Identifying Potentially Beneficial Genetic Mutations Associated with Monophyletic Selective Sweep and a Proof-of-Concept Study with Viral Genetic Data

ABSTRACT Genetic mutations play a central role in evolution. For a significantly beneficial mutation, a one-time mutation event suffices for the species to prosper and predominate through the process called “monophyletic selective sweep.” However, existing methods that rely on counting the number of...

Descripción completa

Guardado en:

Detalles Bibliográficos
Autor principal:	Yuki Furuse
Formato:	article
Lenguaje:	EN
Publicado:	American Society for Microbiology 2021
Materias:	evolution selective sweep genomes influenza ebolavirus SARS-CoV-2 Microbiology QR1-502
Acceso en línea:	https://doaj.org/article/a2fa2c3d8c144d20a2c6aaedafdd6e19
Etiquetas:	Agregar Etiqueta Sin Etiquetas, Sea el primero en etiquetar este registro!

id	oai:doaj.org-article:a2fa2c3d8c144d20a2c6aaedafdd6e19
record_format	dspace
spelling	oai:doaj.org-article:a2fa2c3d8c144d20a2c6aaedafdd6e192021-12-02T19:36:37ZIdentifying Potentially Beneficial Genetic Mutations Associated with Monophyletic Selective Sweep and a Proof-of-Concept Study with Viral Genetic Data10.1128/mSystems.01151-202379-5077https://doaj.org/article/a2fa2c3d8c144d20a2c6aaedafdd6e192021-02-01T00:00:00Zhttps://journals.asm.org/doi/10.1128/mSystems.01151-20https://doaj.org/toc/2379-5077ABSTRACT Genetic mutations play a central role in evolution. For a significantly beneficial mutation, a one-time mutation event suffices for the species to prosper and predominate through the process called “monophyletic selective sweep.” However, existing methods that rely on counting the number of mutation events to detect selection are unable to find such a mutation in selective sweep. We here introduce a method to detect mutations at the single amino acid/nucleotide level that could be responsible for monophyletic selective sweep evolution. The method identifies a genetic signature associated with selective sweep using the population genetic test statistic Tajima’s D. We applied the algorithm to ebolavirus, influenza A virus, and severe acute respiratory syndrome coronavirus 2 to identify known biologically significant mutations and unrecognized mutations associated with potential selective sweep. The method can detect beneficial mutations, possibly leading to discovery of previously unknown biological functions and mechanisms related to those mutations. IMPORTANCE In biology, research on evolution is important to understand the significance of genetic mutation. When there is a significantly beneficial mutation, a population of species with the mutation prospers and predominates, in a process called “selective sweep.” However, there are few methods that can find such a mutation causing selective sweep from genetic data. We here introduce a novel method to detect such mutations. Applying the method to the genomes of ebolavirus, influenza viruses, and the novel coronavirus, we detected known biologically significant mutations and identified mutations the importance of which is previously unrecognized. The method can deepen our understanding of molecular and evolutionary biology.Yuki FuruseAmerican Society for Microbiologyarticleevolutionselective sweepgenomesinfluenzaebolavirusSARS-CoV-2MicrobiologyQR1-502ENmSystems, Vol 6, Iss 1 (2021)
institution	DOAJ
collection	DOAJ
language	EN
topic	evolution selective sweep genomes influenza ebolavirus SARS-CoV-2 Microbiology QR1-502
spellingShingle	evolution selective sweep genomes influenza ebolavirus SARS-CoV-2 Microbiology QR1-502 Yuki Furuse Identifying Potentially Beneficial Genetic Mutations Associated with Monophyletic Selective Sweep and a Proof-of-Concept Study with Viral Genetic Data
description	ABSTRACT Genetic mutations play a central role in evolution. For a significantly beneficial mutation, a one-time mutation event suffices for the species to prosper and predominate through the process called “monophyletic selective sweep.” However, existing methods that rely on counting the number of mutation events to detect selection are unable to find such a mutation in selective sweep. We here introduce a method to detect mutations at the single amino acid/nucleotide level that could be responsible for monophyletic selective sweep evolution. The method identifies a genetic signature associated with selective sweep using the population genetic test statistic Tajima’s D. We applied the algorithm to ebolavirus, influenza A virus, and severe acute respiratory syndrome coronavirus 2 to identify known biologically significant mutations and unrecognized mutations associated with potential selective sweep. The method can detect beneficial mutations, possibly leading to discovery of previously unknown biological functions and mechanisms related to those mutations. IMPORTANCE In biology, research on evolution is important to understand the significance of genetic mutation. When there is a significantly beneficial mutation, a population of species with the mutation prospers and predominates, in a process called “selective sweep.” However, there are few methods that can find such a mutation causing selective sweep from genetic data. We here introduce a novel method to detect such mutations. Applying the method to the genomes of ebolavirus, influenza viruses, and the novel coronavirus, we detected known biologically significant mutations and identified mutations the importance of which is previously unrecognized. The method can deepen our understanding of molecular and evolutionary biology.
format	article
author	Yuki Furuse
author_facet	Yuki Furuse
author_sort	Yuki Furuse
title	Identifying Potentially Beneficial Genetic Mutations Associated with Monophyletic Selective Sweep and a Proof-of-Concept Study with Viral Genetic Data
title_short	Identifying Potentially Beneficial Genetic Mutations Associated with Monophyletic Selective Sweep and a Proof-of-Concept Study with Viral Genetic Data
title_full	Identifying Potentially Beneficial Genetic Mutations Associated with Monophyletic Selective Sweep and a Proof-of-Concept Study with Viral Genetic Data
title_fullStr	Identifying Potentially Beneficial Genetic Mutations Associated with Monophyletic Selective Sweep and a Proof-of-Concept Study with Viral Genetic Data
title_full_unstemmed	Identifying Potentially Beneficial Genetic Mutations Associated with Monophyletic Selective Sweep and a Proof-of-Concept Study with Viral Genetic Data
title_sort	identifying potentially beneficial genetic mutations associated with monophyletic selective sweep and a proof-of-concept study with viral genetic data
publisher	American Society for Microbiology
publishDate	2021
url	https://doaj.org/article/a2fa2c3d8c144d20a2c6aaedafdd6e19
work_keys_str_mv	AT yukifuruse identifyingpotentiallybeneficialgeneticmutationsassociatedwithmonophyleticselectivesweepandaproofofconceptstudywithviralgeneticdata
_version_	1718376397014040576

Identifying Potentially Beneficial Genetic Mutations Associated with Monophyletic Selective Sweep and a Proof-of-Concept Study with Viral Genetic Data

Ejemplares similares