Barley SIX-ROWED SPIKE3 encodes a putative Jumonji C-type H3K9me2/me3 demethylase that represses lateral spikelet fertility

Hazel Bull; M. Cristina  Casao; Monika Zwirek; Andrew J. Flavell; William T. B. Thomas; Wenbin Guo; Runxuan Zhang; Paulo  Rapazote-Flores; Stylianos Kyriakidis; Joanne Russell; Arnis Druka; Sarah M. McKim; Robbie Waugh

doi:10.1038/s41467-017-00940-7

Barley SIX-ROWED SPIKE3 encodes a putative Jumonji C-type H3K9me2/me3 demethylase that represses lateral spikelet fertility

Hazel Bull, M. Cristina Casao, Monika Zwirek, Andrew J. Flavell, William T. B. Thomas, Wenbin Guo, Runxuan Zhang, Paulo Rapazote-Flores, Stylianos Kyriakidis, Joanne Russell, Arnis Druka, Sarah M. McKim (Lead / Corresponding author), Robbie Waugh (Lead / Corresponding author)

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Abstract

The barley inflorescence (‘spike’) comprises a multi-noded central stalk (‘rachis’) with tri-partite clusters of uni-floretted spikelets attached alternately along its length. Relative fertility of lateral spikelets within each cluster leads to spikes with two or six rows of grain or an intermediate morphology. Understanding the mechanisms controlling this key developmental step could provide novel solutions to enhanced grain yield. Classical genetic studies identified five major SIX-ROWED SPIKE (VRS) genes, with four now known to encode transcription factors. Here, we identify and characterise the remaining major VRS gene, VRS3, as encoding a putative Jumonji C-type H3K9me2/me3 demethylase, a regulator of chromatin state. Exploring the expression network modulated by VRS3 reveals specific interactions, both with other VRS genes and genes involved in stress, hormone and sugar metabolism. We show that combining a vrs3 mutant allele with natural six-rowed alleles of VRS1 and VRS5 leads to increased lateral grain size and greater grain uniformity.

Original language	English
Article number	936
Pages (from-to)	1-9
Number of pages	9
Journal	Nature Communications
Volume	8
DOIs	https://doi.org/10.1038/s41467-017-00940-7
Publication status	Published - 16 Oct 2017

Keywords

Histone modification
Epigenetics
Barley
Inflorescence
Row-type

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10.1038/s41467-017-00940-7Licence: CC BY

Final Published Version
© 2017 Macmillan Publishers Limited, part of Springer Nature. All rights reserved. Open Access This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons license and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this license, visit http://creativecommons.org/licenses/by/4.0/.
Final published version, 1.27 MBLicence: CC BY

Molecular and Genetic Networks Determining Row Number in Cultivated Barley (Joint with James Hutton Institute)
McKim, S. (Investigator)
Biotechnology and Biological Sciences Research Council
1/11/13 → 31/10/16
Project: Research

Computational analysis and method development for high throughput transcriptomics and transcriptional regulatory inference in plants
Guo, W. (Author), Zhang, R. (Supervisor), Brown, J. (Supervisor), Waugh, R. (Supervisor) & Lin, P. (Supervisor), 2018
Student thesis: Doctoral Thesis › Doctor of Philosophy

McKim, Sarah
- Plant Sciences - Reader (Teaching and Research)
Person: Academic
Waugh, Robbie
- Plant Sciences - Professor of Crop Genomics
Person: Academic

Cite this

Bull, H., Casao, M. C., Zwirek, M., Flavell, A. J., Thomas, W. T. B., Guo, W., Zhang, R., Rapazote-Flores, P., Kyriakidis, S., Russell, J., Druka, A., McKim, S. M., & Waugh, R. (2017). Barley SIX-ROWED SPIKE3 encodes a putative Jumonji C-type H3K9me2/me3 demethylase that represses lateral spikelet fertility. Nature Communications, 8, 1-9. Article 936. https://doi.org/10.1038/s41467-017-00940-7

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title = "Barley SIX-ROWED SPIKE3 encodes a putative Jumonji C-type H3K9me2/me3 demethylase that represses lateral spikelet fertility",

abstract = "The barley inflorescence ({\textquoteleft}spike{\textquoteright}) comprises a multi-noded central stalk ({\textquoteleft}rachis{\textquoteright}) with tri-partite clusters of uni-floretted spikelets attached alternately along its length. Relative fertility of lateral spikelets within each cluster leads to spikes with two or six rows of grain or an intermediate morphology. Understanding the mechanisms controlling this key developmental step could provide novel solutions to enhanced grain yield. Classical genetic studies identified five major SIX-ROWED SPIKE (VRS) genes, with four now known to encode transcription factors. Here, we identify and characterise the remaining major VRS gene, VRS3, as encoding a putative Jumonji C-type H3K9me2/me3 demethylase, a regulator of chromatin state. Exploring the expression network modulated by VRS3 reveals specific interactions, both with other VRS genes and genes involved in stress, hormone and sugar metabolism. We show that combining a vrs3 mutant allele with natural six-rowed alleles of VRS1 and VRS5 leads to increased lateral grain size and greater grain uniformity.",

keywords = "Histone modification, Epigenetics, Barley, Inflorescence, Row-type",

author = "Hazel Bull and Casao, {M. Cristina} and Monika Zwirek and Flavell, {Andrew J.} and Thomas, {William T. B.} and Wenbin Guo and Runxuan Zhang and Paulo Rapazote-Flores and Stylianos Kyriakidis and Joanne Russell and Arnis Druka and McKim, {Sarah M.} and Robbie Waugh",

note = "We acknowledge The Mylnefield Trust and James Hutton Limited for funding HB. The work would not have been possible without funding for MZ from BBSRC Grant No.BB/K01613X/1 to RW and SM. We acknowledge the EU Marie Sk{\l}odowska Curie FP7-PEOPLE-2013-IEF Project 626291 for supporting CC. RW, BT, RZ, PF and JR are grateful for continued support from the Scottish Government Research Program and RW, SM and AF for support from the University of Dundee. SM acknowledges financial support as a Royal Society of Edinburgh Research Fellow. We would like to thank the following colleagues for helpful discussion, advice, help to access published and unpublished data and for practical support during this project: Richard Keith, Chris Warden, Marcel Lafos, Vrushali Patil, Nicky Bonar, Linda Milne, Scott McCrimmon, Stephen Wall, Allan Booth, and Ainoa Escrich. We acknowledge the Earlham Institute for expertly generating the RNA-seq datasets.",

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doi = "10.1038/s41467-017-00940-7",

language = "English",

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journal = "Nature Communications",

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Bull, H, Casao, MC, Zwirek, M, Flavell, AJ, Thomas, WTB, Guo, W, Zhang, R, Rapazote-Flores, P, Kyriakidis, S, Russell, J, Druka, A, McKim, SM & Waugh, R 2017, 'Barley SIX-ROWED SPIKE3 encodes a putative Jumonji C-type H3K9me2/me3 demethylase that represses lateral spikelet fertility', Nature Communications, vol. 8, 936, pp. 1-9. https://doi.org/10.1038/s41467-017-00940-7

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T1 - Barley SIX-ROWED SPIKE3 encodes a putative Jumonji C-type H3K9me2/me3 demethylase that represses lateral spikelet fertility

AU - Bull, Hazel

AU - Casao, M. Cristina

AU - Zwirek, Monika

AU - Flavell, Andrew J.

AU - Thomas, William T. B.

AU - Guo, Wenbin

AU - Zhang, Runxuan

AU - Rapazote-Flores, Paulo

AU - Kyriakidis, Stylianos

AU - Russell, Joanne

AU - Druka, Arnis

AU - McKim, Sarah M.

AU - Waugh, Robbie

N1 - We acknowledge The Mylnefield Trust and James Hutton Limited for funding HB. The work would not have been possible without funding for MZ from BBSRC Grant No.BB/K01613X/1 to RW and SM. We acknowledge the EU Marie Skłodowska Curie FP7-PEOPLE-2013-IEF Project 626291 for supporting CC. RW, BT, RZ, PF and JR are grateful for continued support from the Scottish Government Research Program and RW, SM and AF for support from the University of Dundee. SM acknowledges financial support as a Royal Society of Edinburgh Research Fellow. We would like to thank the following colleagues for helpful discussion, advice, help to access published and unpublished data and for practical support during this project: Richard Keith, Chris Warden, Marcel Lafos, Vrushali Patil, Nicky Bonar, Linda Milne, Scott McCrimmon, Stephen Wall, Allan Booth, and Ainoa Escrich. We acknowledge the Earlham Institute for expertly generating the RNA-seq datasets.

PY - 2017/10/16

Y1 - 2017/10/16

N2 - The barley inflorescence (‘spike’) comprises a multi-noded central stalk (‘rachis’) with tri-partite clusters of uni-floretted spikelets attached alternately along its length. Relative fertility of lateral spikelets within each cluster leads to spikes with two or six rows of grain or an intermediate morphology. Understanding the mechanisms controlling this key developmental step could provide novel solutions to enhanced grain yield. Classical genetic studies identified five major SIX-ROWED SPIKE (VRS) genes, with four now known to encode transcription factors. Here, we identify and characterise the remaining major VRS gene, VRS3, as encoding a putative Jumonji C-type H3K9me2/me3 demethylase, a regulator of chromatin state. Exploring the expression network modulated by VRS3 reveals specific interactions, both with other VRS genes and genes involved in stress, hormone and sugar metabolism. We show that combining a vrs3 mutant allele with natural six-rowed alleles of VRS1 and VRS5 leads to increased lateral grain size and greater grain uniformity.

AB - The barley inflorescence (‘spike’) comprises a multi-noded central stalk (‘rachis’) with tri-partite clusters of uni-floretted spikelets attached alternately along its length. Relative fertility of lateral spikelets within each cluster leads to spikes with two or six rows of grain or an intermediate morphology. Understanding the mechanisms controlling this key developmental step could provide novel solutions to enhanced grain yield. Classical genetic studies identified five major SIX-ROWED SPIKE (VRS) genes, with four now known to encode transcription factors. Here, we identify and characterise the remaining major VRS gene, VRS3, as encoding a putative Jumonji C-type H3K9me2/me3 demethylase, a regulator of chromatin state. Exploring the expression network modulated by VRS3 reveals specific interactions, both with other VRS genes and genes involved in stress, hormone and sugar metabolism. We show that combining a vrs3 mutant allele with natural six-rowed alleles of VRS1 and VRS5 leads to increased lateral grain size and greater grain uniformity.

KW - Histone modification

KW - Epigenetics

KW - Barley

KW - Inflorescence

KW - Row-type

U2 - 10.1038/s41467-017-00940-7

DO - 10.1038/s41467-017-00940-7

M3 - Article

C2 - 29038434

SN - 2041-1723

VL - 8

SP - 1

EP - 9

JO - Nature Communications

JF - Nature Communications

M1 - 936

ER -

Barley SIX-ROWED SPIKE3 encodes a putative Jumonji C-type H3K9me2/me3 demethylase that represses lateral spikelet fertility

Abstract

Keywords

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Projects

Molecular and Genetic Networks Determining Row Number in Cultivated Barley (Joint with James Hutton Institute)

Student theses

Computational analysis and method development for high throughput transcriptomics and transcriptional regulatory inference in plants

Profiles

McKim, Sarah

Waugh, Robbie

Cite this