Cargando…
Systematic analysis of bypass suppression of essential genes
Essential genes tend to be highly conserved across eukaryotes, but, in some cases, their critical roles can be bypassed through genetic rewiring. From a systematic analysis of 728 different essential yeast genes, we discovered that 124 (17%) were dispensable essential genes. Through whole‐genome seq...
Autores principales: | , , , , , , , , , , , , , , , , , , |
---|---|
Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
John Wiley and Sons Inc.
2020
|
Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7507402/ https://www.ncbi.nlm.nih.gov/pubmed/32939983 http://dx.doi.org/10.15252/msb.20209828 |
_version_ | 1783585220644044800 |
---|---|
author | van Leeuwen, Jolanda Pons, Carles Tan, Guihong Wang, Jason Zi Hou, Jing Weile, Jochen Gebbia, Marinella Liang, Wendy Shuteriqi, Ermira Li, Zhijian Lopes, Maykel Ušaj, Matej Dos Santos Lopes, Andreia van Lieshout, Natascha Myers, Chad L Roth, Frederick P Aloy, Patrick Andrews, Brenda J Boone, Charles |
author_facet | van Leeuwen, Jolanda Pons, Carles Tan, Guihong Wang, Jason Zi Hou, Jing Weile, Jochen Gebbia, Marinella Liang, Wendy Shuteriqi, Ermira Li, Zhijian Lopes, Maykel Ušaj, Matej Dos Santos Lopes, Andreia van Lieshout, Natascha Myers, Chad L Roth, Frederick P Aloy, Patrick Andrews, Brenda J Boone, Charles |
author_sort | van Leeuwen, Jolanda |
collection | PubMed |
description | Essential genes tend to be highly conserved across eukaryotes, but, in some cases, their critical roles can be bypassed through genetic rewiring. From a systematic analysis of 728 different essential yeast genes, we discovered that 124 (17%) were dispensable essential genes. Through whole‐genome sequencing and detailed genetic analysis, we investigated the genetic interactions and genome alterations underlying bypass suppression. Dispensable essential genes often had paralogs, were enriched for genes encoding membrane‐associated proteins, and were depleted for members of protein complexes. Functionally related genes frequently drove the bypass suppression interactions. These gene properties were predictive of essential gene dispensability and of specific suppressors among hundreds of genes on aneuploid chromosomes. Our findings identify yeast's core essential gene set and reveal that the properties of dispensable essential genes are conserved from yeast to human cells, correlating with human genes that display cell line‐specific essentiality in the Cancer Dependency Map (DepMap) project. |
format | Online Article Text |
id | pubmed-7507402 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2020 |
publisher | John Wiley and Sons Inc. |
record_format | MEDLINE/PubMed |
spelling | pubmed-75074022020-09-28 Systematic analysis of bypass suppression of essential genes van Leeuwen, Jolanda Pons, Carles Tan, Guihong Wang, Jason Zi Hou, Jing Weile, Jochen Gebbia, Marinella Liang, Wendy Shuteriqi, Ermira Li, Zhijian Lopes, Maykel Ušaj, Matej Dos Santos Lopes, Andreia van Lieshout, Natascha Myers, Chad L Roth, Frederick P Aloy, Patrick Andrews, Brenda J Boone, Charles Mol Syst Biol Articles Essential genes tend to be highly conserved across eukaryotes, but, in some cases, their critical roles can be bypassed through genetic rewiring. From a systematic analysis of 728 different essential yeast genes, we discovered that 124 (17%) were dispensable essential genes. Through whole‐genome sequencing and detailed genetic analysis, we investigated the genetic interactions and genome alterations underlying bypass suppression. Dispensable essential genes often had paralogs, were enriched for genes encoding membrane‐associated proteins, and were depleted for members of protein complexes. Functionally related genes frequently drove the bypass suppression interactions. These gene properties were predictive of essential gene dispensability and of specific suppressors among hundreds of genes on aneuploid chromosomes. Our findings identify yeast's core essential gene set and reveal that the properties of dispensable essential genes are conserved from yeast to human cells, correlating with human genes that display cell line‐specific essentiality in the Cancer Dependency Map (DepMap) project. John Wiley and Sons Inc. 2020-09-17 /pmc/articles/PMC7507402/ /pubmed/32939983 http://dx.doi.org/10.15252/msb.20209828 Text en © 2020 The Authors. Published under the terms of the CC BY 4.0 license This is an open access article under the terms of the http://creativecommons.org/licenses/by/4.0/ License, which permits use, distribution and reproduction in any medium, provided the original work is properly cited. |
spellingShingle | Articles van Leeuwen, Jolanda Pons, Carles Tan, Guihong Wang, Jason Zi Hou, Jing Weile, Jochen Gebbia, Marinella Liang, Wendy Shuteriqi, Ermira Li, Zhijian Lopes, Maykel Ušaj, Matej Dos Santos Lopes, Andreia van Lieshout, Natascha Myers, Chad L Roth, Frederick P Aloy, Patrick Andrews, Brenda J Boone, Charles Systematic analysis of bypass suppression of essential genes |
title | Systematic analysis of bypass suppression of essential genes |
title_full | Systematic analysis of bypass suppression of essential genes |
title_fullStr | Systematic analysis of bypass suppression of essential genes |
title_full_unstemmed | Systematic analysis of bypass suppression of essential genes |
title_short | Systematic analysis of bypass suppression of essential genes |
title_sort | systematic analysis of bypass suppression of essential genes |
topic | Articles |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7507402/ https://www.ncbi.nlm.nih.gov/pubmed/32939983 http://dx.doi.org/10.15252/msb.20209828 |
work_keys_str_mv | AT vanleeuwenjolanda systematicanalysisofbypasssuppressionofessentialgenes AT ponscarles systematicanalysisofbypasssuppressionofessentialgenes AT tanguihong systematicanalysisofbypasssuppressionofessentialgenes AT wangjasonzi systematicanalysisofbypasssuppressionofessentialgenes AT houjing systematicanalysisofbypasssuppressionofessentialgenes AT weilejochen systematicanalysisofbypasssuppressionofessentialgenes AT gebbiamarinella systematicanalysisofbypasssuppressionofessentialgenes AT liangwendy systematicanalysisofbypasssuppressionofessentialgenes AT shuteriqiermira systematicanalysisofbypasssuppressionofessentialgenes AT lizhijian systematicanalysisofbypasssuppressionofessentialgenes AT lopesmaykel systematicanalysisofbypasssuppressionofessentialgenes AT usajmatej systematicanalysisofbypasssuppressionofessentialgenes AT dossantoslopesandreia systematicanalysisofbypasssuppressionofessentialgenes AT vanlieshoutnatascha systematicanalysisofbypasssuppressionofessentialgenes AT myerschadl systematicanalysisofbypasssuppressionofessentialgenes AT rothfrederickp systematicanalysisofbypasssuppressionofessentialgenes AT aloypatrick systematicanalysisofbypasssuppressionofessentialgenes AT andrewsbrendaj systematicanalysisofbypasssuppressionofessentialgenes AT boonecharles systematicanalysisofbypasssuppressionofessentialgenes |