Exploring conditional gene essentiality through systems genetics approaches in yeast

被引：10

作者：

Bosch-Guiteras, Nuria ^{[1
]}

van Leeuwen, Jolanda ^{[1
]}

机构：

[1] Univ Lausanne, Ctr Integrat Genom, Lausanne, Switzerland

来源：

CURRENT OPINION IN GENETICS & DEVELOPMENT | 2022年 / 76卷

基金：

瑞士国家科学基金会;

关键词：

GENOME; EXPLORATION;

D O I：

10.1016/j.gde.2022.101963

中图分类号：

Q2 [细胞生物学];

学科分类号：

071009 ; 090102 ;

摘要：

An essential gene encodes for a cellular function that is required for viability. Although viability is a straightforward phenotype to analyze in yeast, defining a gene as essential is not always trivial. Gene essentiality has generally been studied in specific laboratory strains and under standard growth conditions, however, essentiality can vary across species, strains, and environments. Recent systematic studies of gene essentiality revealed that two sets of essential genes exist: core essential genes that are always required for viability and conditional essential genes that vary in essentiality in different genetic and environmental contexts. Here, we review recent advances made in the systematic analysis of gene essentiality in yeast and discuss the properties that distinguish core from context-dependent essential genes.

引用

页数：7

共 52 条

[41] Highly parallel genome variant engineering with CRISPR-Cas9 [J].

Sadhu, Meru J. ;

Bloom, Joshua S. ;

Day, Laura ;

Siegel, Jake J. ;

Kosuri, Sriram ;

Kruglyak, Leonid .

NATURE GENETICS, 2018, 50 (04) :510-+

[42] Transposon insertional mutagenesis in Saccharomyces uvarum reveals trans-acting effects influencing species-dependent essential genes [J].

Sanchez, Monica R. ;

Payen, Celia ;

Cheong, Frances ;

Hovde, Blake T. ;

Bissonnette, Sarah ;

Arkin, Adam P. ;

Skerker, Jeffrey M. ;

Brem, Rachel B. ;

Caudy, Amy A. ;

Dunham, Maitreya J. .

GENOME RESEARCH, 2019, 29 (03) :396-406

[43] Exploration of the function and organization of the yeast early secretory pathway through an epistatic miniarray profile [J].

Schuldiner, M ;

Collins, SR ;

Thompson, NJ ;

Denic, V ;

Bhamidipati, A ;

Punna, T ;

Ihmels, J ;

Andrews, B ;

Boone, C ;

Greenblatt, JF ;

Weissman, JS ;

Krogan, NJ .

CELL, 2005, 123 (03) :507-519

[44] Validating genome-wide CRISPR-Cas9 function improves screening in the oleaginous yeast Yarrowia lipolytica [J].

Schwartz, Cory ;

Cheng, Jan-Fang ;

Evans, Robert ;

Schwartz, Christopher A. ;

Wagner, James M. ;

Anglin, Scott ;

Beitz, Adam ;

Pan, Weihua ;

Lonardi, Stefano ;

Blenner, Mark ;

Alper, Hal S. ;

Yoshikuni, Yasuo ;

Wheeldon, Ian .

METABOLIC ENGINEERING, 2019, 55 :102-110

[45]

Segal ES, 2018, MBIO, V9, DOI [10.1128/mBio.02048-18, 10.1128/mbio.02048-18]

[46] Quantitative CRISPR interference screens in yeast identify chemical-genetic interactions and new rules for guide RNA design [J].

Smith, Justin D. ;

Suresh, Sundari ;

Schlecht, Ulrich ;

Wu, Manhong ;

Wagih, Omar ;

Peltz, Gary ;

Davis, Ronald W. ;

Steinmetz, Lars M. ;

Parts, Leopold ;

St Onge, Robert P. .

GENOME BIOLOGY, 2016, 17

[47] Functional analysis of the genes of yeast chromosome V by genetic footprinting [J].

Smith, V ;

Chou, KN ;

Lashkari, D ;

Botstein, D ;

Brown, PO .

SCIENCE, 1996, 274 (5295) :2069-2074

[48] Identification of 15 New Bypassable Essential Genes of Fission Yeast [J].

Takeda, Aoi ;

Saitoh, Shigeaki ;

Ohkura, Hiroyuki ;

Sawin, Kenneth E. ;

Goshima, Gohta .

CELL STRUCTURE AND FUNCTION, 2019, 44 (02) :113-119

[49]

Van Leeuwen J, 2020, MOL SYST BIOL, V16, P1, DOI DOI 10.15252/msb.20209828

[50] Exploring genetic suppression interactions on a global scale [J].

van Leeuwen, Jolanda ;

Pons, Carles ;

Mellor, Joseph C. ;

Yamaguchi, Takafumi N. ;

Friesen, Helena ;

Koschwanez, John ;

Usaj, Mojca Mattiazzi ;

Pechlaner, Maria ;

Takar, Mehmet ;

Usaj, Matej ;

VanderSluis, Benjamin ;

Andrusiak, Kerry ;

Bansal, Pritpal ;

Baryshnikova, Anastasia ;

Boone, Claire E. ;

Cao, Jessica ;

Cote, Atina ;

Gebbia, Marinella ;

Horecka, Gene ;

Horecka, Ira ;

Kuzmin, Elena ;

Legro, Nicole ;

Liang, Wendy ;

van Lieshout, Natascha ;

McNee, Margaret ;

Luis, Bryan-Joseph San ;

Shaeri, Fatemeh ;

Shuteriqi, Ermira ;

Sun, Song ;

Yang, Lu ;

Youn, Ji-Young ;

Yuen, Michael ;

Costanzo, Michael ;

Gingras, Anne-Claude ;

Aloy, Patrick ;

Oostenbrink, Chris ;

Murray, Andrew ;

Graham, Todd R. ;

Myers, Chad L. ;

Andrews, Brenda J. ;

Roth, Frederick P. ;

Boone, Charles .

SCIENCE, 2016, 354 (6312)

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