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Application of Genomics to Understand Salt Tolerance in Lentil

Soil salinity is a major abiotic stress, limiting lentil productivity worldwide. Understanding the genetic basis of salt tolerance is vital to develop tolerant varieties. A diversity panel consisting of 276 lentil accessions was screened in a previous study through traditional and image-based approa...

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Autores principales: Dissanayake, Ruwani, Cogan, Noel O.I., Smith, Kevin F., Kaur, Sukhjiwan
Formato: Online Artículo Texto
Lenguaje:English
Publicado: MDPI 2021
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7996261/
https://www.ncbi.nlm.nih.gov/pubmed/33668850
http://dx.doi.org/10.3390/genes12030332
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author Dissanayake, Ruwani
Cogan, Noel O.I.
Smith, Kevin F.
Kaur, Sukhjiwan
author_facet Dissanayake, Ruwani
Cogan, Noel O.I.
Smith, Kevin F.
Kaur, Sukhjiwan
author_sort Dissanayake, Ruwani
collection PubMed
description Soil salinity is a major abiotic stress, limiting lentil productivity worldwide. Understanding the genetic basis of salt tolerance is vital to develop tolerant varieties. A diversity panel consisting of 276 lentil accessions was screened in a previous study through traditional and image-based approaches to quantify growth under salt stress. Genotyping was performed using two contrasting methods, targeted (tGBS) and transcriptome (GBS-t) genotyping-by-sequencing, to evaluate the most appropriate methodology. tGBS revealed the highest number of single-base variants (SNPs) (c. 56,349), and markers were more evenly distributed across the genome compared to GBS-t. A genome-wide association study (GWAS) was conducted using a mixed linear model. Significant marker-trait associations were observed on Chromosome 2 as well as Chromosome 4, and a range of candidate genes was identified from the reference genome, the most plausible being potassium transporters, which are known to be involved in salt tolerance in related species. Detailed mineral composition performed on salt-treated and control plant tissues revealed the salt tolerance mechanism in lentil, in which tolerant accessions do not transport Na(+) ions around the plant instead localize within the root tissues. The pedigree analysis identified two parental accessions that could have been the key sources of tolerance in this dataset.
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spelling pubmed-79962612021-03-27 Application of Genomics to Understand Salt Tolerance in Lentil Dissanayake, Ruwani Cogan, Noel O.I. Smith, Kevin F. Kaur, Sukhjiwan Genes (Basel) Article Soil salinity is a major abiotic stress, limiting lentil productivity worldwide. Understanding the genetic basis of salt tolerance is vital to develop tolerant varieties. A diversity panel consisting of 276 lentil accessions was screened in a previous study through traditional and image-based approaches to quantify growth under salt stress. Genotyping was performed using two contrasting methods, targeted (tGBS) and transcriptome (GBS-t) genotyping-by-sequencing, to evaluate the most appropriate methodology. tGBS revealed the highest number of single-base variants (SNPs) (c. 56,349), and markers were more evenly distributed across the genome compared to GBS-t. A genome-wide association study (GWAS) was conducted using a mixed linear model. Significant marker-trait associations were observed on Chromosome 2 as well as Chromosome 4, and a range of candidate genes was identified from the reference genome, the most plausible being potassium transporters, which are known to be involved in salt tolerance in related species. Detailed mineral composition performed on salt-treated and control plant tissues revealed the salt tolerance mechanism in lentil, in which tolerant accessions do not transport Na(+) ions around the plant instead localize within the root tissues. The pedigree analysis identified two parental accessions that could have been the key sources of tolerance in this dataset. MDPI 2021-02-25 /pmc/articles/PMC7996261/ /pubmed/33668850 http://dx.doi.org/10.3390/genes12030332 Text en © 2021 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 (http://creativecommons.org/licenses/by/4.0/ (https://creativecommons.org/licenses/by/4.0/) ).
spellingShingle Article
Dissanayake, Ruwani
Cogan, Noel O.I.
Smith, Kevin F.
Kaur, Sukhjiwan
Application of Genomics to Understand Salt Tolerance in Lentil
title Application of Genomics to Understand Salt Tolerance in Lentil
title_full Application of Genomics to Understand Salt Tolerance in Lentil
title_fullStr Application of Genomics to Understand Salt Tolerance in Lentil
title_full_unstemmed Application of Genomics to Understand Salt Tolerance in Lentil
title_short Application of Genomics to Understand Salt Tolerance in Lentil
title_sort application of genomics to understand salt tolerance in lentil
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7996261/
https://www.ncbi.nlm.nih.gov/pubmed/33668850
http://dx.doi.org/10.3390/genes12030332
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