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Taylor G, Donnison IS, Murphy-Bokern D, Morgante M, Bogeat-Triboulot MB, Bhalerao R, Hertzberg M, Polle A, Harfouche A, Alasia F, Petoussi V, Trebbi D, Schwarz K, Keurentjes JJB, Centritto M, Genty B, Flexas J, Grill E, Salvi S, Davies WJ. Sustainable bioenergy for climate mitigation: developing drought-tolerant trees and grasses. Ann Bot 2019; 124:513-520. [PMID: 31665761 PMCID: PMC6821384 DOI: 10.1093/aob/mcz146] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/09/2019] [Accepted: 09/23/2019] [Indexed: 05/29/2023]
Abstract
BACKGROUND AND AIMS Bioenergy crops are central to climate mitigation strategies that utilize biogenic carbon, such as BECCS (bioenergy with carbon capture and storage), alongside the use of biomass for heat, power, liquid fuels and, in the future, biorefining to chemicals. Several promising lignocellulosic crops are emerging that have no food role - fast-growing trees and grasses - but are well suited as bioenergy feedstocks, including Populus, Salix, Arundo, Miscanthus, Panicum and Sorghum. SCOPE These promising crops remain largely undomesticated and, until recently, have had limited germplasm resources. In order to avoid competition with food crops for land and nature conservation, it is likely that future bioenergy crops will be grown on marginal land that is not needed for food production and is of poor quality and subject to drought stress. Thus, here we define an ideotype for drought tolerance that will enable biomass production to be maintained in the face of moderate drought stress. This includes traits that can readily be measured in wide populations of several hundred unique genotypes for genome-wide association studies, alongside traits that are informative but can only easily be assessed in limited numbers or training populations that may be more suitable for genomic selection. Phenotyping, not genotyping, is now the major bottleneck for progress, since in all lignocellulosic crops studied extensive use has been made of next-generation sequencing such that several thousand markers are now available and populations are emerging that will enable rapid progress for drought-tolerance breeding. The emergence of novel technologies for targeted genotyping by sequencing are particularly welcome. Genome editing has already been demonstrated for Populus and offers significant potential for rapid deployment of drought-tolerant crops through manipulation of ABA receptors, as demonstrated in Arabidopsis, with other gene targets yet to be tested. CONCLUSIONS Bioenergy is predicted to be the fastest-developing renewable energy over the coming decade and significant investment over the past decade has been made in developing genomic resources and in collecting wild germplasm from within the natural ranges of several tree and grass crops. Harnessing these resources for climate-resilient crops for the future remains a challenge but one that is likely to be successful.
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Affiliation(s)
- G Taylor
- School of Biological Sciences, University of Southampton, Southampton, UK
- Department of Plant Sciences, University of California at Davis, Davis, CA, USA
| | - I S Donnison
- Institute of Biological, Environmental & Rural Sciences (IBERS), Aberystwyth University, Plas Gogerddan, Aberystwyth, Ceredigion, UK
| | | | - M Morgante
- Department of Agricultural and Environmental Sciences, University of Udine, Via delle Scienze, Udine, Italy
| | | | - R Bhalerao
- Department of Forest Genetics and Plant Physiology, Umea Plant Sciences Centre, Swedish University of Agricultural Sciences, Umea, Sweden
| | - M Hertzberg
- SweTree Technologies AB, SE-904 03 Umeå, Sweden
| | - A Polle
- Büsgen‐Institute, Department of Forest Botany and Tree Physiology, Georg‐August University, Göttingen, Germany
| | - A Harfouche
- Department for Innovation in Biological, Agro-food and Forest Systems, University of Tuscia, Viterbo, Italy
| | - F Alasia
- Franco Alasia Vivai, Strada Solerette, Savigliano, Italy
| | - V Petoussi
- Department of Sociology, University of Crete, Rethymno, Greece
| | - D Trebbi
- Geneticlab, Via Roveredo, Pordenone, Italy
| | - K Schwarz
- Julius Kühn‐Institut (JKI) Bundesforschungsinstitut für Kulturpflanzen, Institute for Crop and Soil Science, Bundesallee 50, D‐38116 Braunschweig, Germany
| | - J J B Keurentjes
- Laboratory of Genetics, Wageningen University & Research, Droevendaalsesteeg, Wageningen, The Netherlands
| | - M Centritto
- Trees and Timber Institute, National Research Council of Italy, Sesto Fiorentino, Italy
| | - B Genty
- Aix-Marseille University, CEA, CNRS, BIAM, UMR 7265, Saint Paul lez Durance, France
| | - J Flexas
- Research Group on Plant Biology under Mediterranean Conditions, Departament de Biologia, Universitat de les Illes Balears, Carretera de Valldemossa, Palma de Mallorca, Illes Balears, Spain
| | - E Grill
- Lehrstuhl für Botanik, Technische Universität München, Freising, Germany
| | - S Salvi
- Department of Agricultural and Food Sciences, University of Bologna, Viale Fanin, Bologna, Italy
| | - W J Davies
- Lancaster Environment Centre, Lancaster University, Lancaster, UK
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Rao ND, Poblete-Cazenave M, Bhalerao R, Davis KF, Parkinson S. Spatial analysis of energy use and GHG emissions from cereal production in India. Sci Total Environ 2019; 654:841-849. [PMID: 30448673 DOI: 10.1016/j.scitotenv.2018.11.073] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/02/2018] [Revised: 10/25/2018] [Accepted: 11/05/2018] [Indexed: 06/09/2023]
Abstract
Agriculture contributes 18% of India's greenhouse gas (GHG) emissions. Yet, little is known about the energy requirements of individual crops, making it difficult to link nutrition-enhancing dietary changes to energy consumption and climate change. We estimate the energy and CO2 intensity of food grains (rice, wheat, sorghum, maize, pearl millet and finger millet) taking into account their irrigation requirements, water source, dependence on groundwater, yields, fertilizer and machinery inputs. Rice is the most energy-intensive cereal, while millets are the least. Total energy use contributes 16% of GHG emissions for rice, due to its high methane emissions, and 56% for wheat. Fertilizer production and use dominates GHG emissions from all crops, contributing 52% of GHGs from cereals. Energy intensities vary by up to a factor of four across the country, due to varying water requirements, irrigation sources and groundwater table depths. The results suggest that replacing rice with other cereals has the potential to reduce energy consumption and GHGs, though the spatial variation of production shifts would influence the extent of this reduction and the possible trade-offs with total production.
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Affiliation(s)
- N D Rao
- International Institute for Applied Systems Analysis, Laxenburg, Austria.
| | - M Poblete-Cazenave
- International Institute for Applied Systems Analysis, Laxenburg, Austria
| | | | - K F Davis
- The Earth Institute, Columbia University, United States of America; The Nature Conservancy, New York, United States of America; Data Science Institute, Columbia University, USA
| | - S Parkinson
- International Institute for Applied Systems Analysis, Laxenburg, Austria; Institute for Integrated Energy Systems, U. of Victoria, Canada
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Hertzberg M, Aspeborg H, Schrader J, Andersson A, Erlandsson R, Blomqvist K, Bhalerao R, Uhlén M, Teeri TT, Lundeberg J, Sundberg B, Nilsson P, Sandberg G. A transcriptional roadmap to wood formation. Proc Natl Acad Sci U S A 2001; 98:14732-7. [PMID: 11724959 PMCID: PMC64750 DOI: 10.1073/pnas.261293398] [Citation(s) in RCA: 377] [Impact Index Per Article: 16.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/12/2001] [Indexed: 11/18/2022] Open
Abstract
The large vascular meristem of poplar trees with its highly organized secondary xylem enables the boundaries between different developmental zones to be easily distinguished. This property of wood-forming tissues allowed us to determine a unique tissue-specific transcript profile for a well defined developmental gradient. RNA was prepared from different developmental stages of xylogenesis for DNA microarray analysis by using a hybrid aspen unigene set consisting of 2,995 expressed sequence tags. The analysis revealed that the genes encoding lignin and cellulose biosynthetic enzymes, as well as a number of transcription factors and other potential regulators of xylogenesis, are under strict developmental stage-specific transcriptional regulation.
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Affiliation(s)
- M Hertzberg
- Umeå Plant Science Center, Department of Forest Genetics and Plant Physiology, Swedish University of Agricultural Sciences, 901 83 Umeå, Sweden
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Kleinow T, Bhalerao R, Breuer F, Umeda M, Salchert K, Koncz C. Functional identification of an Arabidopsis snf4 ortholog by screening for heterologous multicopy suppressors of snf4 deficiency in yeast. Plant J 2000; 23:115-22. [PMID: 10929106 DOI: 10.1046/j.1365-313x.2000.00809.x] [Citation(s) in RCA: 47] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/21/2023]
Abstract
Yeast Snf4 is a prototype of activating gamma-subunits of conserved Snf1/AMPK-related protein kinases (SnRKs) controlling glucose and stress signaling in eukaryotes. The catalytic subunits of Arabidopsis SnRKs, AKIN10 and AKIN11, interact with Snf4 and suppress the snf1 and snf4 mutations in yeast. By expression of an Arabidopsis cDNA library in yeast, heterologous multicopy snf4 suppressors were isolated. In addition to AKIN10 and AKIN11, the deficiency of yeast snf4 mutant to grown on non-fermentable carbon source was suppressed by Arabidopsis Myb30, CAAT-binding factor Hap3b, casein kinase I, zinc-finger factors AZF2 and ZAT10, as well as orthologs of hexose/UDP-hexose transporters, calmodulin, SMC1-cohesin and Snf4. Here we describe the characterization of AtSNF4, a functional Arabidopsis Snf4 ortholog, that interacts with yeast Snf1 and specifically binds to the C-terminal regulatory domain of Arabidopsis SnRKs AKIN10 and AKIN11.
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Affiliation(s)
- T Kleinow
- Max-Planck Institut für Züchtungsforschung, Carl-von-Linné-Weg 10, D-50829 Köln, Germany
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Sterky F, Regan S, Karlsson J, Hertzberg M, Rohde A, Holmberg A, Amini B, Bhalerao R, Larsson M, Villarroel R, Van Montagu M, Sandberg G, Olsson O, Teeri TT, Boerjan W, Gustafsson P, Uhlén M, Sundberg B, Lundeberg J. Gene discovery in the wood-forming tissues of poplar: analysis of 5, 692 expressed sequence tags. Proc Natl Acad Sci U S A 1998; 95:13330-5. [PMID: 9789088 PMCID: PMC23802 DOI: 10.1073/pnas.95.22.13330] [Citation(s) in RCA: 239] [Impact Index Per Article: 9.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Accepted: 08/27/1998] [Indexed: 11/18/2022] Open
Abstract
A rapidly growing area of genome research is the generation of expressed sequence tags (ESTs) in which large numbers of randomly selected cDNA clones are partially sequenced. The collection of ESTs reflects the level and complexity of gene expression in the sampled tissue. To date, the majority of plant ESTs are from nonwoody plants such as Arabidopsis, Brassica, maize, and rice. Here, we present a large-scale production of ESTs from the wood-forming tissues of two poplars, Populus tremula L. x tremuloides Michx. and Populus trichocarpa 'Trichobel.' The 5,692 ESTs analyzed represented a total of 3,719 unique transcripts for the two cDNA libraries. Putative functions could be assigned to 2,245 of these transcripts that corresponded to 820 protein functions. Of specific interest to forest biotechnology are the 4% of ESTs involved in various processes of cell wall formation, such as lignin and cellulose synthesis, 5% similar to developmental regulators and members of known signal transduction pathways, and 2% involved in hormone biosynthesis. An additional 12% of the ESTs showed no significant similarity to any other DNA or protein sequences in existing databases. The absence of these sequences from public databases may indicate a specific role for these proteins in wood formation. The cDNA libraries and the accompanying database are valuable resources for forest research directed toward understanding the genetic control of wood formation and future endeavors to modify wood and fiber properties for industrial use.
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Affiliation(s)
- F Sterky
- Department of Biotechnology, Kungl Tekniska Högskolan, Royal Institute of Technology, SE-10044 Stockholm, Sweden
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Németh K, Salchert K, Putnoky P, Bhalerao R, Koncz-Kálmán Z, Stankovic-Stangeland B, Bakó L, Mathur J, Okrész L, Stabel S, Geigenberger P, Stitt M, Rédei GP, Schell J, Koncz C. Pleiotropic control of glucose and hormone responses by PRL1, a nuclear WD protein, in Arabidopsis. Genes Dev 1998; 12:3059-73. [PMID: 9765207 PMCID: PMC317193 DOI: 10.1101/gad.12.19.3059] [Citation(s) in RCA: 203] [Impact Index Per Article: 7.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/24/2022]
Abstract
The prl1 mutation localized by T-DNA tagging on Arabidopsis chromosome 4-44 confers hypersensitivity to glucose and sucrose. The prl1 mutation results in transcriptional derepression of glucose responsive genes defining a novel suppressor function in glucose signaling. The prl1 mutation also augments the sensitivity of plants to growth hormones including cytokinin, ethylene, abscisic acid, and auxin; stimulates the accumulation of sugars and starch in leaves; and inhibits root elongation. PRL1 encodes a regulatory WD protein that interacts with ATHKAP2, an alpha-importin nuclear import receptor, and is imported into the nucleus in Arabidopsis. Potential functional conservation of PRL1 homologs found in other eukaryotes is indicated by nuclear localization of PRL1 in monkey COS-1 cells and selective interaction of PRL1 with a nuclear protein kinase C-betaII isoenzyme involved in human insulin signaling.
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Affiliation(s)
- K Németh
- Abteilung Genetische Grundlagen der Pflanzenzüchtung, Federal Republic of Germany
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Salchert K, Bhalerao R, Koncz-Kálmán Z, Koncz C. Control of cell elongation and stress responses by steroid hormones and carbon catabolic repression in plants. Philos Trans R Soc Lond B Biol Sci 1998; 353:1517-20. [PMID: 9800212 PMCID: PMC1692357 DOI: 10.1098/rstb.1998.0307] [Citation(s) in RCA: 33] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/12/2022] Open
Abstract
Molecular analysis of Arabidopsis mutants displaying hypocotyl elongation defects in both the dark and light revealed recently that steroids play an essential role as hormones in plants. Deficiencies in brassinosteroid biosynthesis and signalling permit photomorphogenic development and light-regulated gene expression in the dark, and result in severe dwarfism, male sterility and de-repression of stress-induced genes in the light. A cytochrome P450 steroid hydroxylase (CYP90) controls a rate limiting step in brassinosteroid biosynthesis and appears to function as a signalling factor in stress responses. Another key step in steroid biosynthesis is controlled by the Arabidopsis SNF1 kinases that phosphorylate the 3-hydroxy-3methylglutaryl-CoA reductase. The activity of SNF1 kinases is regulated by PRL1, an evolutionarily conserved alpha-importin-binding nuclear WD-protein. The prl1 mutation results in cell elongation defects, de-repression of numerous stress-induced genes, and augments the sensitivity of plants to glucose, cold stress and several hormones, including cytokinin, ethylene, auxin, and abscisic acid.
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Affiliation(s)
- K Salchert
- Max-Planck Institut für Züchtungsforschung, Köln, Germany
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