Genetic diversity and population structure in a legacy collection of spring barley landraces adapted to a wide range of climates

Raj K Pasam, Rajiv Sharma, Alexander Walther, Hakan Özkan, Andreas Graner, Benjamin Kilian

Research output: Contribution to journalArticleResearchpeer-review

19 Citations (Scopus)

Abstract

Global environmental change and increasing human population emphasize the urgent need for higher yielding and better adapted crop plants. One strategy to achieve this aim is to exploit the wealth of so called landraces of crop species, representing diverse traditional domesticated populations of locally adapted genotypes. In this study, we investigated a comprehensive set of 1485 spring barley landraces (Lrc1485) adapted to a wide range of climates, which were selected from one of the largest genebanks worldwide. The landraces originated from 5° to 62.5° N and 16° to 71° E. The whole collection was genotyped using 42 SSR markers to assess the genetic diversity and population structure. With an average allelic richness of 5.74 and 372 alleles, Lrc1485 harbours considerably more genetic diversity than the most polymorphic current GWAS panel for barley. Ten major clusters defined most of the population structure based on geographical origin, row type of the ear and caryopsis type - and were assigned to specific climate zones. The legacy core reference set Lrc648 established in this study will provide a long-lasting resource and a very valuable tool for the scientific community. Lrc648 is best suited for multi-environmental field testing to identify candidate genes underlying quantitative traits but also for allele mining approaches.

Original languageEnglish
Article numbere116164
JournalPLoS ONE
Volume9
Issue number12
DOIs
Publication statusPrint publication - Dec 2014
Externally publishedYes

Fingerprint

spring barley
Hordeum
Climate
landraces
Crops
population structure
climate
genetic variation
Ports and harbors
Population
alleles
Genes
Alleles
crops
global change
quantitative traits
human population
ears
Genome-Wide Association Study
Testing

Keywords

  • Acclimatization
  • Alleles
  • Climate
  • Ecosystem
  • Genotype
  • Phenotype
  • Seasons
  • Temperature

Cite this

Pasam, Raj K ; Sharma, Rajiv ; Walther, Alexander ; Özkan, Hakan ; Graner, Andreas ; Kilian, Benjamin. / Genetic diversity and population structure in a legacy collection of spring barley landraces adapted to a wide range of climates. In: PLoS ONE. 2014 ; Vol. 9, No. 12.
@article{21614f076b1341e8815961e819d22c18,
title = "Genetic diversity and population structure in a legacy collection of spring barley landraces adapted to a wide range of climates",
abstract = "Global environmental change and increasing human population emphasize the urgent need for higher yielding and better adapted crop plants. One strategy to achieve this aim is to exploit the wealth of so called landraces of crop species, representing diverse traditional domesticated populations of locally adapted genotypes. In this study, we investigated a comprehensive set of 1485 spring barley landraces (Lrc1485) adapted to a wide range of climates, which were selected from one of the largest genebanks worldwide. The landraces originated from 5° to 62.5° N and 16° to 71° E. The whole collection was genotyped using 42 SSR markers to assess the genetic diversity and population structure. With an average allelic richness of 5.74 and 372 alleles, Lrc1485 harbours considerably more genetic diversity than the most polymorphic current GWAS panel for barley. Ten major clusters defined most of the population structure based on geographical origin, row type of the ear and caryopsis type - and were assigned to specific climate zones. The legacy core reference set Lrc648 established in this study will provide a long-lasting resource and a very valuable tool for the scientific community. Lrc648 is best suited for multi-environmental field testing to identify candidate genes underlying quantitative traits but also for allele mining approaches.",
keywords = "Acclimatization, Alleles, Climate, Ecosystem, Genotype, Phenotype, Seasons, Temperature",
author = "Pasam, {Raj K} and Rajiv Sharma and Alexander Walther and Hakan {\"O}zkan and Andreas Graner and Benjamin Kilian",
year = "2014",
month = "12",
doi = "10.1371/journal.pone.0116164",
language = "English",
volume = "9",
journal = "PLoS ONE",
issn = "1932-6203",
publisher = "Public Library of Science",
number = "12",

}

Genetic diversity and population structure in a legacy collection of spring barley landraces adapted to a wide range of climates. / Pasam, Raj K; Sharma, Rajiv; Walther, Alexander; Özkan, Hakan; Graner, Andreas; Kilian, Benjamin.

In: PLoS ONE, Vol. 9, No. 12, e116164, 12.2014.

Research output: Contribution to journalArticleResearchpeer-review

TY - JOUR

T1 - Genetic diversity and population structure in a legacy collection of spring barley landraces adapted to a wide range of climates

AU - Pasam, Raj K

AU - Sharma, Rajiv

AU - Walther, Alexander

AU - Özkan, Hakan

AU - Graner, Andreas

AU - Kilian, Benjamin

PY - 2014/12

Y1 - 2014/12

N2 - Global environmental change and increasing human population emphasize the urgent need for higher yielding and better adapted crop plants. One strategy to achieve this aim is to exploit the wealth of so called landraces of crop species, representing diverse traditional domesticated populations of locally adapted genotypes. In this study, we investigated a comprehensive set of 1485 spring barley landraces (Lrc1485) adapted to a wide range of climates, which were selected from one of the largest genebanks worldwide. The landraces originated from 5° to 62.5° N and 16° to 71° E. The whole collection was genotyped using 42 SSR markers to assess the genetic diversity and population structure. With an average allelic richness of 5.74 and 372 alleles, Lrc1485 harbours considerably more genetic diversity than the most polymorphic current GWAS panel for barley. Ten major clusters defined most of the population structure based on geographical origin, row type of the ear and caryopsis type - and were assigned to specific climate zones. The legacy core reference set Lrc648 established in this study will provide a long-lasting resource and a very valuable tool for the scientific community. Lrc648 is best suited for multi-environmental field testing to identify candidate genes underlying quantitative traits but also for allele mining approaches.

AB - Global environmental change and increasing human population emphasize the urgent need for higher yielding and better adapted crop plants. One strategy to achieve this aim is to exploit the wealth of so called landraces of crop species, representing diverse traditional domesticated populations of locally adapted genotypes. In this study, we investigated a comprehensive set of 1485 spring barley landraces (Lrc1485) adapted to a wide range of climates, which were selected from one of the largest genebanks worldwide. The landraces originated from 5° to 62.5° N and 16° to 71° E. The whole collection was genotyped using 42 SSR markers to assess the genetic diversity and population structure. With an average allelic richness of 5.74 and 372 alleles, Lrc1485 harbours considerably more genetic diversity than the most polymorphic current GWAS panel for barley. Ten major clusters defined most of the population structure based on geographical origin, row type of the ear and caryopsis type - and were assigned to specific climate zones. The legacy core reference set Lrc648 established in this study will provide a long-lasting resource and a very valuable tool for the scientific community. Lrc648 is best suited for multi-environmental field testing to identify candidate genes underlying quantitative traits but also for allele mining approaches.

KW - Acclimatization

KW - Alleles

KW - Climate

KW - Ecosystem

KW - Genotype

KW - Phenotype

KW - Seasons

KW - Temperature

U2 - 10.1371/journal.pone.0116164

DO - 10.1371/journal.pone.0116164

M3 - Article

VL - 9

JO - PLoS ONE

JF - PLoS ONE

SN - 1932-6203

IS - 12

M1 - e116164

ER -