Literature DB >> 29903533

Genetic Network Complexity Shapes Background-Dependent Phenotypic Expression.

Jing Hou1, Jolanda van Leeuwen2, Brenda J Andrews3, Charles Boone4.   

Abstract

The phenotypic consequences of a given mutation can vary across individuals. This so-called background effect is widely observed, from mutant fitness of loss-of-function variants in model organisms to variable disease penetrance and expressivity in humans; however, the underlying genetic basis often remains unclear. Taking insights gained from recent large-scale surveys of genetic interaction and suppression analyses in yeast, we propose that the genetic network context for a given mutation may shape its propensity of exhibiting background-dependent phenotypes. We argue that further efforts in systematically mapping the genetic interaction networks beyond yeast will provide not only key insights into the functional properties of genes, but also a better understanding of the background effects and the (un)predictability of traits in a broader context.
Copyright © 2018 Elsevier Ltd. All rights reserved.

Entities:  

Keywords:  background effect; conditional gene essentiality; genetic interaction; variable phenotypic expression

Mesh:

Year:  2018        PMID: 29903533      PMCID: PMC6085889          DOI: 10.1016/j.tig.2018.05.006

Source DB:  PubMed          Journal:  Trends Genet        ISSN: 0168-9525            Impact factor:   11.639


  49 in total

1.  Gene Essentiality Is a Quantitative Property Linked to Cellular Evolvability.

Authors:  Gaowen Liu; Mei Yun Jacy Yong; Marina Yurieva; Kandhadayar Gopalan Srinivasan; Jaron Liu; John Soon Yew Lim; Michael Poidinger; Graham Daniel Wright; Francesca Zolezzi; Hyungwon Choi; Norman Pavelka; Giulia Rancati
Journal:  Cell       Date:  2015-11-25       Impact factor: 41.582

2.  The Hidden Complexity of Mendelian Traits across Natural Yeast Populations.

Authors:  Jing Hou; Anastasie Sigwalt; Téo Fournier; David Pflieger; Jackson Peter; Jacky de Montigny; Maitreya J Dunham; Joseph Schacherer
Journal:  Cell Rep       Date:  2016-07-07       Impact factor: 9.423

3.  Natural Variation in Gene Expression Modulates the Severity of Mutant Phenotypes.

Authors:  Victoria Vu; Adrian J Verster; Michael Schertzberg; Tungalag Chuluunbaatar; Mark Spensley; Djina Pajkic; G Traver Hart; Jason Moffat; Andrew G Fraser
Journal:  Cell       Date:  2015-07-16       Impact factor: 41.582

Review 4.  Mendelian disorders and multifactorial traits: the big divide or one for all?

Authors:  Stylianos E Antonarakis; Aravinda Chakravarti; Jonathan C Cohen; John Hardy
Journal:  Nat Rev Genet       Date:  2010-05       Impact factor: 53.242

5.  Genotype to phenotype: a complex problem.

Authors:  Robin D Dowell; Owen Ryan; An Jansen; Doris Cheung; Sudeep Agarwala; Timothy Danford; Douglas A Bernstein; P Alexander Rolfe; Lawrence E Heisler; Brian Chin; Corey Nislow; Guri Giaever; Patrick C Phillips; Gerald R Fink; David K Gifford; Charles Boone
Journal:  Science       Date:  2010-04-23       Impact factor: 47.728

6.  The genetic landscape of a cell.

Authors:  Michael Costanzo; Anastasia Baryshnikova; Jeremy Bellay; Yungil Kim; Eric D Spear; Carolyn S Sevier; Huiming Ding; Judice L Y Koh; Kiana Toufighi; Sara Mostafavi; Jeany Prinz; Robert P St Onge; Benjamin VanderSluis; Taras Makhnevych; Franco J Vizeacoumar; Solmaz Alizadeh; Sondra Bahr; Renee L Brost; Yiqun Chen; Murat Cokol; Raamesh Deshpande; Zhijian Li; Zhen-Yuan Lin; Wendy Liang; Michaela Marback; Jadine Paw; Bryan-Joseph San Luis; Ermira Shuteriqi; Amy Hin Yan Tong; Nydia van Dyk; Iain M Wallace; Joseph A Whitney; Matthew T Weirauch; Guoqing Zhong; Hongwei Zhu; Walid A Houry; Michael Brudno; Sasan Ragibizadeh; Balázs Papp; Csaba Pál; Frederick P Roth; Guri Giaever; Corey Nislow; Olga G Troyanskaya; Howard Bussey; Gary D Bader; Anne-Claude Gingras; Quaid D Morris; Philip M Kim; Chris A Kaiser; Chad L Myers; Brenda J Andrews; Charles Boone
Journal:  Science       Date:  2010-01-22       Impact factor: 47.728

7.  Analysis of 589,306 genomes identifies individuals resilient to severe Mendelian childhood diseases.

Authors:  Rong Chen; Lisong Shi; Jörg Hakenberg; Brian Naughton; Pamela Sklar; Jianguo Zhang; Hanlin Zhou; Lifeng Tian; Om Prakash; Mathieu Lemire; Patrick Sleiman; Wei-Yi Cheng; Wanting Chen; Hardik Shah; Yulan Shen; Menachem Fromer; Larsson Omberg; Matthew A Deardorff; Elaine Zackai; Jason R Bobe; Elissa Levin; Thomas J Hudson; Leif Groop; Jun Wang; Hakon Hakonarson; Anne Wojcicki; George A Diaz; Lisa Edelmann; Eric E Schadt; Stephen H Friend
Journal:  Nat Biotechnol       Date:  2016-04-11       Impact factor: 54.908

8.  Genetic background and GxE interactions modulate the penetrance of a naturally occurring wing mutation in Drosophila melanogaster.

Authors:  Joseph Lachance; Lawrence Jung; John R True
Journal:  G3 (Bethesda)       Date:  2013-11-06       Impact factor: 3.154

9.  Genetic analysis of intestinal polyp development in Collaborative Cross mice carrying the Apc (Min/+) mutation.

Authors:  Alexandra Dorman; Daria Baer; Ian Tomlinson; Richard Mott; Fuad A Iraqi
Journal:  BMC Genet       Date:  2016-02-19       Impact factor: 2.797

10.  Mouse Genome Database (MGD)-2017: community knowledge resource for the laboratory mouse.

Authors:  Judith A Blake; Janan T Eppig; James A Kadin; Joel E Richardson; Cynthia L Smith; Carol J Bult
Journal:  Nucleic Acids Res       Date:  2016-11-28       Impact factor: 16.971

View more
  13 in total

1.  Response to Whiffin et al.

Authors:  Naisha Shah; Ying-Chen Claire Hou; Hung-Chun Yu; Rachana Sainger; C Thomas Caskey; J Craig Venter; Amalio Telenti
Journal:  Am J Hum Genet       Date:  2019-01-03       Impact factor: 11.025

2.  Bioinformatic Analysis of Gene Variants from Gastroschisis Recurrence Identifies Multiple Novel Pathogenetic Pathways: Implication for the Closure of the Ventral Body Wall.

Authors:  Víctor M Salinas-Torres; Hugo L Gallardo-Blanco; Rafael A Salinas-Torres; Ricardo M Cerda-Flores; José J Lugo-Trampe; Daniel Z Villarreal-Martínez; Laura E Martínez de Villarreal
Journal:  Int J Mol Sci       Date:  2019-05-09       Impact factor: 5.923

3.  SSD1 suppresses phenotypes induced by the lack of Elongator-dependent tRNA modifications.

Authors:  Fu Xu; Anders S Byström; Marcus J O Johansson
Journal:  PLoS Genet       Date:  2019-08-29       Impact factor: 5.917

4.  Genetic interaction networks mediate individual statin drug response in Saccharomyces cerevisiae.

Authors:  Bede P Busby; Eliatan Niktab; Christina A Roberts; Jeffrey P Sheridan; Namal V Coorey; Dinindu S Senanayake; Lisa M Connor; Andrew B Munkacsi; Paul H Atkinson
Journal:  NPJ Syst Biol Appl       Date:  2019-10-03

5.  Whole exome sequencing identifies multiple novel candidate genes in familial gastroschisis.

Authors:  Víctor M Salinas-Torres; Hugo L Gallardo-Blanco; Rafael A Salinas-Torres; Ricardo M Cerda-Flores; José J Lugo-Trampe; Daniel Z Villarreal-Martínez; Marisol Ibarra-Ramírez; Laura E Martínez de Villarreal
Journal:  Mol Genet Genomic Med       Date:  2020-03-12       Impact factor: 2.183

6.  Modifier Genes in Microcephaly: A Report on WDR62, CEP63, RAD50 and PCNT Variants Exacerbating Disease Caused by Biallelic Mutations of ASPM and CENPJ.

Authors:  Ehtisham Ul Haq Makhdoom; Syeda Seema Waseem; Maria Iqbal; Uzma Abdullah; Ghulam Hussain; Maria Asif; Birgit Budde; Wolfgang Höhne; Sigrid Tinschert; Saadia Maryam Saadi; Hammad Yousaf; Zafar Ali; Ambrin Fatima; Emrah Kaygusuz; Ayaz Khan; Muhammad Jameel; Sheraz Khan; Muhammad Tariq; Iram Anjum; Janine Altmüller; Holger Thiele; Stefan Höning; Shahid Mahmood Baig; Peter Nürnberg; Muhammad Sajid Hussain
Journal:  Genes (Basel)       Date:  2021-05-13       Impact factor: 4.096

7.  Natural variants suppress mutations in hundreds of essential genes.

Authors:  Leopold Parts; Amandine Batté; Maykel Lopes; Michael W Yuen; Meredith Laver; Bryan-Joseph San Luis; Jia-Xing Yue; Carles Pons; Elise Eray; Patrick Aloy; Gianni Liti; Jolanda van Leeuwen
Journal:  Mol Syst Biol       Date:  2021-05       Impact factor: 13.068

8.  Dynamic genetic architecture of yeast response to environmental perturbation shed light on origin of cryptic genetic variation.

Authors:  Yanjun Zan; Örjan Carlborg
Journal:  PLoS Genet       Date:  2020-05-11       Impact factor: 5.917

9.  The impact of the genetic background on gene deletion phenotypes in Saccharomyces cerevisiae.

Authors:  Marco Galardini; Bede P Busby; Cristina Vieitez; Alistair S Dunham; Athanasios Typas; Pedro Beltrao
Journal:  Mol Syst Biol       Date:  2019-12       Impact factor: 11.429

10.  Gene Essentiality Analyzed by In Vivo Transposon Mutagenesis and Machine Learning in a Stable Haploid Isolate of Candida albicans.

Authors:  Ella Shtifman Segal; Vladimir Gritsenko; Anton Levitan; Bhawna Yadav; Naama Dror; Jacob L Steenwyk; Yael Silberberg; Kevin Mielich; Antonis Rokas; Neil A R Gow; Reinhard Kunze; Roded Sharan; Judith Berman
Journal:  mBio       Date:  2018-10-30       Impact factor: 7.867

View more

北京卡尤迪生物科技股份有限公司 © 2022-2023.