Tournament ABC analysis of the western Palaearctic population history of an oak gall wasp, Synergus umbraculus

Graham N. Stone, Sarah C. White, G. Csóka, G. Melika, Serap Mutun, Z. Pénzes, S. Ebrahim Sadeghi, Karsten Schönrogge, Majid Tavakoli, James A. Nicholls

Research output: Article

6 Citations (Scopus)

Abstract

Approximate Bayesian computation (ABC) is a powerful and widely used approach in inference of population history. However, the computational effort required to discriminate among alternative historical scenarios often limits the set that is compared to those considered more likely a priori. While often justifiable, this approach will fail to consider unexpected but well-supported population histories. We used a hierarchical tournament approach, in which subsets of scenarios are compared in a first round of ABC analyses and the winners are compared in a second analysis, to reconstruct the population history of an oak gall wasp, Synergus umbraculus (Hymenoptera, Cynipidae) across the Western Palaearctic. We used 4,233 bp of sequence data across seven loci to explore the relationships between four putative Pleistocene refuge populations in Iberia, Italy, the Balkans and Western Asia. We compared support for 148 alternative scenarios in eight pools, each pool comprising all possible rearrangements of four populations over a given topology of relationships, with or without founding of one population by admixture and with or without an unsampled “ghost” population. We found very little support for the directional “out of the east” scenario previously inferred for other gall wasp community members. Instead, the best-supported models identified Iberia as the first-regional population to diverge from the others in the late Pleistocene, followed by divergence between the Balkans and Western Asia, and founding of the Italian population through late Pleistocene admixture from Iberia and the Balkans. We compare these results with what is known for other members of the oak gall community, and consider the strengths and weaknesses of using a tournament approach to explore phylogeographic model space.

Original languageEnglish
Pages (from-to)6685-6703
Number of pages19
JournalMolecular Ecology
Volume26
Issue number23
DOIs
Publication statusPublished - dec. 1 2017

Fingerprint

Cynipidae
Wasps
Bayes Theorem
Bayesian analysis
gall
Bayesian theory
wasp
Quercus
Pleistocene
history
Balkan Peninsula
Population
Balkans
Western Asia
Iberian Peninsula
refuge
topology
divergence
Space Simulation
oak

ASJC Scopus subject areas

  • Ecology, Evolution, Behavior and Systematics
  • Genetics

Cite this

Tournament ABC analysis of the western Palaearctic population history of an oak gall wasp, Synergus umbraculus. / Stone, Graham N.; White, Sarah C.; Csóka, G.; Melika, G.; Mutun, Serap; Pénzes, Z.; Sadeghi, S. Ebrahim; Schönrogge, Karsten; Tavakoli, Majid; Nicholls, James A.

In: Molecular Ecology, Vol. 26, No. 23, 01.12.2017, p. 6685-6703.

Research output: Article

Stone, GN, White, SC, Csóka, G, Melika, G, Mutun, S, Pénzes, Z, Sadeghi, SE, Schönrogge, K, Tavakoli, M & Nicholls, JA 2017, 'Tournament ABC analysis of the western Palaearctic population history of an oak gall wasp, Synergus umbraculus', Molecular Ecology, vol. 26, no. 23, pp. 6685-6703. https://doi.org/10.1111/mec.14372
Stone, Graham N. ; White, Sarah C. ; Csóka, G. ; Melika, G. ; Mutun, Serap ; Pénzes, Z. ; Sadeghi, S. Ebrahim ; Schönrogge, Karsten ; Tavakoli, Majid ; Nicholls, James A. / Tournament ABC analysis of the western Palaearctic population history of an oak gall wasp, Synergus umbraculus. In: Molecular Ecology. 2017 ; Vol. 26, No. 23. pp. 6685-6703.
@article{17b42268de28412aac81f31b270db0b6,
title = "Tournament ABC analysis of the western Palaearctic population history of an oak gall wasp, Synergus umbraculus",
abstract = "Approximate Bayesian computation (ABC) is a powerful and widely used approach in inference of population history. However, the computational effort required to discriminate among alternative historical scenarios often limits the set that is compared to those considered more likely a priori. While often justifiable, this approach will fail to consider unexpected but well-supported population histories. We used a hierarchical tournament approach, in which subsets of scenarios are compared in a first round of ABC analyses and the winners are compared in a second analysis, to reconstruct the population history of an oak gall wasp, Synergus umbraculus (Hymenoptera, Cynipidae) across the Western Palaearctic. We used 4,233 bp of sequence data across seven loci to explore the relationships between four putative Pleistocene refuge populations in Iberia, Italy, the Balkans and Western Asia. We compared support for 148 alternative scenarios in eight pools, each pool comprising all possible rearrangements of four populations over a given topology of relationships, with or without founding of one population by admixture and with or without an unsampled “ghost” population. We found very little support for the directional “out of the east” scenario previously inferred for other gall wasp community members. Instead, the best-supported models identified Iberia as the first-regional population to diverge from the others in the late Pleistocene, followed by divergence between the Balkans and Western Asia, and founding of the Italian population through late Pleistocene admixture from Iberia and the Balkans. We compare these results with what is known for other members of the oak gall community, and consider the strengths and weaknesses of using a tournament approach to explore phylogeographic model space.",
keywords = "approximate Bayesian Computation, Cynipidae, Hymenoptera, oak, phylogeography, western Palaearctic",
author = "Stone, {Graham N.} and White, {Sarah C.} and G. Cs{\'o}ka and G. Melika and Serap Mutun and Z. P{\'e}nzes and Sadeghi, {S. Ebrahim} and Karsten Sch{\"o}nrogge and Majid Tavakoli and Nicholls, {James A.}",
year = "2017",
month = "12",
day = "1",
doi = "10.1111/mec.14372",
language = "English",
volume = "26",
pages = "6685--6703",
journal = "Molecular Ecology",
issn = "0962-1083",
publisher = "Wiley-Blackwell",
number = "23",

}

TY - JOUR

T1 - Tournament ABC analysis of the western Palaearctic population history of an oak gall wasp, Synergus umbraculus

AU - Stone, Graham N.

AU - White, Sarah C.

AU - Csóka, G.

AU - Melika, G.

AU - Mutun, Serap

AU - Pénzes, Z.

AU - Sadeghi, S. Ebrahim

AU - Schönrogge, Karsten

AU - Tavakoli, Majid

AU - Nicholls, James A.

PY - 2017/12/1

Y1 - 2017/12/1

N2 - Approximate Bayesian computation (ABC) is a powerful and widely used approach in inference of population history. However, the computational effort required to discriminate among alternative historical scenarios often limits the set that is compared to those considered more likely a priori. While often justifiable, this approach will fail to consider unexpected but well-supported population histories. We used a hierarchical tournament approach, in which subsets of scenarios are compared in a first round of ABC analyses and the winners are compared in a second analysis, to reconstruct the population history of an oak gall wasp, Synergus umbraculus (Hymenoptera, Cynipidae) across the Western Palaearctic. We used 4,233 bp of sequence data across seven loci to explore the relationships between four putative Pleistocene refuge populations in Iberia, Italy, the Balkans and Western Asia. We compared support for 148 alternative scenarios in eight pools, each pool comprising all possible rearrangements of four populations over a given topology of relationships, with or without founding of one population by admixture and with or without an unsampled “ghost” population. We found very little support for the directional “out of the east” scenario previously inferred for other gall wasp community members. Instead, the best-supported models identified Iberia as the first-regional population to diverge from the others in the late Pleistocene, followed by divergence between the Balkans and Western Asia, and founding of the Italian population through late Pleistocene admixture from Iberia and the Balkans. We compare these results with what is known for other members of the oak gall community, and consider the strengths and weaknesses of using a tournament approach to explore phylogeographic model space.

AB - Approximate Bayesian computation (ABC) is a powerful and widely used approach in inference of population history. However, the computational effort required to discriminate among alternative historical scenarios often limits the set that is compared to those considered more likely a priori. While often justifiable, this approach will fail to consider unexpected but well-supported population histories. We used a hierarchical tournament approach, in which subsets of scenarios are compared in a first round of ABC analyses and the winners are compared in a second analysis, to reconstruct the population history of an oak gall wasp, Synergus umbraculus (Hymenoptera, Cynipidae) across the Western Palaearctic. We used 4,233 bp of sequence data across seven loci to explore the relationships between four putative Pleistocene refuge populations in Iberia, Italy, the Balkans and Western Asia. We compared support for 148 alternative scenarios in eight pools, each pool comprising all possible rearrangements of four populations over a given topology of relationships, with or without founding of one population by admixture and with or without an unsampled “ghost” population. We found very little support for the directional “out of the east” scenario previously inferred for other gall wasp community members. Instead, the best-supported models identified Iberia as the first-regional population to diverge from the others in the late Pleistocene, followed by divergence between the Balkans and Western Asia, and founding of the Italian population through late Pleistocene admixture from Iberia and the Balkans. We compare these results with what is known for other members of the oak gall community, and consider the strengths and weaknesses of using a tournament approach to explore phylogeographic model space.

KW - approximate Bayesian Computation

KW - Cynipidae

KW - Hymenoptera

KW - oak

KW - phylogeography

KW - western Palaearctic

UR - http://www.scopus.com/inward/record.url?scp=85034256825&partnerID=8YFLogxK

UR - http://www.scopus.com/inward/citedby.url?scp=85034256825&partnerID=8YFLogxK

U2 - 10.1111/mec.14372

DO - 10.1111/mec.14372

M3 - Article

C2 - 28980401

AN - SCOPUS:85034256825

VL - 26

SP - 6685

EP - 6703

JO - Molecular Ecology

JF - Molecular Ecology

SN - 0962-1083

IS - 23

ER -