, Pavel - Aparicio, Tomas - de Lorenzo, Victor
PY  - 2021
TI  - An automated DIY framework for experimental evolution of Pseudomonas putida
JF  - Microbial Biotechnology
VL  - 14
IS  - 6
SP  - 2679-2685
EP  - 2679-2685
PB  - Wiley
SN  - 17517915
KW  - adaptive laboratory evolution
KW  - pseudomonas putida
KW  - synthetic biology
KW  - xylose
UR  - https://doi.org/10.1111/1751-7915.13678
L2  - https://doi.org/10.1111/1751-7915.13678
N2  - Adaptive laboratory evolution (ALE) is a general and effective strategy for optimizing the design of engineered genetic circuits and upgrading metabolic phenotypes. However, the specific characteristics of each microorganism typically ask for exclusive conditions that need to be adjusted to the biological chassis at stake. In this work, we have adopted a do-it-yourself (DIY) approach to implement a flexible and automated framework for performing ALE experiments with the environmental bacterium and metabolic engineering platformPseudomonas putida. The setup includes a dual-chamber semi-continuous log-phase bioreactor design combined with an anti-biofilm layout to manage specific traits of this bacterium in long-term cultivation experiments. As a way of validation, the prototype was instrumental for selecting fast-growing variants of aP. putidastrain engineered to metabolize D-xylose as sole carbon and energy source after running an automated 42 days protocol of iterative regrowth. Several genomic changes were identified in the evolved population that pinpointed the role of RNA polymerase in controlling overall physiological conditions during metabolism of the new carbon source.
ER  -

ESPESO, David R.; Pavel DVOŘÁK; Tomas APARICIO a Victor DE LORENZO. An automated DIY framework for experimental evolution of Pseudomonas putida. \textit{Microbial Biotechnology}. Hoboken: Wiley, 2021, roč.~14, č.~6, s.~2679-2685. ISSN~1751-7915. Dostupné z: https://doi.org/10.1111/1751-7915.13678.

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