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Biomass traits and candidate genes for bioenergy revealed through association genetics in coppiced European Populus nigra (L.)

Biomass traits and candidate genes for bioenergy revealed through association genetics in coppiced European Populus nigra (L.)
Biomass traits and candidate genes for bioenergy revealed through association genetics in coppiced European Populus nigra (L.)
Background: Second generation (2G) bioenergy from lignocellulosic feedstocks has the potential to develop as a sustainable source of renewable energy; however, significant hurdles still remain for large-scale commercialisation. Populus is considered as a promising 2G feedstock and understanding the genetic basis of biomass yield and feedstock quality are a research priority in this model tree species.

Results: We report the first coppiced biomass study for 714 members of a wide population of European black poplar (Populus nigra L.), a native European tree, selected from 20 river populations ranging in latitude and longitude between 40.5 and 52.1°N and 1.0 and 16.4°E, respectively. When grown at a single site in southern UK, significant Site of Origin (SO) effects were seen for 14 of the 15 directly measured or derived traits including biomass yield, leaf area and stomatal index. There was significant correlation (p < 0.001) between biomass yield traits over 3 years of harvest which identified leaf size and cell production as strong predictors of biomass yield. A 12 K Illumina genotyping array (constructed from 10,331 SNPs in 14 QTL regions and 4648 genes) highlighted significant population genetic structure with pairwise FST showing strong differentiation (p < 0.001) between the Spanish and Italian subpopulations. Robust associations reaching genome-wide significance are reported for main stem height and cell number per leaf; two traits tightly linked to biomass yield. These genotyping and phenotypic data were also used to show the presence of significant isolation by distance (IBD) and isolation by adaption (IBA) within this population.

Conclusions: The three associations identified reaching genome-wide significance at p < 0.05 include a transcription factor; a putative stress response gene and a gene of unknown function. None of them have been previously linked to bioenergy yield; were shown to be differentially expressed in a panel of three selected genotypes from the collection and represent exciting, novel candidates for further study in a bioenergy tree native to Europe and Euro-Asia. A further 26 markers (22 genes) were found to reach putative significance and are also of interest for biomass yield, leaf area, epidermal cell expansion and stomatal patterning. This research on European P. nigra provides an important foundation for the development of commercial native trees for bioenergy and for advanced, molecular breeding in these species.
1-22
Allwright, Mike Robert
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Payne, Adrienne
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Emiliani, Giovanni
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Milner, Suzanne
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Viger, Maud
45efcf89-3181-49d9-a7c1-67b75f35fbbf
Rouse, Franchesca
fb797744-e943-4388-a27c-20358ced2e95
Keurentjes, Joost J.B.
6e3afba8-0d28-47a1-997a-1dd40bec2bb4
Bérard, Aurélie
63d36bb4-9d2f-424a-9826-523807922930
Wildhagen, Henning
ec35b6ca-3482-454a-9b02-7fb348c469dc
Faivre-Rampant, Patricia
17d5e00d-4791-4b65-ac16-78cb2eab9abe
Polle, Andrea
946cabe1-a593-46fe-8d99-54a0878beb8d
Morgante, Michele
f84ecbe7-98ba-4bd6-9278-94c77b867968
Taylor, Gail
f3851db9-d37c-4c36-8663-e5c2cb03e171
Allwright, Mike Robert
f6815c66-69b5-427b-b29d-c7e183cd91af
Payne, Adrienne
d85e20fe-ac1c-494a-beb9-74fc3d0c16e8
Emiliani, Giovanni
844a2efd-d012-4ac1-8859-1eee9417758c
Milner, Suzanne
a15abb03-301b-42c6-a2e8-e932828b83a6
Viger, Maud
45efcf89-3181-49d9-a7c1-67b75f35fbbf
Rouse, Franchesca
fb797744-e943-4388-a27c-20358ced2e95
Keurentjes, Joost J.B.
6e3afba8-0d28-47a1-997a-1dd40bec2bb4
Bérard, Aurélie
63d36bb4-9d2f-424a-9826-523807922930
Wildhagen, Henning
ec35b6ca-3482-454a-9b02-7fb348c469dc
Faivre-Rampant, Patricia
17d5e00d-4791-4b65-ac16-78cb2eab9abe
Polle, Andrea
946cabe1-a593-46fe-8d99-54a0878beb8d
Morgante, Michele
f84ecbe7-98ba-4bd6-9278-94c77b867968
Taylor, Gail
f3851db9-d37c-4c36-8663-e5c2cb03e171

Allwright, Mike Robert, Payne, Adrienne, Emiliani, Giovanni, Milner, Suzanne, Viger, Maud, Rouse, Franchesca, Keurentjes, Joost J.B., Bérard, Aurélie, Wildhagen, Henning, Faivre-Rampant, Patricia, Polle, Andrea, Morgante, Michele and Taylor, Gail (2016) Biomass traits and candidate genes for bioenergy revealed through association genetics in coppiced European Populus nigra (L.). Biotechnology for Biofuels, 9 (195), 1-22. (doi:10.1186/s13068-016-0603-1).

Record type: Article

Abstract

Background: Second generation (2G) bioenergy from lignocellulosic feedstocks has the potential to develop as a sustainable source of renewable energy; however, significant hurdles still remain for large-scale commercialisation. Populus is considered as a promising 2G feedstock and understanding the genetic basis of biomass yield and feedstock quality are a research priority in this model tree species.

Results: We report the first coppiced biomass study for 714 members of a wide population of European black poplar (Populus nigra L.), a native European tree, selected from 20 river populations ranging in latitude and longitude between 40.5 and 52.1°N and 1.0 and 16.4°E, respectively. When grown at a single site in southern UK, significant Site of Origin (SO) effects were seen for 14 of the 15 directly measured or derived traits including biomass yield, leaf area and stomatal index. There was significant correlation (p < 0.001) between biomass yield traits over 3 years of harvest which identified leaf size and cell production as strong predictors of biomass yield. A 12 K Illumina genotyping array (constructed from 10,331 SNPs in 14 QTL regions and 4648 genes) highlighted significant population genetic structure with pairwise FST showing strong differentiation (p < 0.001) between the Spanish and Italian subpopulations. Robust associations reaching genome-wide significance are reported for main stem height and cell number per leaf; two traits tightly linked to biomass yield. These genotyping and phenotypic data were also used to show the presence of significant isolation by distance (IBD) and isolation by adaption (IBA) within this population.

Conclusions: The three associations identified reaching genome-wide significance at p < 0.05 include a transcription factor; a putative stress response gene and a gene of unknown function. None of them have been previously linked to bioenergy yield; were shown to be differentially expressed in a panel of three selected genotypes from the collection and represent exciting, novel candidates for further study in a bioenergy tree native to Europe and Euro-Asia. A further 26 markers (22 genes) were found to reach putative significance and are also of interest for biomass yield, leaf area, epidermal cell expansion and stomatal patterning. This research on European P. nigra provides an important foundation for the development of commercial native trees for bioenergy and for advanced, molecular breeding in these species.

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Accepted/In Press date: 22 August 2016
e-pub ahead of print date: 8 September 2016
Published date: 8 September 2016
Organisations: Centre for Biological Sciences

Identifiers

Local EPrints ID: 404584
URI: https://eprints.soton.ac.uk/id/eprint/404584
PURE UUID: cce511d3-cc13-412e-bdc6-f44c746f284c
ORCID for Gail Taylor: ORCID iD orcid.org/0000-0001-8470-6390

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Date deposited: 11 Jan 2017 16:15
Last modified: 15 Aug 2019 00:50

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