Linkage mapping evidence for a syntenic QTL associated with flowering time in perennial C4 rhizomatous grasses Miscanthus and switchgrass

Elaine Jensen; Reza Shafiei; Xue Feng Ma; Desalegn D. Serba; Daniel P. Smith; Gancho T. Slavov; Paul Robson; Kerrie Farrar; Sian Thomas Jones; Timothy Swaller; Richard Flavell; John Clifton-Brown; Malay C. Saha; Iain Donnison

doi:10.1111/gcbb.12755

Linkage mapping evidence for a syntenic QTL associated with flowering time in perennial C₄ rhizomatous grasses Miscanthus and switchgrass

Elaine Jensen^*, Reza Shafiei, Xue Feng Ma, Desalegn D. Serba, Daniel P. Smith, Gancho T. Slavov, Paul Robson, Kerrie Farrar, Sian Thomas Jones, Timothy Swaller, Richard Flavell, John Clifton-Brown, Malay C. Saha, Iain Donnison

^*Corresponding author for this work

Department of Life Sciences

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Abstract

Flowering in perennial species is directed via complex signalling pathways that adjust to developmental regulations and environmental cues. Synchronized flowering in certain environments is a prerequisite to commercial seed production, and so the elucidation of the genetic architecture of flowering time in Miscanthus and switchgrass could aid breeding in these underdeveloped species. In this context, we assessed a mapping population in Miscanthus and two ecologically diverse switchgrass mapping populations over 3 years from planting. Multiple flowering time quantitative trait loci (QTL) were identified in both species. Remarkably, the most significant Miscanthus and switchgrass QTL proved to be syntenic, located on linkage groups 4 and 2, with logarithm of odds scores of 17.05 and 21.8 respectively. These QTL regions contained three flowering time transcription factors: Squamosa Promoter-binding protein-Like, MADS-box SEPELLATA2 and gibberellin-responsive bHLH137. The former is emerging as a key component of the age-related flowering time pathway.

Original language	English
Pages (from-to)	98-111
Number of pages	14
Journal	GCB Bioenergy
Volume	13
Issue number	1
Early online date	28 Oct 2020
DOIs	https://doi.org/10.1111/gcbb.12755
Publication status	Published - 10 Dec 2020

Keywords

bioenergy
floral transition conservation
heading date quantitative trait loci
Panicum virgatum
perennial biomass crop breeding

UN SDGs

This output contributes to the following UN Sustainable Development Goals (SDGs)

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10.1111/gcbb.12755Licence: CC BY

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Supplementary MaterialFinal published version, 980 KBLicence: CC BY

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Jensen, E., Shafiei, R., Ma, X. F., Serba, D. D., Smith, D. P., Slavov, G. T., Robson, P., Farrar, K., Thomas Jones, S., Swaller, T., Flavell, R., Clifton-Brown, J., Saha, M. C., & Donnison, I. (2020). Linkage mapping evidence for a syntenic QTL associated with flowering time in perennial C₄ rhizomatous grasses Miscanthus and switchgrass. GCB Bioenergy, 13(1), 98-111. https://doi.org/10.1111/gcbb.12755

@article{f7eac3addd944ff5903beb6a6e00dc89,

title = "Linkage mapping evidence for a syntenic QTL associated with flowering time in perennial C4 rhizomatous grasses Miscanthus and switchgrass",

abstract = "Flowering in perennial species is directed via complex signalling pathways that adjust to developmental regulations and environmental cues. Synchronized flowering in certain environments is a prerequisite to commercial seed production, and so the elucidation of the genetic architecture of flowering time in Miscanthus and switchgrass could aid breeding in these underdeveloped species. In this context, we assessed a mapping population in Miscanthus and two ecologically diverse switchgrass mapping populations over 3 years from planting. Multiple flowering time quantitative trait loci (QTL) were identified in both species. Remarkably, the most significant Miscanthus and switchgrass QTL proved to be syntenic, located on linkage groups 4 and 2, with logarithm of odds scores of 17.05 and 21.8 respectively. These QTL regions contained three flowering time transcription factors: Squamosa Promoter-binding protein-Like, MADS-box SEPELLATA2 and gibberellin-responsive bHLH137. The former is emerging as a key component of the age-related flowering time pathway.",

keywords = "bioenergy, floral transition conservation, heading date quantitative trait loci, Panicum virgatum, perennial biomass crop breeding",

author = "Elaine Jensen and Reza Shafiei and Ma, {Xue Feng} and Serba, {Desalegn D.} and Smith, {Daniel P.} and Slavov, {Gancho T.} and Paul Robson and Kerrie Farrar and {Thomas Jones}, Sian and Timothy Swaller and Richard Flavell and John Clifton-Brown and Saha, {Malay C.} and Iain Donnison",

note = "Funding Information: Dr. Karen Petersen supplied the genotype Mb111 from a selection made in 1988 from Danish collections created in 1983 by Dr. Poul Brander. Dr. Oene Dolstra supplied the Miscanthus genotype Mb121 from the BIOMIS population as part of the Department for Environment Food and Rural Affairs (Defra) funded United Kingdom–Netherlands collaborative project NF0426. This work was supported by the UK Biotechnology and Biological Sciences Research Council (grant numbers BBS/E/W/10963A01A, BB/E014933/1, BB/CSP1730/1, BB/K01711X/1) and Defra (grant number NF0426). CERES contribution was a part match funding for the GIANT LINK breeding project (LK0863) and the BBSRC Sustainable Bioenergy Centre program (BSBEC-BioMASS; http://www.bsbec-biomass.org.uk/; Grant BB/G016216/1). The switchgrass projects were partially funded by the Ceres, Inc. and the BioEnergy Science Center, a US Department of Energy Bioenergy Research Center supported by the Office of Biological and Environmental Research in the DOE Office of Science under Contract No. DE-AC02-05CH11231. The M. sinensis v7.1 and P. virgatum v1.0 genome reference data were produced by the US Department of Energy Joint Genome Institute http://phytozome.jgi.doe.gov/. We are grateful for access to the completed M. sinensis genome sequence before scientific publication according to the public service access provisions of the Ft. Lauderdale Accord. Funding Information: Dr. Karen Petersen supplied the genotype Mb111 from a selection made in 1988 from Danish collections created in 1983 by Dr. Poul Brander. Dr. Oene Dolstra supplied the genotype Mb121 from the BIOMIS population as part of the Department for Environment Food and Rural Affairs (Defra) funded United Kingdom–Netherlands collaborative project NF0426. This work was supported by the UK Biotechnology and Biological Sciences Research Council (grant numbers BBS/E/W/10963A01A, BB/E014933/1, BB/CSP1730/1, BB/K01711X/1) and Defra (grant number NF0426). CERES contribution was a part match funding for the GIANT LINK breeding project (LK0863) and the BBSRC Sustainable Bioenergy Centre program (BSBEC‐BioMASS; http://www.bsbec‐biomass.org.uk/ ; Grant BB/G016216/1). The switchgrass projects were partially funded by the Ceres, Inc. and the BioEnergy Science Center, a US Department of Energy Bioenergy Research Center supported by the Office of Biological and Environmental Research in the DOE Office of Science under Contract No. DE‐AC02‐05CH11231. The v7.1 and v1.0 genome reference data were produced by the US Department of Energy Joint Genome Institute http://phytozome.jgi.doe.gov/ . We are grateful for access to the completed genome sequence before scientific publication according to the public service access provisions of the Ft. Lauderdale Accord. Miscanthus M. sinensis P. virgatum M. sinensis Publisher Copyright: {\textcopyright} 2020 The Authors. GCB Bioenergy Published by John Wiley & Sons Ltd",

year = "2020",

month = dec,

day = "10",

doi = "10.1111/gcbb.12755",

language = "English",

volume = "13",

pages = "98--111",

journal = "GCB Bioenergy",

issn = "1757-1693",

publisher = "Wiley",

number = "1",

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Jensen, E, Shafiei, R, Ma, XF, Serba, DD, Smith, DP, Slavov, GT , Robson, P , Farrar, K , Thomas Jones, S, Swaller, T, Flavell, R, Clifton-Brown, J, Saha, MC & Donnison, I 2020, 'Linkage mapping evidence for a syntenic QTL associated with flowering time in perennial C₄ rhizomatous grasses Miscanthus and switchgrass', GCB Bioenergy, vol. 13, no. 1, pp. 98-111. https://doi.org/10.1111/gcbb.12755

TY - JOUR

T1 - Linkage mapping evidence for a syntenic QTL associated with flowering time in perennial C4 rhizomatous grasses Miscanthus and switchgrass

AU - Jensen, Elaine

AU - Shafiei, Reza

AU - Ma, Xue Feng

AU - Serba, Desalegn D.

AU - Smith, Daniel P.

AU - Slavov, Gancho T.

AU - Robson, Paul

AU - Farrar, Kerrie

AU - Thomas Jones, Sian

AU - Swaller, Timothy

AU - Flavell, Richard

AU - Clifton-Brown, John

AU - Saha, Malay C.

AU - Donnison, Iain

N1 - Funding Information: Dr. Karen Petersen supplied the genotype Mb111 from a selection made in 1988 from Danish collections created in 1983 by Dr. Poul Brander. Dr. Oene Dolstra supplied the Miscanthus genotype Mb121 from the BIOMIS population as part of the Department for Environment Food and Rural Affairs (Defra) funded United Kingdom–Netherlands collaborative project NF0426. This work was supported by the UK Biotechnology and Biological Sciences Research Council (grant numbers BBS/E/W/10963A01A, BB/E014933/1, BB/CSP1730/1, BB/K01711X/1) and Defra (grant number NF0426). CERES contribution was a part match funding for the GIANT LINK breeding project (LK0863) and the BBSRC Sustainable Bioenergy Centre program (BSBEC-BioMASS; http://www.bsbec-biomass.org.uk/; Grant BB/G016216/1). The switchgrass projects were partially funded by the Ceres, Inc. and the BioEnergy Science Center, a US Department of Energy Bioenergy Research Center supported by the Office of Biological and Environmental Research in the DOE Office of Science under Contract No. DE-AC02-05CH11231. The M. sinensis v7.1 and P. virgatum v1.0 genome reference data were produced by the US Department of Energy Joint Genome Institute http://phytozome.jgi.doe.gov/. We are grateful for access to the completed M. sinensis genome sequence before scientific publication according to the public service access provisions of the Ft. Lauderdale Accord. Funding Information: Dr. Karen Petersen supplied the genotype Mb111 from a selection made in 1988 from Danish collections created in 1983 by Dr. Poul Brander. Dr. Oene Dolstra supplied the genotype Mb121 from the BIOMIS population as part of the Department for Environment Food and Rural Affairs (Defra) funded United Kingdom–Netherlands collaborative project NF0426. This work was supported by the UK Biotechnology and Biological Sciences Research Council (grant numbers BBS/E/W/10963A01A, BB/E014933/1, BB/CSP1730/1, BB/K01711X/1) and Defra (grant number NF0426). CERES contribution was a part match funding for the GIANT LINK breeding project (LK0863) and the BBSRC Sustainable Bioenergy Centre program (BSBEC‐BioMASS; http://www.bsbec‐biomass.org.uk/ ; Grant BB/G016216/1). The switchgrass projects were partially funded by the Ceres, Inc. and the BioEnergy Science Center, a US Department of Energy Bioenergy Research Center supported by the Office of Biological and Environmental Research in the DOE Office of Science under Contract No. DE‐AC02‐05CH11231. The v7.1 and v1.0 genome reference data were produced by the US Department of Energy Joint Genome Institute http://phytozome.jgi.doe.gov/ . We are grateful for access to the completed genome sequence before scientific publication according to the public service access provisions of the Ft. Lauderdale Accord. Miscanthus M. sinensis P. virgatum M. sinensis Publisher Copyright: © 2020 The Authors. GCB Bioenergy Published by John Wiley & Sons Ltd

PY - 2020/12/10

Y1 - 2020/12/10

N2 - Flowering in perennial species is directed via complex signalling pathways that adjust to developmental regulations and environmental cues. Synchronized flowering in certain environments is a prerequisite to commercial seed production, and so the elucidation of the genetic architecture of flowering time in Miscanthus and switchgrass could aid breeding in these underdeveloped species. In this context, we assessed a mapping population in Miscanthus and two ecologically diverse switchgrass mapping populations over 3 years from planting. Multiple flowering time quantitative trait loci (QTL) were identified in both species. Remarkably, the most significant Miscanthus and switchgrass QTL proved to be syntenic, located on linkage groups 4 and 2, with logarithm of odds scores of 17.05 and 21.8 respectively. These QTL regions contained three flowering time transcription factors: Squamosa Promoter-binding protein-Like, MADS-box SEPELLATA2 and gibberellin-responsive bHLH137. The former is emerging as a key component of the age-related flowering time pathway.

AB - Flowering in perennial species is directed via complex signalling pathways that adjust to developmental regulations and environmental cues. Synchronized flowering in certain environments is a prerequisite to commercial seed production, and so the elucidation of the genetic architecture of flowering time in Miscanthus and switchgrass could aid breeding in these underdeveloped species. In this context, we assessed a mapping population in Miscanthus and two ecologically diverse switchgrass mapping populations over 3 years from planting. Multiple flowering time quantitative trait loci (QTL) were identified in both species. Remarkably, the most significant Miscanthus and switchgrass QTL proved to be syntenic, located on linkage groups 4 and 2, with logarithm of odds scores of 17.05 and 21.8 respectively. These QTL regions contained three flowering time transcription factors: Squamosa Promoter-binding protein-Like, MADS-box SEPELLATA2 and gibberellin-responsive bHLH137. The former is emerging as a key component of the age-related flowering time pathway.

KW - bioenergy

KW - floral transition conservation

KW - heading date quantitative trait loci

KW - Panicum virgatum

KW - perennial biomass crop breeding

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U2 - 10.1111/gcbb.12755

DO - 10.1111/gcbb.12755

M3 - Article

C2 - 33381230

AN - SCOPUS:85093915857

SN - 1757-1693

VL - 13

SP - 98

EP - 111

JO - GCB Bioenergy

JF - GCB Bioenergy

IS - 1

ER -

Linkage mapping evidence for a syntenic QTL associated with flowering time in perennial C₄ rhizomatous grasses Miscanthus and switchgrass

Abstract

Keywords

UN SDGs

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Kerrie Farrar

BBSRC Core Strategic Programme in Resilient Crops: Miscanthus

A population genomics approach to accelerating the domestication of the energy grass miscanthus

Genetic resources for the dissection of bioenergy traits

Optimising the development of the energy grass Miscanthus through manipulation of flowering time

Cite this

Linkage mapping evidence for a syntenic QTL associated with flowering time in perennial C4 rhizomatous grasses Miscanthus and switchgrass

Abstract

Keywords

UN SDGs

Access to Document

Permanent link

Other files and links

Fingerprint

Profiles

Kerrie Farrar

Projects

BBSRC Core Strategic Programme in Resilient Crops: Miscanthus

A population genomics approach to accelerating the domestication of the energy grass miscanthus

Genetic resources for the dissection of bioenergy traits

Optimising the development of the energy grass Miscanthus through manipulation of flowering time

Cite this

Linkage mapping evidence for a syntenic QTL associated with flowering time in perennial C₄ rhizomatous grasses Miscanthus and switchgrass