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Pangenomics in Microbial and Crop Research: Progress, Applications, and Perspectives

Advances in sequencing technologies and bioinformatics tools have fueled a renewed interest in whole genome sequencing efforts in many organisms. The growing availability of multiple genome sequences has advanced our understanding of the within-species diversity, in the form of a pangenome. Pangenom...

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Autores principales: Aggarwal, Sumit Kumar, Singh, Alla, Choudhary, Mukesh, Kumar, Aundy, Rakshit, Sujay, Kumar, Pardeep, Bohra, Abhishek, Varshney, Rajeev K.
Formato: Online Artículo Texto
Lenguaje:English
Publicado: MDPI 2022
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9031676/
https://www.ncbi.nlm.nih.gov/pubmed/35456404
http://dx.doi.org/10.3390/genes13040598
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author Aggarwal, Sumit Kumar
Singh, Alla
Choudhary, Mukesh
Kumar, Aundy
Rakshit, Sujay
Kumar, Pardeep
Bohra, Abhishek
Varshney, Rajeev K.
author_facet Aggarwal, Sumit Kumar
Singh, Alla
Choudhary, Mukesh
Kumar, Aundy
Rakshit, Sujay
Kumar, Pardeep
Bohra, Abhishek
Varshney, Rajeev K.
author_sort Aggarwal, Sumit Kumar
collection PubMed
description Advances in sequencing technologies and bioinformatics tools have fueled a renewed interest in whole genome sequencing efforts in many organisms. The growing availability of multiple genome sequences has advanced our understanding of the within-species diversity, in the form of a pangenome. Pangenomics has opened new avenues for future research such as allowing dissection of complex molecular mechanisms and increased confidence in genome mapping. To comprehensively capture the genetic diversity for improving plant performance, the pangenome concept is further extended from species to genus level by the inclusion of wild species, constituting a super-pangenome. Characterization of pangenome has implications for both basic and applied research. The concept of pangenome has transformed the way biological questions are addressed. From understanding evolution and adaptation to elucidating host–pathogen interactions, finding novel genes or breeding targets to aid crop improvement to design effective vaccines for human prophylaxis, the increasing availability of the pangenome has revolutionized several aspects of biological research. The future availability of high-resolution pangenomes based on reference-level near-complete genome assemblies would greatly improve our ability to address complex biological problems.
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spelling pubmed-90316762022-04-23 Pangenomics in Microbial and Crop Research: Progress, Applications, and Perspectives Aggarwal, Sumit Kumar Singh, Alla Choudhary, Mukesh Kumar, Aundy Rakshit, Sujay Kumar, Pardeep Bohra, Abhishek Varshney, Rajeev K. Genes (Basel) Review Advances in sequencing technologies and bioinformatics tools have fueled a renewed interest in whole genome sequencing efforts in many organisms. The growing availability of multiple genome sequences has advanced our understanding of the within-species diversity, in the form of a pangenome. Pangenomics has opened new avenues for future research such as allowing dissection of complex molecular mechanisms and increased confidence in genome mapping. To comprehensively capture the genetic diversity for improving plant performance, the pangenome concept is further extended from species to genus level by the inclusion of wild species, constituting a super-pangenome. Characterization of pangenome has implications for both basic and applied research. The concept of pangenome has transformed the way biological questions are addressed. From understanding evolution and adaptation to elucidating host–pathogen interactions, finding novel genes or breeding targets to aid crop improvement to design effective vaccines for human prophylaxis, the increasing availability of the pangenome has revolutionized several aspects of biological research. The future availability of high-resolution pangenomes based on reference-level near-complete genome assemblies would greatly improve our ability to address complex biological problems. MDPI 2022-03-27 /pmc/articles/PMC9031676/ /pubmed/35456404 http://dx.doi.org/10.3390/genes13040598 Text en © 2022 by the authors. https://creativecommons.org/licenses/by/4.0/Licensee MDPI, Basel, Switzerland. This article is an open access article distributed under the terms and conditions of the Creative Commons Attribution (CC BY) license (https://creativecommons.org/licenses/by/4.0/).
spellingShingle Review
Aggarwal, Sumit Kumar
Singh, Alla
Choudhary, Mukesh
Kumar, Aundy
Rakshit, Sujay
Kumar, Pardeep
Bohra, Abhishek
Varshney, Rajeev K.
Pangenomics in Microbial and Crop Research: Progress, Applications, and Perspectives
title Pangenomics in Microbial and Crop Research: Progress, Applications, and Perspectives
title_full Pangenomics in Microbial and Crop Research: Progress, Applications, and Perspectives
title_fullStr Pangenomics in Microbial and Crop Research: Progress, Applications, and Perspectives
title_full_unstemmed Pangenomics in Microbial and Crop Research: Progress, Applications, and Perspectives
title_short Pangenomics in Microbial and Crop Research: Progress, Applications, and Perspectives
title_sort pangenomics in microbial and crop research: progress, applications, and perspectives
topic Review
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9031676/
https://www.ncbi.nlm.nih.gov/pubmed/35456404
http://dx.doi.org/10.3390/genes13040598
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