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Unda F, de Vries L, Karlen SD, Rainbow J, Zhang C, Bartley LE, Kim H, Ralph J, Mansfield SD. Enhancing monolignol ferulate conjugate levels in poplar lignin via OsFMT1. BIOTECHNOLOGY FOR BIOFUELS AND BIOPRODUCTS 2024; 17:97. [PMID: 39003470 PMCID: PMC11246582 DOI: 10.1186/s13068-024-02544-y] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/04/2024] [Accepted: 06/25/2024] [Indexed: 07/15/2024]
Abstract
BACKGROUND The phenolic polymer lignin is one of the primary chemical constituents of the plant secondary cell wall. Due to the inherent plasticity of lignin biosynthesis, several phenolic monomers have been shown to be incorporated into the polymer, as long as the monomer can undergo radicalization so it can participate in coupling reactions. In this study, we significantly enhance the level of incorporation of monolignol ferulate conjugates into the lignin polymer to improve the digestibility of lignocellulosic biomass. RESULTS Overexpression of a rice Feruloyl-CoA Monolignol Transferase (FMT), OsFMT1, in hybrid poplar (Populus alba x grandidentata) produced transgenic trees clearly displaying increased cell wall-bound ester-linked ferulate, p-hydroxybenzoate, and p-coumarate, all of which are in the lignin cell wall fraction, as shown by NMR and DFRC. We also demonstrate the use of a novel UV-Vis spectroscopic technique to rapidly screen plants for the presence of both ferulate and p-hydroxybenzoate esters. Lastly we show, via saccharification assays, that the OsFMT1 transgenic p oplars have significantly improved processing efficiency compared to wild-type and Angelica sinensis-FMT-expressing poplars. CONCLUSIONS The findings demonstrate that OsFMT1 has a broad substrate specificity and a higher catalytic efficiency compared to the previously published FMT from Angelica sinensis (AsFMT). Importantly, enhanced wood processability makes OsFMT1 a promising gene to optimize the composition of lignocellulosic biomass.
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Affiliation(s)
- Faride Unda
- Department of Wood Science, Faculty of Forestry, University of British Columbia, Vancouver, BC, V6T 1Z4, Canada
- US Department of Energy (DOE) Great Lakes Bioenergy Research Center, The Wisconsin Energy Institute, University of Wisconsin-Madison, Madison, WI, 53726, USA
| | - Lisanne de Vries
- Department of Wood Science, Faculty of Forestry, University of British Columbia, Vancouver, BC, V6T 1Z4, Canada
- US Department of Energy (DOE) Great Lakes Bioenergy Research Center, The Wisconsin Energy Institute, University of Wisconsin-Madison, Madison, WI, 53726, USA
| | - Steven D Karlen
- US Department of Energy (DOE) Great Lakes Bioenergy Research Center, The Wisconsin Energy Institute, University of Wisconsin-Madison, Madison, WI, 53726, USA
- Department of Biochemistry, University of Wisconsin-Madison, Madison, WI, 53706, USA
| | - Jordan Rainbow
- Institute of Biological Chemistry, Washington State University, Pullman, WA, 99164, USA
| | - Chengcheng Zhang
- Department of Microbiology and Plant Biology, University of Oklahoma, Norman, OK, 73019, USA
| | - Laura E Bartley
- Institute of Biological Chemistry, Washington State University, Pullman, WA, 99164, USA
| | - Hoon Kim
- US Department of Energy (DOE) Great Lakes Bioenergy Research Center, The Wisconsin Energy Institute, University of Wisconsin-Madison, Madison, WI, 53726, USA
- US Department of Agriculture (USDA), Forest Service, Forest Products Laboratory (FPL), Madison, WI, 53726, USA
| | - John Ralph
- US Department of Energy (DOE) Great Lakes Bioenergy Research Center, The Wisconsin Energy Institute, University of Wisconsin-Madison, Madison, WI, 53726, USA
- Department of Biochemistry, University of Wisconsin-Madison, Madison, WI, 53706, USA
| | - Shawn D Mansfield
- Department of Wood Science, Faculty of Forestry, University of British Columbia, Vancouver, BC, V6T 1Z4, Canada.
- US Department of Energy (DOE) Great Lakes Bioenergy Research Center, The Wisconsin Energy Institute, University of Wisconsin-Madison, Madison, WI, 53726, USA.
- Botany Department, Faculty of Science, University of British Columbia, Vancouver, BC, V6T 1Z4, Canada.
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2
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Chaudhari AA, Sharma AM, Rastogi L, Dewangan BP, Sharma R, Singh D, Sah RK, Das S, Bhattacharjee S, Mellerowicz EJ, Pawar PAM. Modifying lignin composition and xylan O-acetylation induces changes in cell wall composition, extractability, and digestibility. BIOTECHNOLOGY FOR BIOFUELS AND BIOPRODUCTS 2024; 17:73. [PMID: 38822388 PMCID: PMC11141020 DOI: 10.1186/s13068-024-02513-5] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/28/2023] [Accepted: 05/01/2024] [Indexed: 06/03/2024]
Abstract
BACKGROUND Lignin and xylan are important determinants of cell wall structure and lignocellulosic biomass digestibility. Genetic manipulations that individually modify either lignin or xylan structure improve polysaccharide digestibility. However, the effects of their simultaneous modifications have not been explored in a similar context. Here, both individual and combinatorial modification in xylan and lignin was studied by analysing the effect on plant cell wall properties, biotic stress responses and integrity sensing. RESULTS Arabidopsis plant co-harbouring mutation in FERULATE 5-HYDROXYLASE (F5H) and overexpressing Aspergillus niger acetyl xylan esterase (35S:AnAXE1) were generated and displayed normal growth attributes with intact xylem architecture. This fah1-2/35S:AnAXE1 cross was named as hyper G lignin and hypoacetylated (HrGHypAc) line. The HrGHypAc plants showed increased crystalline cellulose content with enhanced digestibility after chemical and enzymatic pre-treatment. Moreover, both parents and HrGHypAc without and after pre-treating with glucuronyl esterase and alpha glucuronidase exhibited an increase in xylose release after xylanase digestion as compared to wild type. The de-pectinated fraction in HrGHypAc displayed elevated levels of xylan and cellulose. Furthermore, the transcriptomic analysis revealed differential expression in cell wall biosynthetic, transcription factors and wall-associated kinases genes implying the role of lignin and xylan modification on cellular regulatory processes. CONCLUSIONS Simultaneous modification in xylan and lignin enhances cellulose content with improved saccharification efficiency. These modifications loosen cell wall complexity and hence resulted in enhanced xylose and xylobiose release with or without pretreatment after xylanase digestion in both parent and HrGHypAc. This study also revealed that the disruption of xylan and lignin structure is possible without compromising either growth and development or defense responses against Pseudomonas syringae infection.
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Affiliation(s)
- Aniket Anant Chaudhari
- Regional Centre for Biotechnology, Laboratory of Plant Cell Wall Biology, NCR Biotech Science, Cluster 3rd Milestone, Faridabad-Gurgaon Expressway, Faridabad-121001, Haryana, India
| | - Anant Mohan Sharma
- Regional Centre for Biotechnology, Laboratory of Plant Cell Wall Biology, NCR Biotech Science, Cluster 3rd Milestone, Faridabad-Gurgaon Expressway, Faridabad-121001, Haryana, India
| | - Lavi Rastogi
- Regional Centre for Biotechnology, Laboratory of Plant Cell Wall Biology, NCR Biotech Science, Cluster 3rd Milestone, Faridabad-Gurgaon Expressway, Faridabad-121001, Haryana, India
| | - Bhagwat Prasad Dewangan
- Regional Centre for Biotechnology, Laboratory of Plant Cell Wall Biology, NCR Biotech Science, Cluster 3rd Milestone, Faridabad-Gurgaon Expressway, Faridabad-121001, Haryana, India
| | - Raunak Sharma
- Regional Centre for Biotechnology, Laboratory of Plant Cell Wall Biology, NCR Biotech Science, Cluster 3rd Milestone, Faridabad-Gurgaon Expressway, Faridabad-121001, Haryana, India
| | - Deepika Singh
- Regional Centre for Biotechnology, Laboratory of Plant Cell Wall Biology, NCR Biotech Science, Cluster 3rd Milestone, Faridabad-Gurgaon Expressway, Faridabad-121001, Haryana, India
| | - Rajan Kumar Sah
- Regional Centre for Biotechnology, Laboratory of Plant Cell Wall Biology, NCR Biotech Science, Cluster 3rd Milestone, Faridabad-Gurgaon Expressway, Faridabad-121001, Haryana, India
| | - Shouvik Das
- Regional Centre for Biotechnology, Laboratory of Plant Cell Wall Biology, NCR Biotech Science, Cluster 3rd Milestone, Faridabad-Gurgaon Expressway, Faridabad-121001, Haryana, India
| | - Saikat Bhattacharjee
- Regional Centre for Biotechnology, Laboratory of Plant Cell Wall Biology, NCR Biotech Science, Cluster 3rd Milestone, Faridabad-Gurgaon Expressway, Faridabad-121001, Haryana, India
| | - Ewa J Mellerowicz
- Department of Forest Genetics and Plant Physiology, Umea Plant Science Centre, Swedish University of Agricultural Sciences, Umea, Sweden
| | - Prashant Anupama-Mohan Pawar
- Regional Centre for Biotechnology, Laboratory of Plant Cell Wall Biology, NCR Biotech Science, Cluster 3rd Milestone, Faridabad-Gurgaon Expressway, Faridabad-121001, Haryana, India.
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3
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Kairouani A, Pontier D, Picart C, Mounet F, Martinez Y, Le-Bot L, Fanuel M, Hammann P, Belmudes L, Merret R, Azevedo J, Carpentier MC, Gagliardi D, Couté Y, Sibout R, Bies-Etheve N, Lagrange T. Cell-type-specific control of secondary cell wall formation by Musashi-type translational regulators in Arabidopsis. eLife 2023; 12:RP88207. [PMID: 37773033 PMCID: PMC10541177 DOI: 10.7554/elife.88207] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 09/30/2023] Open
Abstract
Deciphering the mechanism of secondary cell wall/SCW formation in plants is key to understanding their development and the molecular basis of biomass recalcitrance. Although transcriptional regulation is essential for SCW formation, little is known about the implication of post-transcriptional mechanisms in this process. Here we report that two bonafide RNA-binding proteins homologous to the animal translational regulator Musashi, MSIL2 and MSIL4, function redundantly to control SCW formation in Arabidopsis. MSIL2/4 interactomes are similar and enriched in proteins involved in mRNA binding and translational regulation. MSIL2/4 mutations alter SCW formation in the fibers, leading to a reduction in lignin deposition, and an increase of 4-O-glucuronoxylan methylation. In accordance, quantitative proteomics of stems reveal an overaccumulation of glucuronoxylan biosynthetic machinery, including GXM3, in the msil2/4 mutant stem. We showed that MSIL4 immunoprecipitates GXM mRNAs, suggesting a novel aspect of SCW regulation, linking post-transcriptional control to the regulation of SCW biosynthesis genes.
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Affiliation(s)
- Alicia Kairouani
- Laboratoire Génome et Développement des Plantes, Université de Perpignan via Domitia, CNRS, UMR5096PerpignanFrance
| | - Dominique Pontier
- Laboratoire Génome et Développement des Plantes, Université de Perpignan via Domitia, CNRS, UMR5096PerpignanFrance
| | - Claire Picart
- Laboratoire Génome et Développement des Plantes, Université de Perpignan via Domitia, CNRS, UMR5096PerpignanFrance
| | - Fabien Mounet
- Laboratoire de Recherche en Sciences Végétales, Université de Toulouse III, CNRS, INP, UMR5546Castanet-TolosanFrance
| | - Yves Martinez
- FRAIB-CNRS Plateforme ImagerieCastanet-TolosanFrance
| | - Lucie Le-Bot
- Biopolymères Interactions Assemblages, UR1268 BIA, INRAENantesFrance
| | - Mathieu Fanuel
- Biopolymères Interactions Assemblages, UR1268 BIA, INRAENantesFrance
- PROBE research infrastructure, BIBS Facility, INRAENantesFrance
| | - Philippe Hammann
- Plateforme Protéomique Strasbourg Esplanade de CNRS, Université de StrasbourgStrasbourgFrance
| | - Lucid Belmudes
- Université Grenoble Alpes, INSERM, UA13 BGE, CNRS, CEA, FR2048GrenobleFrance
| | - Remy Merret
- Laboratoire Génome et Développement des Plantes, Université de Perpignan via Domitia, CNRS, UMR5096PerpignanFrance
| | - Jacinthe Azevedo
- Laboratoire Génome et Développement des Plantes, Université de Perpignan via Domitia, CNRS, UMR5096PerpignanFrance
| | - Marie-Christine Carpentier
- Laboratoire Génome et Développement des Plantes, Université de Perpignan via Domitia, CNRS, UMR5096PerpignanFrance
| | - Dominique Gagliardi
- Institut de Biologie Moléculaire des Plantes, IBMP, CNRS, Université de StrasbourgStrasbourgFrance
| | - Yohann Couté
- Université Grenoble Alpes, INSERM, UA13 BGE, CNRS, CEA, FR2048GrenobleFrance
| | - Richard Sibout
- Biopolymères Interactions Assemblages, UR1268 BIA, INRAENantesFrance
| | - Natacha Bies-Etheve
- Laboratoire Génome et Développement des Plantes, Université de Perpignan via Domitia, CNRS, UMR5096PerpignanFrance
| | - Thierry Lagrange
- Laboratoire Génome et Développement des Plantes, Université de Perpignan via Domitia, CNRS, UMR5096PerpignanFrance
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4
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Wouters M, Corneillie S, Dewitte A, Van Doorsselaere J, Van den Bulcke J, Van Acker J, Vanholme B, Boerjan W. Whole genome duplication of wild-type and CINNAMYL ALCOHOL DEHYDROGENASE1-downregulated hybrid poplar reduces biomass yield and causes a brittle apex phenotype in field-grown wild types. FRONTIERS IN PLANT SCIENCE 2022; 13:995402. [PMID: 36160989 PMCID: PMC9504066 DOI: 10.3389/fpls.2022.995402] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 07/15/2022] [Accepted: 08/22/2022] [Indexed: 06/16/2023]
Abstract
The potential of whole genome duplication to increase plant biomass yield is well-known. In Arabidopsis tetraploids, an increase in biomass yield was accompanied by a reduction in lignin content and, as a result, a higher saccharification efficiency was achieved compared with diploid controls. Here, we evaluated whether the results obtained in Arabidopsis could be translated into poplar and whether the enhanced saccharification yield upon alkaline pretreatment of hairpin-downregulated CINNAMYL ALCOHOL DEHYDROGENASE1 (hpCAD) transgenic poplar could be further improved upon a whole genome duplication. Using a colchicine treatment, wild-type (WT) Populus tremula x P. alba cv. INRA 717-1B4, a commonly used model clone in tree biotechnology research, and hpCAD tetraploids were generated and grown in the greenhouse. In parallel, WT tetraploid poplars were grown in the field. In contrast to Arabidopsis, a whole genome duplication of poplar had a negative impact on the biomass yield of both greenhouse- and field-grown trees. Strikingly, field-grown WT tetraploids developed a brittle apex phenotype, i.e., their tip broke off just below the apex. In addition, the chromosome doubling altered the biomass composition of field-grown, but not of greenhouse-grown tetraploid poplars. More specifically, the lignin content of field-grown tetraploid poplars was increased at the expense of matrix polysaccharides. This increase in lignin deposition in biomass is likely the cause of the observed brittle apex phenotype, though no major differences in stem anatomy or in mechanical properties could be found between di- and tetraploid WT poplars grown in the field. Finally, without biomass pretreatment, the saccharification efficiency of greenhouse- and field-grown WT diploids was not different from that of tetraploids, whereas that of greenhouse-grown hpCAD tetraploids was higher than that of greenhouse-grown diploids. Upon alkaline pretreatment, the saccharification yield of diploids was similar to that of tetraploids for all genotypes and growth conditions tested. This study showed that a whole genome duplication in hybrid WT and hpCAD poplar did neither result in further improvements in biomass yield, nor in improved biomass composition and, hence, saccharification performance.
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Affiliation(s)
- Marlies Wouters
- Department of Plant Biotechnology and Bioinformatics, Ghent University, Ghent, Belgium
- VIB Center for Plant Systems Biology, Ghent, Belgium
| | - Sander Corneillie
- Department of Plant Biotechnology and Bioinformatics, Ghent University, Ghent, Belgium
- VIB Center for Plant Systems Biology, Ghent, Belgium
| | - Angelo Dewitte
- Expertisecentrum Agro- en Biotechnologie, VIVES, Roeselare, Belgium
| | | | - Jan Van den Bulcke
- Laboratory of Wood Technology, Department of Environment, Faculty of Bioscience Engineering, Ghent University, Ghent, Belgium
| | - Joris Van Acker
- Laboratory of Wood Technology, Department of Environment, Faculty of Bioscience Engineering, Ghent University, Ghent, Belgium
| | - Bartel Vanholme
- Department of Plant Biotechnology and Bioinformatics, Ghent University, Ghent, Belgium
- VIB Center for Plant Systems Biology, Ghent, Belgium
| | - Wout Boerjan
- Department of Plant Biotechnology and Bioinformatics, Ghent University, Ghent, Belgium
- VIB Center for Plant Systems Biology, Ghent, Belgium
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5
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Paolo D, Locatelli F, Cominelli E, Pirona R, Pozzo S, Graziani G, Ritieni A, De Palma M, Docimo T, Tucci M, Sparvoli F. Towards a Cardoon ( Cynara cardunculus var. altilis)-Based Biorefinery: A Case Study of Improved Cell Cultures via Genetic Modulation of the Phenylpropanoid Pathway. Int J Mol Sci 2021; 22:ijms222111978. [PMID: 34769407 PMCID: PMC8584892 DOI: 10.3390/ijms222111978] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/13/2021] [Revised: 11/02/2021] [Accepted: 11/03/2021] [Indexed: 12/13/2022] Open
Abstract
Cultivated cardoon (Cynara cardunculus var. altilis L.) is a promising candidate species for the development of plant cell cultures suitable for large-scale biomass production and recovery of nutraceuticals. We set up a protocol for Agrobacterium tumefaciens-mediated transformation, which can be used for the improvement of cardoon cell cultures in a frame of biorefinery. As high lignin content determines lower saccharification yields for the biomass, we opted for a biotechnological approach, with the purpose of reducing lignin content; we generated transgenic lines overexpressing the Arabidopsis thaliana MYB4 transcription factor, a known repressor of lignin/flavonoid biosynthesis. Here, we report a comprehensive characterization, including metabolic and transcriptomic analyses of AtMYB4 overexpression cardoon lines, in comparison to wild type, underlining favorable traits for their use in biorefinery. Among these, the improved accessibility of the lignocellulosic biomass to degrading enzymes due to depletion of lignin content, the unexpected increased growth rates, and the valuable nutraceutical profiles, in particular for hydroxycinnamic/caffeoylquinic and fatty acids profiles.
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Affiliation(s)
- Dario Paolo
- National Research Council—Institute of Agricultural Biology and Biotechnology (CNR-IBBA), Via Edoardo Bassini 15, 20133 Milano, Italy; (F.L.); (E.C.); (R.P.); (S.P.)
- Correspondence: (D.P.); (F.S.); Tel.: +39-0223699407 (D.P.); +39-0223699435 (F.S.)
| | - Franca Locatelli
- National Research Council—Institute of Agricultural Biology and Biotechnology (CNR-IBBA), Via Edoardo Bassini 15, 20133 Milano, Italy; (F.L.); (E.C.); (R.P.); (S.P.)
| | - Eleonora Cominelli
- National Research Council—Institute of Agricultural Biology and Biotechnology (CNR-IBBA), Via Edoardo Bassini 15, 20133 Milano, Italy; (F.L.); (E.C.); (R.P.); (S.P.)
| | - Raul Pirona
- National Research Council—Institute of Agricultural Biology and Biotechnology (CNR-IBBA), Via Edoardo Bassini 15, 20133 Milano, Italy; (F.L.); (E.C.); (R.P.); (S.P.)
| | - Sara Pozzo
- National Research Council—Institute of Agricultural Biology and Biotechnology (CNR-IBBA), Via Edoardo Bassini 15, 20133 Milano, Italy; (F.L.); (E.C.); (R.P.); (S.P.)
| | - Giulia Graziani
- Department of Pharmacy—University of Naples Federico II (UNINA), Via Domenico Montesano 49, 80131 Naples, Italy; (G.G.); (A.R.)
| | - Alberto Ritieni
- Department of Pharmacy—University of Naples Federico II (UNINA), Via Domenico Montesano 49, 80131 Naples, Italy; (G.G.); (A.R.)
| | - Monica De Palma
- National Research Council—Institute of Bioscience and Bioresources (CNR-IBBR), Via Università 133, 80055 Portici, Italy; (M.D.P.); (T.D.); (M.T.)
| | - Teresa Docimo
- National Research Council—Institute of Bioscience and Bioresources (CNR-IBBR), Via Università 133, 80055 Portici, Italy; (M.D.P.); (T.D.); (M.T.)
| | - Marina Tucci
- National Research Council—Institute of Bioscience and Bioresources (CNR-IBBR), Via Università 133, 80055 Portici, Italy; (M.D.P.); (T.D.); (M.T.)
| | - Francesca Sparvoli
- National Research Council—Institute of Agricultural Biology and Biotechnology (CNR-IBBA), Via Edoardo Bassini 15, 20133 Milano, Italy; (F.L.); (E.C.); (R.P.); (S.P.)
- Correspondence: (D.P.); (F.S.); Tel.: +39-0223699407 (D.P.); +39-0223699435 (F.S.)
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6
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Yu H, Liu C, Dixon RA. A gene-editing/complementation strategy for tissue-specific lignin reduction while preserving biomass yield. BIOTECHNOLOGY FOR BIOFUELS 2021; 14:175. [PMID: 34479620 PMCID: PMC8417962 DOI: 10.1186/s13068-021-02026-5] [Citation(s) in RCA: 7] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/19/2021] [Accepted: 08/25/2021] [Indexed: 05/08/2023]
Abstract
BACKGROUND Lignification of secondary cell walls is a major factor conferring recalcitrance of lignocellulosic biomass to deconstruction for fuels and chemicals. Genetic modification can reduce lignin content and enhance saccharification efficiency, but usually at the cost of moderate-to-severe growth penalties. We have developed a method, using a single DNA construct that uses CRISPR-Cas9 gene editing to knock-out expression of an endogenous gene of lignin monomer biosynthesis while at the same time expressing a modified version of the gene's open reading frame that escapes cutting by the Cas9 system and complements the introduced mutation in a tissue-specific manner. RESULTS Expressing the complementing open reading frame in vessels allows for the regeneration of Arabidopsis plants with reduced lignin, wild-type biomass yield, and up to fourfold enhancement of cell wall sugar yield per plant. The above phenotypes are seen in both homozygous and bi-allelic heterozygous T1 lines, and are stable over at least four generations. CONCLUSIONS The method provides a rapid approach for generating reduced lignin trees or crops with one single transformation event, and, paired with a range of tissue-specific promoters, provides a general strategy for optimizing loss-of-function traits that are associated with growth penalties. This method should be applicable to any plant species in which transformation and gene editing are feasible and validated vessel-specific promoters are available.
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Affiliation(s)
- Hasi Yu
- BioDiscovery Institute and Department of Biological Sciences, University of North Texas, 1155 Union Circle #311428, Denton, TX, 76203, USA
- Center for Bioenergy Innovation (CBI), Oak Ridge National Laboratory, Oak Ridge, TN, 37831, USA
| | - Chang Liu
- BioDiscovery Institute and Department of Biological Sciences, University of North Texas, 1155 Union Circle #311428, Denton, TX, 76203, USA
| | - Richard A Dixon
- BioDiscovery Institute and Department of Biological Sciences, University of North Texas, 1155 Union Circle #311428, Denton, TX, 76203, USA.
- Center for Bioenergy Innovation (CBI), Oak Ridge National Laboratory, Oak Ridge, TN, 37831, USA.
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7
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De Meester B, Madariaga Calderón B, de Vries L, Pollier J, Goeminne G, Van Doorsselaere J, Chen M, Ralph J, Vanholme R, Boerjan W. Tailoring poplar lignin without yield penalty by combining a null and haploinsufficient CINNAMOYL-CoA REDUCTASE2 allele. Nat Commun 2020; 11:5020. [PMID: 33024118 PMCID: PMC7538556 DOI: 10.1038/s41467-020-18822-w] [Citation(s) in RCA: 32] [Impact Index Per Article: 8.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/31/2020] [Accepted: 09/16/2020] [Indexed: 01/09/2023] Open
Abstract
Lignin causes lignocellulosic biomass recalcitrance to enzymatic hydrolysis. Engineered low-lignin plants have reduced recalcitrance but often exhibit yield penalties, offsetting their gains in fermentable sugar yield. Here, CRISPR/Cas9-generated CCR2(−/*) line 12 poplars have one knockout CCR2 allele while the other contains a 3-bp deletion, resulting in a 114I115A-to-114T conversion in the corresponding protein. Despite having 10% less lignin, CCR2(−/*) line 12 grows normally. On a plant basis, the saccharification efficiency of CCR2(−/*) line 12 is increased by 25–41%, depending on the pretreatment. Analysis of monoallelic CCR2 knockout lines shows that the reduced lignin amount in CCR2(−/*) line 12 is due to the combination of a null and the specific haploinsufficient CCR2 allele. Analysis of another CCR2(−/*) line shows that depending on the specific CCR2 amino-acid change, lignin amount and growth can be affected to different extents. Our findings open up new possibilities for stably fine-tuning residual gene function in planta. Plants with reduced amounts of lignin typically suffer from dwarfed growth, which offsets their gain in fermentable sugar yield. Here, the authors show that genome-edited poplar lines with a null and a haploinsufficient allele of CINNAMOYL-COA REDUCTASE2 (CCR2) can be obtained that have a reduced lignin level and normal growth.
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Affiliation(s)
- Barbara De Meester
- Department of Plant Biotechnology and Bioinformatics, Ghent University, Technologiepark 71, 9052, Ghent, Belgium.,VIB Center for Plant Systems Biology, Technologiepark 71, 9052, Ghent, Belgium
| | - Barbara Madariaga Calderón
- Department of Plant Biotechnology and Bioinformatics, Ghent University, Technologiepark 71, 9052, Ghent, Belgium.,VIB Center for Plant Systems Biology, Technologiepark 71, 9052, Ghent, Belgium
| | - Lisanne de Vries
- Department of Plant Biotechnology and Bioinformatics, Ghent University, Technologiepark 71, 9052, Ghent, Belgium.,VIB Center for Plant Systems Biology, Technologiepark 71, 9052, Ghent, Belgium
| | - Jacob Pollier
- VIB Metabolomics Core, Technologiepark 71, 9052, Ghent, Belgium
| | - Geert Goeminne
- VIB Metabolomics Core, Technologiepark 71, 9052, Ghent, Belgium
| | - Jan Van Doorsselaere
- Higher Institute for Nursing and Biotechnology, VIVES University College, Wilgenstraat 32, 8800, Roeselare, Belgium
| | - Mingjie Chen
- Department of Biochemistry, University of Wisconsin-Madison, Madison, WI, 53706, USA.,US Department of Energy, Great Lakes Bioenergy Research Center, Wisconsin Energy Institute, Madison, WI, 53726, USA
| | - John Ralph
- Department of Biochemistry, University of Wisconsin-Madison, Madison, WI, 53706, USA.,US Department of Energy, Great Lakes Bioenergy Research Center, Wisconsin Energy Institute, Madison, WI, 53726, USA
| | - Ruben Vanholme
- Department of Plant Biotechnology and Bioinformatics, Ghent University, Technologiepark 71, 9052, Ghent, Belgium.,VIB Center for Plant Systems Biology, Technologiepark 71, 9052, Ghent, Belgium
| | - Wout Boerjan
- Department of Plant Biotechnology and Bioinformatics, Ghent University, Technologiepark 71, 9052, Ghent, Belgium. .,VIB Center for Plant Systems Biology, Technologiepark 71, 9052, Ghent, Belgium.
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8
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Ployet R, Veneziano Labate MT, Regiani Cataldi T, Christina M, Morel M, San Clemente H, Denis M, Favreau B, Tomazello Filho M, Laclau JP, Labate CA, Chaix G, Grima-Pettenati J, Mounet F. A systems biology view of wood formation in Eucalyptus grandis trees submitted to different potassium and water regimes. THE NEW PHYTOLOGIST 2019; 223:766-782. [PMID: 30887522 DOI: 10.1111/nph.15802] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/10/2018] [Accepted: 02/28/2019] [Indexed: 05/02/2023]
Abstract
Wood production in fast-growing Eucalyptus grandis trees is highly dependent on both potassium (K) fertilization and water availability but the molecular processes underlying wood formation in response to the combined effects of these two limiting factors remain unknown. E. grandis trees were submitted to four combinations of K-fertilization and water supply. Weighted gene co-expression network analysis and MixOmics-based co-regulation networks were used to integrate xylem transcriptome, metabolome and complex wood traits. Functional characterization of a candidate gene was performed in transgenic E. grandis hairy roots. This integrated network-based approach enabled us to identify meaningful biological processes and regulators impacted by K-fertilization and/or water limitation. It revealed that modules of co-regulated genes and metabolites strongly correlated to wood complex traits are in the heart of a complex trade-off between biomass production and stress responses. Nested in these modules, potential new cell-wall regulators were identified, as further confirmed by the functional characterization of EgMYB137. These findings provide new insights into the regulatory mechanisms of wood formation under stressful conditions, pointing out both known and new regulators co-opted by K-fertilization and/or water limitation that may potentially promote adaptive wood traits.
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Affiliation(s)
- Raphael Ployet
- Laboratoire de Recherche en Sciences Végétales, Université de Toulouse III, CNRS, UPS, 31326, Castanet-Tolosan, France
| | - Mônica T Veneziano Labate
- Max Feffer Laboratory for Plant Genetics, Department of Genetics, College of Agriculture 'Luiz de Queiroz', University of São Paulo, Av. Pádua Dias 11, PO Box 09, Piracicaba-SP, 13418-900, Brazil
| | - Thais Regiani Cataldi
- Max Feffer Laboratory for Plant Genetics, Department of Genetics, College of Agriculture 'Luiz de Queiroz', University of São Paulo, Av. Pádua Dias 11, PO Box 09, Piracicaba-SP, 13418-900, Brazil
| | - Mathias Christina
- CIRAD, UMR ECO&SOLS, F-34398, Montpellier, France
- Department of Forest Resource, Luiz de Queiroz College of Agriculture, University of São Paulo, Av. Pádua Dias N° 11, Piracicaba, São Paulo, 13418-900, Brazil
| | - Marie Morel
- Laboratoire de Recherche en Sciences Végétales, Université de Toulouse III, CNRS, UPS, 31326, Castanet-Tolosan, France
| | - Hélène San Clemente
- Laboratoire de Recherche en Sciences Végétales, Université de Toulouse III, CNRS, UPS, 31326, Castanet-Tolosan, France
| | - Marie Denis
- CIRAD, UMR AGAP, 34395, Montpellier, Cedex 9, France
- UMR AGAP, CIRAD, INRA, Montpellier SupAgro, Montpellier, France
| | - Bénédicte Favreau
- CIRAD, UMR AGAP, 34395, Montpellier, Cedex 9, France
- UMR AGAP, CIRAD, INRA, Montpellier SupAgro, Montpellier, France
| | - Mario Tomazello Filho
- Department of Forest Resource, Luiz de Queiroz College of Agriculture, University of São Paulo, Av. Pádua Dias N° 11, Piracicaba, São Paulo, 13418-900, Brazil
| | - Jean-Paul Laclau
- CIRAD, UMR ECO&SOLS, F-34398, Montpellier, France
- Department of Forest Resource, Luiz de Queiroz College of Agriculture, University of São Paulo, Av. Pádua Dias N° 11, Piracicaba, São Paulo, 13418-900, Brazil
| | - Carlos Alberto Labate
- Max Feffer Laboratory for Plant Genetics, Department of Genetics, College of Agriculture 'Luiz de Queiroz', University of São Paulo, Av. Pádua Dias 11, PO Box 09, Piracicaba-SP, 13418-900, Brazil
| | - Gilles Chaix
- Department of Forest Resource, Luiz de Queiroz College of Agriculture, University of São Paulo, Av. Pádua Dias N° 11, Piracicaba, São Paulo, 13418-900, Brazil
- CIRAD, UMR AGAP, 34395, Montpellier, Cedex 9, France
- UMR AGAP, CIRAD, INRA, Montpellier SupAgro, Montpellier, France
| | - Jacqueline Grima-Pettenati
- Laboratoire de Recherche en Sciences Végétales, Université de Toulouse III, CNRS, UPS, 31326, Castanet-Tolosan, France
| | - Fabien Mounet
- Laboratoire de Recherche en Sciences Végétales, Université de Toulouse III, CNRS, UPS, 31326, Castanet-Tolosan, France
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9
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Oyarce P, De Meester B, Fonseca F, de Vries L, Goeminne G, Pallidis A, De Rycke R, Tsuji Y, Li Y, Van den Bosch S, Sels B, Ralph J, Vanholme R, Boerjan W. Introducing curcumin biosynthesis in Arabidopsis enhances lignocellulosic biomass processing. NATURE PLANTS 2019; 5:225-237. [PMID: 30692678 DOI: 10.1038/s41477-018-0350-3] [Citation(s) in RCA: 19] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/04/2018] [Accepted: 12/14/2018] [Indexed: 05/19/2023]
Abstract
Lignin is the main cause of lignocellulosic biomass recalcitrance to industrial enzymatic hydrolysis. By partially replacing the traditional lignin monomers by alternative ones, lignin extractability can be enhanced. To design a lignin that is easier to degrade under alkaline conditions, curcumin (diferuloylmethane) was produced in the model plant Arabidopsis thaliana via simultaneous expression of the turmeric (Curcuma longa) genes DIKETIDE-CoA SYNTHASE (DCS) and CURCUMIN SYNTHASE 2 (CURS2). The transgenic plants produced a plethora of curcumin- and phenylpentanoid-derived compounds with no negative impact on growth. Catalytic hydrogenolysis gave evidence that both curcumin and phenylpentanoids were incorporated into the lignifying cell wall, thereby significantly increasing saccharification efficiency after alkaline pretreatment of the transgenic lines by 14-24% as compared with the wild type. These results demonstrate that non-native monomers can be synthesized and incorporated into the lignin polymer in plants to enhance their biomass processing efficiency.
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Affiliation(s)
- Paula Oyarce
- Department of Plant Biotechnology and Bioinformatics, Ghent University, Ghent, Belgium
- VIB Center for Plant Systems Biology, Ghent, Belgium
| | - Barbara De Meester
- Department of Plant Biotechnology and Bioinformatics, Ghent University, Ghent, Belgium
- VIB Center for Plant Systems Biology, Ghent, Belgium
| | - Fernando Fonseca
- Department of Plant Biotechnology and Bioinformatics, Ghent University, Ghent, Belgium
- VIB Center for Plant Systems Biology, Ghent, Belgium
| | - Lisanne de Vries
- Department of Plant Biotechnology and Bioinformatics, Ghent University, Ghent, Belgium
- VIB Center for Plant Systems Biology, Ghent, Belgium
| | - Geert Goeminne
- Department of Plant Biotechnology and Bioinformatics, Ghent University, Ghent, Belgium
- VIB Center for Plant Systems Biology, Ghent, Belgium
- VIB Metabolomics Core, Ghent, Belgium
| | - Andreas Pallidis
- Department of Plant Biotechnology and Bioinformatics, Ghent University, Ghent, Belgium
- VIB Center for Plant Systems Biology, Ghent, Belgium
| | - Riet De Rycke
- Department of Plant Biotechnology and Bioinformatics, Ghent University, Ghent, Belgium
- VIB Center for Plant Systems Biology, Ghent, Belgium
- VIB Metabolomics Core, Ghent, Belgium
- Ghent University Expertise Centre for Transmission Electron Microscopy and VIB BioImaging Core, Ghent, Belgium
| | - Yukiko Tsuji
- Department of Biochemistry, University of Wisconsin, Madison, WI, USA
- US Department of Energy, Great Lakes Bioenergy Research Center, Wisconsin Energy Institute, Madison, WI, USA
| | - Yanding Li
- Department of Biochemistry, University of Wisconsin, Madison, WI, USA
- US Department of Energy, Great Lakes Bioenergy Research Center, Wisconsin Energy Institute, Madison, WI, USA
| | | | - Bert Sels
- Center for Surface Chemistry and Catalysis, KU Leuven, Heverlee, Belgium
| | - John Ralph
- Department of Biochemistry, University of Wisconsin, Madison, WI, USA
- US Department of Energy, Great Lakes Bioenergy Research Center, Wisconsin Energy Institute, Madison, WI, USA
| | - Ruben Vanholme
- Department of Plant Biotechnology and Bioinformatics, Ghent University, Ghent, Belgium
- VIB Center for Plant Systems Biology, Ghent, Belgium
- VIB Metabolomics Core, Ghent, Belgium
| | - Wout Boerjan
- Department of Plant Biotechnology and Bioinformatics, Ghent University, Ghent, Belgium.
- VIB Center for Plant Systems Biology, Ghent, Belgium.
- VIB Metabolomics Core, Ghent, Belgium.
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10
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de Vries L, Vanholme R, Van Acker R, De Meester B, Sundin L, Boerjan W. Stacking of a low-lignin trait with an increased guaiacyl and 5-hydroxyguaiacyl unit trait leads to additive and synergistic effects on saccharification efficiency in Arabidopsis thaliana. BIOTECHNOLOGY FOR BIOFUELS 2018; 11:257. [PMID: 30250509 PMCID: PMC6146604 DOI: 10.1186/s13068-018-1257-y] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/16/2018] [Accepted: 09/10/2018] [Indexed: 05/19/2023]
Abstract
BACKGROUND Lignocellulosic biomass, such as wood and straw, is an interesting feedstock for the production of fermentable sugars. However, mainly due to the presence of lignin, this type of biomass is recalcitrant to saccharification. In Arabidopsis, lignocellulosic biomass with a lower lignin content or with lignin with an increased fraction of guaiacyl (G) and 5-hydroxyguaiacyl (5H) units shows an increased saccharification efficiency. Here, we stacked these two traits and studied the effect on the saccharification efficiency and biomass yield, by combining either transaldolase (tra2), cinnamate 4-hydroxylase (c4h-3), or 4-coumarate:CoA ligase (4cl1-1) with caffeic acid O-methyltransferase (comt-1 or comt-4) mutants. RESULTS The three double mutants (tra2 comt-1, c4h-3 comt-4, and 4cl1-1 comt-4) had a decreased lignin amount and an increase in G and 5H units in the lignin polymer compared to wild-type (WT) plants. The tra2 comt-1 double mutant had a better saccharification efficiency compared to the parental lines when an acid or alkaline pretreatment was used. For the double mutants, c4h-3 comt-4 and 4cl1-1 comt-4, the saccharification efficiency was significantly higher compared to WT and its parental lines, independent of the pretreatment used. When no pretreatment was used, the saccharification efficiency increased even synergistically for these mutants. CONCLUSION Our results show that saccharification efficiency can be improved by combining two different mutant lignin traits, leading to plants with an even higher saccharification efficiency, without having a yield reduction of the primary inflorescence stem. This approach can help improve saccharification efficiency in bio-energy crops.
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Affiliation(s)
- Lisanne de Vries
- Department of Plant Biotechnology and Bioinformatics, Ghent University, Technologiepark 927, 9052 Ghent, Belgium
- VIB Center for Plant Systems Biology, Technologiepark 927, 9052 Ghent, Belgium
| | - Ruben Vanholme
- Department of Plant Biotechnology and Bioinformatics, Ghent University, Technologiepark 927, 9052 Ghent, Belgium
- VIB Center for Plant Systems Biology, Technologiepark 927, 9052 Ghent, Belgium
| | - Rebecca Van Acker
- Department of Plant Biotechnology and Bioinformatics, Ghent University, Technologiepark 927, 9052 Ghent, Belgium
- VIB Center for Plant Systems Biology, Technologiepark 927, 9052 Ghent, Belgium
| | - Barbara De Meester
- Department of Plant Biotechnology and Bioinformatics, Ghent University, Technologiepark 927, 9052 Ghent, Belgium
- VIB Center for Plant Systems Biology, Technologiepark 927, 9052 Ghent, Belgium
| | - Lisa Sundin
- Department of Plant Biotechnology and Bioinformatics, Ghent University, Technologiepark 927, 9052 Ghent, Belgium
- VIB Center for Plant Systems Biology, Technologiepark 927, 9052 Ghent, Belgium
| | - Wout Boerjan
- Department of Plant Biotechnology and Bioinformatics, Ghent University, Technologiepark 927, 9052 Ghent, Belgium
- VIB Center for Plant Systems Biology, Technologiepark 927, 9052 Ghent, Belgium
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