Genome‐wide scans of selection highlight the impact of biotic and abiotic constraints in natural populations of the model grass Brachypodium distachyon
Abstract
Summary Grasses are essential plants for ecosystem functioning. Quantifying the selective pressures that act on natural variation in grass species is therefore essential regarding biodiversity maintenance. In this study, we investigate the selection pressures that act on two distinct populations of the grass model Brachypodium distachyon without prior knowledge about the traits under selection. We took advantage of whole‐genome sequencing data produced for 44 natural accessions of B. distachyon and used complementary genome‐wide selection scans ( GWSS ) methods to detect genomic regions under balancing and positive selection. We show that selection is shaping genetic diversity at multiple temporal and spatial scales in this species, and affects different genomic regions across the two populations. Gene ontology annotation of candidate genes reveals that pathogens may constitute important factors of positive and balancing selection in B. distachyon . We eventually cross‐validated our results with quantitative trait locus data available for leaf‐rust resistance in this species and demonstrate that, when paired with classical trait mapping, GWSS can help pinpointing candidate genes for further molecular validation. Thanks to a near base‐perfect reference genome and the large collection of freely available natural accessions collected across its natural range, B. distachyon appears as a prime system for studies inmore »
- Authors:
-
[4];
- New York University Abu Dhabi PO Box 129188 Saadiyat Island, Abu Dhabi United Arab Emirates
- Institute of Plant and Microbial Biology University of Zürich Zollikerstrasse 107 8008 Zürich Switzerland
- Genetic Diversity Centre ETH Zürich Universitätstrasse 16 Zurich Switzerland
- DOE Joint Genome Institute Walnut Creek CA 94598 USA
- Publication Date:
- Sponsoring Org.:
- USDOE
- OSTI Identifier:
- 1468356
- Grant/Contract Number:
- DE‐AC02‐05CH11231
- Resource Type:
- Publisher's Accepted Manuscript
- Journal Name:
- The Plant Journal
- Additional Journal Information:
- Journal Name: The Plant Journal Journal Volume: 96 Journal Issue: 2; Journal ID: ISSN 0960-7412
- Publisher:
- Wiley-Blackwell
- Country of Publication:
- United Kingdom
- Language:
- English
Citation Formats
Bourgeois, Yann, Stritt, Christoph, Walser, Jean‐Claude, Gordon, Sean P., Vogel, John P., and Roulin, Anne C. Genome‐wide scans of selection highlight the impact of biotic and abiotic constraints in natural populations of the model grass Brachypodium distachyon. United Kingdom: N. p., 2018.
Web. doi:10.1111/tpj.14042.
Bourgeois, Yann, Stritt, Christoph, Walser, Jean‐Claude, Gordon, Sean P., Vogel, John P., & Roulin, Anne C. Genome‐wide scans of selection highlight the impact of biotic and abiotic constraints in natural populations of the model grass Brachypodium distachyon. United Kingdom. https://doi.org/10.1111/tpj.14042
Bourgeois, Yann, Stritt, Christoph, Walser, Jean‐Claude, Gordon, Sean P., Vogel, John P., and Roulin, Anne C. Sat .
"Genome‐wide scans of selection highlight the impact of biotic and abiotic constraints in natural populations of the model grass Brachypodium distachyon". United Kingdom. https://doi.org/10.1111/tpj.14042.
@article{osti_1468356,
title = {Genome‐wide scans of selection highlight the impact of biotic and abiotic constraints in natural populations of the model grass Brachypodium distachyon},
author = {Bourgeois, Yann and Stritt, Christoph and Walser, Jean‐Claude and Gordon, Sean P. and Vogel, John P. and Roulin, Anne C.},
abstractNote = {Summary Grasses are essential plants for ecosystem functioning. Quantifying the selective pressures that act on natural variation in grass species is therefore essential regarding biodiversity maintenance. In this study, we investigate the selection pressures that act on two distinct populations of the grass model Brachypodium distachyon without prior knowledge about the traits under selection. We took advantage of whole‐genome sequencing data produced for 44 natural accessions of B. distachyon and used complementary genome‐wide selection scans ( GWSS ) methods to detect genomic regions under balancing and positive selection. We show that selection is shaping genetic diversity at multiple temporal and spatial scales in this species, and affects different genomic regions across the two populations. Gene ontology annotation of candidate genes reveals that pathogens may constitute important factors of positive and balancing selection in B. distachyon . We eventually cross‐validated our results with quantitative trait locus data available for leaf‐rust resistance in this species and demonstrate that, when paired with classical trait mapping, GWSS can help pinpointing candidate genes for further molecular validation. Thanks to a near base‐perfect reference genome and the large collection of freely available natural accessions collected across its natural range, B. distachyon appears as a prime system for studies in ecology, population genomics and evolutionary biology.},
doi = {10.1111/tpj.14042},
journal = {The Plant Journal},
number = 2,
volume = 96,
place = {United Kingdom},
year = {Sat Sep 01 00:00:00 EDT 2018},
month = {Sat Sep 01 00:00:00 EDT 2018}
}
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