Literature DB >> 29033457

Emerging and evolving concepts in gene essentiality.

Giulia Rancati1, Jason Moffat2,3, Athanasios Typas4, Norman Pavelka5.   

Abstract

Gene essentiality is a founding concept of genetics with important implications in both fundamental and applied research. Multiple screens have been performed over the years in bacteria, yeasts, animals and more recently in human cells to identify essential genes. A mounting body of evidence suggests that gene essentiality, rather than being a static and binary property, is both context dependent and evolvable in all kingdoms of life. This concept of a non-absolute nature of gene essentiality changes our fundamental understanding of essential biological processes and could directly affect future treatment strategies for cancer and infectious diseases.

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Year:  2017        PMID: 29033457     DOI: 10.1038/nrg.2017.74

Source DB:  PubMed          Journal:  Nat Rev Genet        ISSN: 1471-0056            Impact factor:   53.242


  204 in total

1.  The DNA of a nation.

Authors:  Vivien Marx
Journal:  Nature       Date:  2015-08-27       Impact factor: 49.962

2.  The chemical genomic portrait of yeast: uncovering a phenotype for all genes.

Authors:  Maureen E Hillenmeyer; Eula Fung; Jan Wildenhain; Sarah E Pierce; Shawn Hoon; William Lee; Michael Proctor; Robert P St Onge; Mike Tyers; Daphne Koller; Russ B Altman; Ronald W Davis; Corey Nislow; Guri Giaever
Journal:  Science       Date:  2008-04-18       Impact factor: 47.728

3.  Bioinformatics analysis of experimentally determined protein complexes in the yeast Saccharomyces cerevisiae.

Authors:  Zoltán Dezso; Zoltán N Oltvai; Albert-László Barabási
Journal:  Genome Res       Date:  2003-10-14       Impact factor: 9.043

Review 4.  Life with 6000 genes.

Authors:  A Goffeau; B G Barrell; H Bussey; R W Davis; B Dujon; H Feldmann; F Galibert; J D Hoheisel; C Jacq; M Johnston; E J Louis; H W Mewes; Y Murakami; P Philippsen; H Tettelin; S G Oliver
Journal:  Science       Date:  1996-10-25       Impact factor: 47.728

5.  Measuring error rates in genomic perturbation screens: gold standards for human functional genomics.

Authors:  Traver Hart; Kevin R Brown; Fabrice Sircoulomb; Robert Rottapel; Jason Moffat
Journal:  Mol Syst Biol       Date:  2014-07-01       Impact factor: 11.429

6.  A global reference for human genetic variation.

Authors:  Adam Auton; Lisa D Brooks; Richard M Durbin; Erik P Garrison; Hyun Min Kang; Jan O Korbel; Jonathan L Marchini; Shane McCarthy; Gil A McVean; Gonçalo R Abecasis
Journal:  Nature       Date:  2015-10-01       Impact factor: 49.962

7.  An improved assembly and annotation of the allohexaploid wheat genome identifies complete families of agronomic genes and provides genomic evidence for chromosomal translocations.

Authors:  Bernardo J Clavijo; Luca Venturini; Christian Schudoma; Gonzalo Garcia Accinelli; Gemy Kaithakottil; Jonathan Wright; Philippa Borrill; George Kettleborough; Darren Heavens; Helen Chapman; James Lipscombe; Tom Barker; Fu-Hao Lu; Neil McKenzie; Dina Raats; Ricardo H Ramirez-Gonzalez; Aurore Coince; Ned Peel; Lawrence Percival-Alwyn; Owen Duncan; Josua Trösch; Guotai Yu; Dan M Bolser; Guy Namaati; Arnaud Kerhornou; Manuel Spannagl; Heidrun Gundlach; Georg Haberer; Robert P Davey; Christine Fosker; Federica Di Palma; Andrew L Phillips; A Harvey Millar; Paul J Kersey; Cristobal Uauy; Ksenia V Krasileva; David Swarbreck; Michael W Bevan; Matthew D Clark
Journal:  Genome Res       Date:  2017-05       Impact factor: 9.043

8.  The 'obligate diploid' Candida albicans forms mating-competent haploids.

Authors:  Meleah A Hickman; Guisheng Zeng; Anja Forche; Matthew P Hirakawa; Darren Abbey; Benjamin D Harrison; Yan-Ming Wang; Ching-hua Su; Richard J Bennett; Yue Wang; Judith Berman
Journal:  Nature       Date:  2013-01-30       Impact factor: 49.962

9.  Geptop: a gene essentiality prediction tool for sequenced bacterial genomes based on orthology and phylogeny.

Authors:  Wen Wei; Lu-Wen Ning; Yuan-Nong Ye; Feng-Biao Guo
Journal:  PLoS One       Date:  2013-08-15       Impact factor: 3.240

10.  Evolutionary rescue by compensatory mutations is constrained by genomic and environmental backgrounds.

Authors:  Marie Filteau; Véronique Hamel; Marie-Christine Pouliot; Isabelle Gagnon-Arsenault; Alexandre K Dubé; Christian R Landry
Journal:  Mol Syst Biol       Date:  2015-10-12       Impact factor: 11.429

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  74 in total

1.  Regulostat Inferelator: a novel network biology platform to uncover molecular devices that predetermine cellular response phenotypes.

Authors:  Choong Yong Ung; Mehrab Ghanat Bari; Cheng Zhang; Jingjing Liang; Cristina Correia; Hu Li
Journal:  Nucleic Acids Res       Date:  2019-08-22       Impact factor: 16.971

Review 2.  Genetic interaction networks in cancer cells.

Authors:  Barbara Mair; Jason Moffat; Charles Boone; Brenda J Andrews
Journal:  Curr Opin Genet Dev       Date:  2019-04-08       Impact factor: 5.578

Review 3.  Growing Ungrowable Bacteria: Overview and Perspectives on Insect Symbiont Culturability.

Authors:  Florent Masson; Bruno Lemaitre
Journal:  Microbiol Mol Biol Rev       Date:  2020-11-11       Impact factor: 11.056

4.  The impact of genetic diversity on gene essentiality within the Escherichia coli species.

Authors:  François Rousset; Jose Cabezas-Caballero; Florence Piastra-Facon; Jesús Fernández-Rodríguez; Olivier Clermont; Erick Denamur; Eduardo P C Rocha; David Bikard
Journal:  Nat Microbiol       Date:  2021-01-18       Impact factor: 17.745

Review 5.  Global Genetic Networks and the Genotype-to-Phenotype Relationship.

Authors:  Michael Costanzo; Elena Kuzmin; Jolanda van Leeuwen; Barbara Mair; Jason Moffat; Charles Boone; Brenda Andrews
Journal:  Cell       Date:  2019-03-21       Impact factor: 41.582

6.  Elucidating Essential Genes in Plant-Associated Pseudomonas protegens Pf-5 Using Transposon Insertion Sequencing.

Authors:  Belinda K Fabian; Christie Foster; Amy J Asher; Liam D H Elbourne; Amy K Cain; Karl A Hassan; Sasha G Tetu; Ian T Paulsen
Journal:  J Bacteriol       Date:  2021-03-08       Impact factor: 3.490

7.  Mismatch-CRISPRi Reveals the Co-varying Expression-Fitness Relationships of Essential Genes in Escherichia coli and Bacillus subtilis.

Authors:  John S Hawkins; Melanie R Silvis; Byoung-Mo Koo; Jason M Peters; Hendrik Osadnik; Marco Jost; Cameron C Hearne; Jonathan S Weissman; Horia Todor; Carol A Gross
Journal:  Cell Syst       Date:  2020-10-19       Impact factor: 10.304

8.  In vivo and in vitro human gene essentiality estimations capture contrasting functional constraints.

Authors:  Jose Luis Caldu-Primo; Jorge Armando Verduzco-Martínez; Elena R Alvarez-Buylla; Jose Davila-Velderrain
Journal:  NAR Genom Bioinform       Date:  2021-07-13

9.  Time-resolved mapping of genetic interactions to model rewiring of signaling pathways.

Authors:  Florian Heigwer; Christian Scheeder; Thilo Miersch; Barbara Schmitt; Claudia Blass; Mischan Vali Pour Jamnani; Michael Boutros
Journal:  Elife       Date:  2018-12-28       Impact factor: 8.140

10.  Gfi1aa and Gfi1b set the pace for primitive erythroblast differentiation from hemangioblasts in the zebrafish embryo.

Authors:  Chris Moore; Joanna L Richens; Yasmin Hough; Deniz Ucanok; Sunir Malla; Fei Sang; Yan Chen; Stone Elworthy; Robert N Wilkinson; Martin Gering
Journal:  Blood Adv       Date:  2018-10-23
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