Population-based resequencing reveals that the flowering time adaptation of cultivated barley originated east of the Fertile Crescent

Huw Jones, Fiona J Leigh, Ian Mackay, Mim A Bower, Lydia M J Smith, Michael P Charles, Glynis Jones, Martin K Jones, Terence A Brown, Wayne Powell

Research output: Contribution to journalArticle

138 Citations (Scopus)

Abstract

Gene resequencing and association analysis present new opportunities to study the evolution of adaptive traits in crop plants. Here we apply these tools to an extensive set of barley accessions to identify a component of the molecular basis of the flowering time adaptation, a trait critical to plant survival. Using an association-based study to relate variation in flowering time to sequence-based polymorphisms in the Ppd-H1 gene, we identify a causative polymorphism (SNP48) that accounts for the observed variation in barley flowering time. This polymorphism also shows latitude-dependent geographical distribution, consistent with the expected clinal variation in phenotype with the nonresponsive form predominating in the north. Networks, genealogies, and phylogenetic trees drawn for the Ppd-H1 haplotypes reveal population structure both in wild barley and in domesticated barley landraces. The spatial distribution of these population groups indicates that phylogeographical analysis of European landraces can provide information relevant to the Neolithic spread of barley cultivation and also has implications for the origins of domesticated barley, including those with the nonresponsive ppd-H1 phenotype. Haplotypes containing the nonresponsive version of SNP48 are present in wild barley accessions, indicating that the nonresponsive phenotype of European landraces originated in wild barley. The wild accessions whose nonresponsive haplotypes are most closely similar to those of landraces are found in Iran, within a region suggested as an area for domestication of barley east of the Fertile Crescent but which has previously been thought to have contributed relatively little to the diversity of European cultivars.

Original languageEnglish
Pages (from-to)2211-9
Number of pages9
JournalMolecular Biology and Evolution
Volume25
Issue number10
DOIs
Publication statusPrint publication - Oct 2008

Fingerprint

Hordeum
Population
Haplotypes
Phenotype
Genealogy and Heraldry
Iran
Genes

Keywords

  • Acclimatization/genetics
  • Flowers
  • Genes, Plant
  • Genetic Variation
  • Genome, Plant
  • Genotype
  • Haplotypes
  • Hordeum/genetics
  • Light
  • Microsatellite Repeats/genetics
  • Models, Genetic
  • Phenotype
  • Photoperiod
  • Polymorphism, Genetic
  • Sequence Analysis, DNA

Cite this

Jones, Huw ; Leigh, Fiona J ; Mackay, Ian ; Bower, Mim A ; Smith, Lydia M J ; Charles, Michael P ; Jones, Glynis ; Jones, Martin K ; Brown, Terence A ; Powell, Wayne. / Population-based resequencing reveals that the flowering time adaptation of cultivated barley originated east of the Fertile Crescent. In: Molecular Biology and Evolution. 2008 ; Vol. 25, No. 10. pp. 2211-9.
@article{4aa02510b27d4460bfb85414cff6a393,
title = "Population-based resequencing reveals that the flowering time adaptation of cultivated barley originated east of the Fertile Crescent",
abstract = "Gene resequencing and association analysis present new opportunities to study the evolution of adaptive traits in crop plants. Here we apply these tools to an extensive set of barley accessions to identify a component of the molecular basis of the flowering time adaptation, a trait critical to plant survival. Using an association-based study to relate variation in flowering time to sequence-based polymorphisms in the Ppd-H1 gene, we identify a causative polymorphism (SNP48) that accounts for the observed variation in barley flowering time. This polymorphism also shows latitude-dependent geographical distribution, consistent with the expected clinal variation in phenotype with the nonresponsive form predominating in the north. Networks, genealogies, and phylogenetic trees drawn for the Ppd-H1 haplotypes reveal population structure both in wild barley and in domesticated barley landraces. The spatial distribution of these population groups indicates that phylogeographical analysis of European landraces can provide information relevant to the Neolithic spread of barley cultivation and also has implications for the origins of domesticated barley, including those with the nonresponsive ppd-H1 phenotype. Haplotypes containing the nonresponsive version of SNP48 are present in wild barley accessions, indicating that the nonresponsive phenotype of European landraces originated in wild barley. The wild accessions whose nonresponsive haplotypes are most closely similar to those of landraces are found in Iran, within a region suggested as an area for domestication of barley east of the Fertile Crescent but which has previously been thought to have contributed relatively little to the diversity of European cultivars.",
keywords = "Acclimatization/genetics, Flowers, Genes, Plant, Genetic Variation, Genome, Plant, Genotype, Haplotypes, Hordeum/genetics, Light, Microsatellite Repeats/genetics, Models, Genetic, Phenotype, Photoperiod, Polymorphism, Genetic, Sequence Analysis, DNA",
author = "Huw Jones and Leigh, {Fiona J} and Ian Mackay and Bower, {Mim A} and Smith, {Lydia M J} and Charles, {Michael P} and Glynis Jones and Jones, {Martin K} and Brown, {Terence A} and Wayne Powell",
year = "2008",
month = "10",
doi = "10.1093/molbev/msn167",
language = "English",
volume = "25",
pages = "2211--9",
journal = "Molecular Biology and Evolution",
issn = "0737-4038",
publisher = "Oxford University Press",
number = "10",

}

Population-based resequencing reveals that the flowering time adaptation of cultivated barley originated east of the Fertile Crescent. / Jones, Huw; Leigh, Fiona J; Mackay, Ian; Bower, Mim A; Smith, Lydia M J; Charles, Michael P; Jones, Glynis; Jones, Martin K; Brown, Terence A; Powell, Wayne.

In: Molecular Biology and Evolution, Vol. 25, No. 10, 10.2008, p. 2211-9.

Research output: Contribution to journalArticle

TY - JOUR

T1 - Population-based resequencing reveals that the flowering time adaptation of cultivated barley originated east of the Fertile Crescent

AU - Jones, Huw

AU - Leigh, Fiona J

AU - Mackay, Ian

AU - Bower, Mim A

AU - Smith, Lydia M J

AU - Charles, Michael P

AU - Jones, Glynis

AU - Jones, Martin K

AU - Brown, Terence A

AU - Powell, Wayne

PY - 2008/10

Y1 - 2008/10

N2 - Gene resequencing and association analysis present new opportunities to study the evolution of adaptive traits in crop plants. Here we apply these tools to an extensive set of barley accessions to identify a component of the molecular basis of the flowering time adaptation, a trait critical to plant survival. Using an association-based study to relate variation in flowering time to sequence-based polymorphisms in the Ppd-H1 gene, we identify a causative polymorphism (SNP48) that accounts for the observed variation in barley flowering time. This polymorphism also shows latitude-dependent geographical distribution, consistent with the expected clinal variation in phenotype with the nonresponsive form predominating in the north. Networks, genealogies, and phylogenetic trees drawn for the Ppd-H1 haplotypes reveal population structure both in wild barley and in domesticated barley landraces. The spatial distribution of these population groups indicates that phylogeographical analysis of European landraces can provide information relevant to the Neolithic spread of barley cultivation and also has implications for the origins of domesticated barley, including those with the nonresponsive ppd-H1 phenotype. Haplotypes containing the nonresponsive version of SNP48 are present in wild barley accessions, indicating that the nonresponsive phenotype of European landraces originated in wild barley. The wild accessions whose nonresponsive haplotypes are most closely similar to those of landraces are found in Iran, within a region suggested as an area for domestication of barley east of the Fertile Crescent but which has previously been thought to have contributed relatively little to the diversity of European cultivars.

AB - Gene resequencing and association analysis present new opportunities to study the evolution of adaptive traits in crop plants. Here we apply these tools to an extensive set of barley accessions to identify a component of the molecular basis of the flowering time adaptation, a trait critical to plant survival. Using an association-based study to relate variation in flowering time to sequence-based polymorphisms in the Ppd-H1 gene, we identify a causative polymorphism (SNP48) that accounts for the observed variation in barley flowering time. This polymorphism also shows latitude-dependent geographical distribution, consistent with the expected clinal variation in phenotype with the nonresponsive form predominating in the north. Networks, genealogies, and phylogenetic trees drawn for the Ppd-H1 haplotypes reveal population structure both in wild barley and in domesticated barley landraces. The spatial distribution of these population groups indicates that phylogeographical analysis of European landraces can provide information relevant to the Neolithic spread of barley cultivation and also has implications for the origins of domesticated barley, including those with the nonresponsive ppd-H1 phenotype. Haplotypes containing the nonresponsive version of SNP48 are present in wild barley accessions, indicating that the nonresponsive phenotype of European landraces originated in wild barley. The wild accessions whose nonresponsive haplotypes are most closely similar to those of landraces are found in Iran, within a region suggested as an area for domestication of barley east of the Fertile Crescent but which has previously been thought to have contributed relatively little to the diversity of European cultivars.

KW - Acclimatization/genetics

KW - Flowers

KW - Genes, Plant

KW - Genetic Variation

KW - Genome, Plant

KW - Genotype

KW - Haplotypes

KW - Hordeum/genetics

KW - Light

KW - Microsatellite Repeats/genetics

KW - Models, Genetic

KW - Phenotype

KW - Photoperiod

KW - Polymorphism, Genetic

KW - Sequence Analysis, DNA

U2 - 10.1093/molbev/msn167

DO - 10.1093/molbev/msn167

M3 - Article

C2 - 18669581

VL - 25

SP - 2211

EP - 2219

JO - Molecular Biology and Evolution

JF - Molecular Biology and Evolution

SN - 0737-4038

IS - 10

ER -