Literature DB >> 27930885

Robust Synthetic Circuits for Two-Dimensional Control of Gene Expression in Yeast.

Andrés Aranda-Díaz1,2, Kieran Mace1,2, Ignacio Zuleta1,2, Patrick Harrigan1,2, Hana El-Samad1,2.   

Abstract

Cellular phenotypes are the result of complex interactions between many components. Understanding and predicting the system level properties of the resulting networks requires the development of perturbation tools that can simultaneously and independently modulate multiple cellular variables. Here, we develop synthetic modules that use different arrangements of two transcriptional regulators to achieve either concurrent and independent control of the expression of two genes, or decoupled control of the mean and variance of a single gene. These modules constitute powerful tools to probe the quantitative attributes of network wiring and function.

Entities:  

Keywords:  control; mating pathway; noise; orthogonal; sic1

Mesh:

Year:  2016        PMID: 27930885      PMCID: PMC5507677          DOI: 10.1021/acssynbio.6b00251

Source DB:  PubMed          Journal:  ACS Synth Biol        ISSN: 2161-5063            Impact factor:   5.110


  54 in total

1.  Regulation of noise in the expression of a single gene.

Authors:  Ertugrul M Ozbudak; Mukund Thattai; Iren Kurtser; Alan D Grossman; Alexander van Oudenaarden
Journal:  Nat Genet       Date:  2002-04-22       Impact factor: 38.330

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Authors:  M Gossen; H Bujard
Journal:  Proc Natl Acad Sci U S A       Date:  1992-06-15       Impact factor: 11.205

3.  Bacterial persistence as a phenotypic switch.

Authors:  Nathalie Q Balaban; Jack Merrin; Remy Chait; Lukasz Kowalik; Stanislas Leibler
Journal:  Science       Date:  2004-08-12       Impact factor: 47.728

4.  Cell integrity signaling activation in response to hyperosmotic shock in yeast.

Authors:  Luis J García-Rodríguez; Rosario Valle; Angel Durán; César Roncero
Journal:  FEBS Lett       Date:  2005-10-13       Impact factor: 4.124

5.  From fluctuations to phenotypes: the physiology of noise.

Authors:  Michael S Samoilov; Gavin Price; Adam P Arkin
Journal:  Sci STKE       Date:  2006-12-19

6.  A noisy linear map underlies oscillations in cell size and gene expression in bacteria.

Authors:  Yu Tanouchi; Anand Pai; Heungwon Park; Shuqiang Huang; Rumen Stamatov; Nicolas E Buchler; Lingchong You
Journal:  Nature       Date:  2015-06-03       Impact factor: 49.962

7.  Cellular noise regulons underlie fluctuations in Saccharomyces cerevisiae.

Authors:  Jacob Stewart-Ornstein; Jonathan S Weissman; Hana El-Samad
Journal:  Mol Cell       Date:  2012-02-24       Impact factor: 17.970

8.  The B-type cyclin kinase inhibitor p40SIC1 controls the G1 to S transition in S. cerevisiae.

Authors:  E Schwob; T Böhm; M D Mendenhall; K Nasmyth
Journal:  Cell       Date:  1994-10-21       Impact factor: 41.582

9.  MSG5, a novel protein phosphatase promotes adaptation to pheromone response in S. cerevisiae.

Authors:  K Doi; A Gartner; G Ammerer; B Errede; H Shinkawa; K Sugimoto; K Matsumoto
Journal:  EMBO J       Date:  1994-01-01       Impact factor: 11.598

10.  Control of stochastic gene expression by host factors at the HIV promoter.

Authors:  John C Burnett; Kathryn Miller-Jensen; Priya S Shah; Adam P Arkin; David V Schaffer
Journal:  PLoS Pathog       Date:  2009-01-09       Impact factor: 6.823

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  20 in total

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Authors:  Can Kayatekin; Audra Amasino; Giorgio Gaglia; Jason Flannick; Julia M Bonner; Saranna Fanning; Priyanka Narayan; M Inmaculada Barrasa; David Pincus; Dirk Landgraf; Justin Nelson; William R Hesse; Michael Costanzo; Chad L Myers; Charles Boone; Jose C Florez; Susan Lindquist
Journal:  Cell       Date:  2018-03-08       Impact factor: 41.582

2.  CiBER-seq dissects genetic networks by quantitative CRISPRi profiling of expression phenotypes.

Authors:  Ryan Muller; Zuriah A Meacham; Lucas Ferguson; Nicholas T Ingolia
Journal:  Science       Date:  2020-12-11       Impact factor: 47.728

3.  Plasmid and Sequencing Library Preparation for CRISPRi Barcoded Expression Reporter Sequencing (CiBER-seq) in Saccharomyces cerevisiae.

Authors:  Ryan Y Muller; Zuriah A Meacham; Nicholas T Ingolia
Journal:  Bio Protoc       Date:  2022-04-05

4.  A Genetic Tool to Track Protein Aggregates and Control Prion Inheritance.

Authors:  Gregory A Newby; Szilvia Kiriakov; Erinc Hallacli; Can Kayatekin; Peter Tsvetkov; Christopher P Mancuso; J Maeve Bonner; William R Hesse; Sohini Chakrabortee; Anita L Manogaran; Susan W Liebman; Susan Lindquist; Ahmad S Khalil
Journal:  Cell       Date:  2017-10-19       Impact factor: 41.582

5.  Lipidomic Analysis of α-Synuclein Neurotoxicity Identifies Stearoyl CoA Desaturase as a Target for Parkinson Treatment.

Authors:  Saranna Fanning; Aftabul Haque; Thibaut Imberdis; Valeriya Baru; M Inmaculada Barrasa; Silke Nuber; Daniel Termine; Nagendran Ramalingam; Gary P H Ho; Tallie Noble; Jackson Sandoe; Yali Lou; Dirk Landgraf; Yelena Freyzon; Gregory Newby; Frank Soldner; Elizabeth Terry-Kantor; Tae-Eun Kim; Harald F Hofbauer; Michel Becuwe; Rudolf Jaenisch; David Pincus; Clary B Clish; Tobias C Walther; Robert V Farese; Supriya Srinivasan; Michael A Welte; Sepp D Kohlwein; Ulf Dettmer; Susan Lindquist; Dennis Selkoe
Journal:  Mol Cell       Date:  2018-12-04       Impact factor: 17.970

6.  APOE4 disrupts intracellular lipid homeostasis in human iPSC-derived glia.

Authors:  Grzegorz Sienski; Priyanka Narayan; Julia Maeve Bonner; Nora Kory; Sebastian Boland; Aleksandra A Arczewska; William T Ralvenius; Leyla Akay; Elana Lockshin; Liang He; Blerta Milo; Agnese Graziosi; Valeriya Baru; Caroline A Lewis; Manolis Kellis; David M Sabatini; Li-Huei Tsai; Susan Lindquist
Journal:  Sci Transl Med       Date:  2021-03-03       Impact factor: 17.956

7.  A genome-scale yeast library with inducible expression of individual genes.

Authors:  Yuko Arita; Griffin Kim; Zhijian Li; Helena Friesen; Gina Turco; Rebecca Y Wang; Dale Climie; Matej Usaj; Manuel Hotz; Emily H Stoops; Anastasia Baryshnikova; Charles Boone; David Botstein; Brenda J Andrews; R Scott McIsaac
Journal:  Mol Syst Biol       Date:  2021-06       Impact factor: 11.429

8.  Genetic circuit design automation for yeast.

Authors:  Ye Chen; Shuyi Zhang; Eric M Young; Timothy S Jones; Douglas Densmore; Christopher A Voigt
Journal:  Nat Microbiol       Date:  2020-08-03       Impact factor: 17.745

9.  A System for Gene Expression Noise Control in Yeast.

Authors:  Max Mundt; Alexander Anders; Seán M Murray; Victor Sourjik
Journal:  ACS Synth Biol       Date:  2018-10-24       Impact factor: 5.110

10.  Pulsatile inputs achieve tunable attenuation of gene expression variability and graded multi-gene regulation.

Authors:  Dirk Benzinger; Mustafa Khammash
Journal:  Nat Commun       Date:  2018-08-30       Impact factor: 14.919

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