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Forestier ECF, Cording AC, Loake GJ, Graham IA. An Engineered Heat-Inducible Expression System for the Production of Casbene in Nicotiana benthamiana. Int J Mol Sci 2023; 24:11425. [PMID: 37511181 PMCID: PMC10379985 DOI: 10.3390/ijms241411425] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/05/2023] [Revised: 06/29/2023] [Accepted: 07/08/2023] [Indexed: 07/30/2023] Open
Abstract
Plants respond to heat stress by producing heat-shock proteins. These are regulated by heat-shock promoters containing regulatory elements, which can be harnessed to control protein expression both temporally and spatially. In this study, we designed heat-inducible promoters to produce the diterpene casbene in Nicotiana benthamiana, through a multi-step metabolic pathway. To potentially increase gene transcription, we coupled heat-shock elements from Arabidopsis thaliana Hsp101 or Glycine max GmHsp17.3-B promoters, CAAT and TATA boxes from CaMV 35S, and the 5'UTR from the tobacco mosaic virus. The resulting four chimeric promoters fused to a green fluorescent protein (GFP) reporter showed that the variant Ara2 had the strongest fluorescent signal after heat shock. We next created a 4-gene cassette driven by the Ara2 promoter to allow for exogenous synthesis of casbene and transformed this multigene construct along with a selectable marker gene into Nicotiana benthamiana. Metabolic analysis on the transgenic lines revealed that continuous heat outperforms heat shock, with up to 1 μg/mg DW of casbene detected after 32 h of uninterrupted 40 °C heat. These results demonstrate the potential of heat-inducible promoters as synthetic biology tools for metabolite production in plants.
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Affiliation(s)
- Edith C F Forestier
- Centre for Novel Agricultural Products (CNAP), Department of Biology, University of York, Wentworth Way, York YO10 5DD, UK
| | - Amy C Cording
- Centre for Novel Agricultural Products (CNAP), Department of Biology, University of York, Wentworth Way, York YO10 5DD, UK
| | - Gary J Loake
- Institute of Molecular Plant Sciences, Daniel Rutherford Building, School of Biological Sciences, University of Edinburgh, Kings Buildings, Mayfield Road, Edinburgh EH9 3JH, UK
| | - Ian A Graham
- Centre for Novel Agricultural Products (CNAP), Department of Biology, University of York, Wentworth Way, York YO10 5DD, UK
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2
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Carnielli JB, Dave A, Romano A, Forrester S, de Faria PR, Monti-Rocha R, Costa CH, Dietze R, Graham IA, Mottram JC. 3'Nucleotidase/nuclease is required for Leishmania infantum clinical isolate susceptibility to miltefosine. EBioMedicine 2022; 86:104378. [PMID: 36462405 PMCID: PMC9713291 DOI: 10.1016/j.ebiom.2022.104378] [Citation(s) in RCA: 4] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/04/2022] [Revised: 10/20/2022] [Accepted: 11/08/2022] [Indexed: 12/05/2022] Open
Abstract
BACKGROUND Miltefosine treatment failure in visceral leishmaniasis in Brazil has been associated with deletion of the miltefosine susceptibility locus (MSL) in Leishmania infantum. The MSL comprises four genes, 3'-nucleotidase/nucleases (NUC1 and NUC2); helicase-like protein (HLP); and 3,2-trans-enoyl-CoA isomerase (TEI). METHODS In this study CRISPR-Cas9 was used to either epitope tag or delete NUC1, NUC2, HLP and TEI, to investigate their role in miltefosine resistance mechanisms. Additionally, miltefosine transporter genes and miltefosine-mediated reactive oxygen species homeostasis were assessed in 26 L. infantum clinical isolates. A comparative lipidomic analysis was also performed to investigate the molecular basis of miltefosine resistance. FINDINGS Deletion of both NUC1, NUC2 from the MSL was associated with a significant decrease in miltefosine susceptibility, which was restored after re-expression. Metabolomic analysis of parasites lacking the MSL or NUC1 and NUC2 identified an increase in the parasite lipid content, including ergosterol; these lipids may contribute to miltefosine resistance by binding the drug in the membrane. Parasites lacking the MSL are more resistant to lipid metabolism perturbation caused by miltefosine and NUC1 and NUC2 are involved in this pathway. Additionally, L. infantum parasites lacking the MSL isolated from patients who relapsed after miltefosine treatment were found to modulate nitric oxide accumulation in host macrophages. INTERPRETATION Altogether, these data indicate that multifactorial mechanisms are involved in natural resistance to miltefosine in L. infantum and that the absence of the 3'nucleotidase/nuclease genes NUC1 and NUC2 contributes to the phenotype. FUNDING MRC GCRF and FAPES.
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Affiliation(s)
- Juliana B.T. Carnielli
- York Biomedical Research Institute, Department of Biology, University of York, United Kingdom,Laboratório de Leishmanioses, Núcleo de Doenças Infecciosas, Universidade Federal do Espírito Santo, Vitória-ES, Brazil,Corresponding author. York Biomedical Research Institute, Department of Biology, University of York, Wentworth Way Heslington, York, YO10 5DD, United Kingdom.
| | - Anuja Dave
- Centre for Novel Agricultural Products, Department of Biology, University of York, United Kingdom
| | - Audrey Romano
- York Biomedical Research Institute, Department of Biology, University of York, United Kingdom
| | - Sarah Forrester
- York Biomedical Research Institute, Department of Biology, University of York, United Kingdom
| | - Pedro R. de Faria
- Laboratório de Leishmanioses, Núcleo de Doenças Infecciosas, Universidade Federal do Espírito Santo, Vitória-ES, Brazil
| | - Renata Monti-Rocha
- Laboratório de Leishmanioses, Núcleo de Doenças Infecciosas, Universidade Federal do Espírito Santo, Vitória-ES, Brazil
| | - Carlos H.N. Costa
- Laboratório de Pesquisas em Leishmanioses, Instituto de Doenças Tropicais Natan Portella, Universidade Federal do Piauí, Teresina-PI, Brazil
| | - Reynaldo Dietze
- Laboratório de Leishmanioses, Núcleo de Doenças Infecciosas, Universidade Federal do Espírito Santo, Vitória-ES, Brazil,Global Health & Tropical Medicine—Instituto de Higiene e Medicina Tropical—Universidade Nova de Lisboa, Lisbon, Portugal
| | - Ian A. Graham
- Centre for Novel Agricultural Products, Department of Biology, University of York, United Kingdom
| | - Jeremy C. Mottram
- York Biomedical Research Institute, Department of Biology, University of York, United Kingdom,Corresponding author. York Biomedical Research Institute, Department of Biology, University of York, Wentworth Way Heslington, York, YO10 5DD, United Kingdom.
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Czechowski T, Branigan C, Rae A, Rathbone D, Larson TR, Harvey D, Catania TM, Zhang D, Li Y, Salmon M, Bowles DJ, O´Maille P, Graham IA. Artemisia annua L. plants lacking Bornyl diPhosphate Synthase reallocate carbon from monoterpenes to sesquiterpenes except artemisinin. Front Plant Sci 2022; 13:1000819. [PMID: 36311056 PMCID: PMC9597464 DOI: 10.3389/fpls.2022.1000819] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 07/22/2022] [Accepted: 09/20/2022] [Indexed: 06/16/2023]
Abstract
The monoterpene camphor is produced in glandular secretory trichomes of the medicinal plant Artemisia annua, which also produces the antimalarial drug artemisinin. We have found that, depending on growth conditions, camphor can accumulate at levels ranging from 1- 10% leaf dry weight (LDW) in the Artemis F1 hybrid, which has been developed for commercial production of artemisinin at up to 1% LDW. We discovered that a camphor null (camphor-0) phenotype segregates in the progeny of self-pollinated Artemis material. Camphor-0 plants also show reduced levels of other less abundant monoterpenes and increased levels of the sesquiterpene precursor farnesyl pyrophosphate plus sesquiterpenes, including enzymatically derived artemisinin pathway intermediates but not artemisinin. One possible explanation for this is that high camphor concentrations in the glandular secretory trichomes play an important role in generating the hydrophobic conditions required for the non-enzymatic conversion of dihydroartemisinic acid tertiary hydroperoxide to artemisinin. We established that the camphor-0 phenotype associates with a genomic deletion that results in loss of a Bornyl diPhosphate Synthase (AaBPS) gene candidate. Functional characterization of the corresponding enzyme in vitro confirmed it can catalyze the first committed step in not only camphor biosynthesis but also in a number of other monoterpenes, accounting for over 60% of total volatiles in A. annua leaves. This in vitro analysis is consistent with loss of monoterpenes in camphor-0 plants. The AaBPS promoter drives high reporter gene expression in A. annua glandular secretory trichomes of juvenile leaves with expression shifting to non-glandular trichomes in mature leaves, which is consistent with AaBPS transcript abundance.
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Affiliation(s)
- Tomasz Czechowski
- Centre for Novel Agricultural Products, Department of Biology, University of York, Heslington, York, United Kingdom
| | - Caroline Branigan
- Centre for Novel Agricultural Products, Department of Biology, University of York, Heslington, York, United Kingdom
| | - Anne Rae
- Centre for Novel Agricultural Products, Department of Biology, University of York, Heslington, York, United Kingdom
- Cherry Valley Farms Ltd, Cherry Valley House, Unit 1 Blossom Avenue, Humberston, North East Lincolnshire, United Kingdom
| | - Deborah Rathbone
- Centre for Novel Agricultural Products, Department of Biology, University of York, Heslington, York, United Kingdom
- Biorenewables Development Centre, 1 Hassacarr Close, Chessingham Park, Dunnington, York, United Kingdom
| | - Tony R. Larson
- Centre for Novel Agricultural Products, Department of Biology, University of York, Heslington, York, United Kingdom
| | - David Harvey
- Centre for Novel Agricultural Products, Department of Biology, University of York, Heslington, York, United Kingdom
| | - Theresa M. Catania
- Centre for Novel Agricultural Products, Department of Biology, University of York, Heslington, York, United Kingdom
| | - Dong Zhang
- Centre for Novel Agricultural Products, Department of Biology, University of York, Heslington, York, United Kingdom
- College of Agriculture, South China Agricultural University, Guangzhou, China
| | - Yi Li
- Centre for Novel Agricultural Products, Department of Biology, University of York, Heslington, York, United Kingdom
| | - Melissa Salmon
- Department of Metabolic Biology, John Innes Centre, Norwich Research Park, Norwich, United Kingdom
- Patron Lab, Earlham Institute, Norwich Research Park, Norwich, Norfolk, United Kingdom
| | - Dianna J. Bowles
- Centre for Novel Agricultural Products, Department of Biology, University of York, Heslington, York, United Kingdom
| | - Paul O´Maille
- Department of Metabolic Biology, John Innes Centre, Norwich Research Park, Norwich, United Kingdom
- SRI International, 333 Ravenswood Avenue, Menlo Park, CA, United States
| | - Ian A. Graham
- Centre for Novel Agricultural Products, Department of Biology, University of York, Heslington, York, United Kingdom
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4
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Zhan C, Shen S, Yang C, Liu Z, Fernie AR, Graham IA, Luo J. Plant metabolic gene clusters in the multi-omics era. Trends Plant Sci 2022; 27:981-1001. [PMID: 35365433 DOI: 10.1016/j.tplants.2022.03.002] [Citation(s) in RCA: 23] [Impact Index Per Article: 11.5] [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: 10/07/2021] [Revised: 02/02/2022] [Accepted: 03/03/2022] [Indexed: 06/14/2023]
Abstract
Secondary metabolism in plants gives rise to a vast array of small-molecule natural products. The discovery of operon-like gene clusters in plants has provided a new perspective on the evolution of specialized metabolism and the opportunity to rapidly advance the metabolic engineering of natural product production. Here, we review historical aspects of the study of plant metabolic gene clusters as well as general strategies for identifying plant metabolic gene clusters in the multi-omics era. We also emphasize the exploration of their natural variation and evolution, as well as new strategies for the prospecting of plant metabolic gene clusters and a deeper understanding of how their structure influences their function.
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Affiliation(s)
- Chuansong Zhan
- College of Tropical Crops, Hainan University, Haikou 570228, China; Sanya Nanfan Research Institute of Hainan University, Hainan Yazhou Bay Seed Laboratory, Sanya 572025, China
| | - Shuangqian Shen
- College of Tropical Crops, Hainan University, Haikou 570228, China; National Key Laboratory of Crop Genetic Improvement and National Center of Plant Gene Research (Wuhan), Huazhong Agricultural University, Wuhan 430070, China
| | - Chenkun Yang
- National Key Laboratory of Crop Genetic Improvement and National Center of Plant Gene Research (Wuhan), Huazhong Agricultural University, Wuhan 430070, China
| | - Zhenhua Liu
- Joint Center for Single Cell Biology, School of Agriculture and Biology, Shanghai Jiao Tong University, Shanghai 200240, China
| | - Alisdair R Fernie
- Max-Planck-Institut fur Molekulare Pflanzenphysiologie, Am Muhlenberg 1, 14476 Potsdam-Golm, Germany; Center of Plant Systems Biology and Biotechnology, 4000 Plovdiv, Bulgaria
| | - Ian A Graham
- Center for Novel Agricultural Products, Department of Biology, University of York, York, UK
| | - Jie Luo
- College of Tropical Crops, Hainan University, Haikou 570228, China; Sanya Nanfan Research Institute of Hainan University, Hainan Yazhou Bay Seed Laboratory, Sanya 572025, China.
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5
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Catania T, Li Y, Winzer T, Harvey D, Meade F, Caridi A, Leech A, Larson TR, Ning Z, Chang J, Van de Peer Y, Graham IA. Author Correction: A functionally conserved STORR gene fusion in Papaver species that diverged 16.8 million years ago. Nat Commun 2022; 13:3755. [PMID: 35768458 PMCID: PMC9242987 DOI: 10.1038/s41467-022-31568-x] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Download PDF] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/09/2022] Open
Affiliation(s)
- Theresa Catania
- Centre for Novel Agricultural Products, Department of Biology, University of York, York, YO10 5DD, UK
| | - Yi Li
- Centre for Novel Agricultural Products, Department of Biology, University of York, York, YO10 5DD, UK
| | - Thilo Winzer
- Centre for Novel Agricultural Products, Department of Biology, University of York, York, YO10 5DD, UK
| | - David Harvey
- Centre for Novel Agricultural Products, Department of Biology, University of York, York, YO10 5DD, UK
| | - Fergus Meade
- Centre for Novel Agricultural Products, Department of Biology, University of York, York, YO10 5DD, UK
| | - Anna Caridi
- Centre for Novel Agricultural Products, Department of Biology, University of York, York, YO10 5DD, UK
| | - Andrew Leech
- Bioscience Technology Facility, Department of Biology, University of York, York, YO10 5DD, UK
| | - Tony R Larson
- Bioscience Technology Facility, Department of Biology, University of York, York, YO10 5DD, UK
| | - Zemin Ning
- The Wellcome Sanger Institute, Wellcome Genome Campus, Hinxton, Cambridge, CB10 1SA, UK
| | - Jiyang Chang
- Department of Plant Biotechnology and Bioinformatics, Ghent University, and VIB Centre for Plant Systems Biology, 9052, Ghent, Belgium
| | - Yves Van de Peer
- Department of Plant Biotechnology and Bioinformatics, Ghent University, and VIB Centre for Plant Systems Biology, 9052, Ghent, Belgium.,Centre for Microbial Ecology and Genomics, Department of Biochemistry, Genetics and Microbiology, University of Pretoria, Pretoria, 0028, South Africa.,College of Horticulture, Academy for Advanced Interdisciplinary Studies, Nanjing Agricultural University, Nanjing, China
| | - Ian A Graham
- Centre for Novel Agricultural Products, Department of Biology, University of York, York, YO10 5DD, UK.
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6
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Blayney J, Geary J, Chrisp R, Violet J, Barratt L, Tavukçu L, Paine K, Vaistij FE, Graham IA, Denby KJ, White RJ. Impact on Arabidopsis growth and stress resistance of depleting the Maf1 repressor of RNA polymerase III. Gene 2022; 815:146130. [PMID: 35017035 DOI: 10.1016/j.gene.2021.146130] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/10/2021] [Revised: 12/07/2021] [Accepted: 12/15/2021] [Indexed: 11/30/2022]
Abstract
Maf1 is a transcription factor that is conserved in sequence and structure between yeasts, animals and plants. Its principal molecular function is also well conserved, being to bind and repress RNA polymerase (pol) III, thereby inhibiting synthesis of tRNAs and other noncoding RNAs. Restrictions on tRNA production and hence protein synthesis can provide a mechanism to preserve resources under conditions that are suboptimal for growth. Accordingly, Maf1 is found in some organisms to influence growth and/or stress survival. Because of their sessile nature, plants are especially vulnerable to environmental changes and molecular adaptations that enhance growth under benign circumstances can increase sensitivity to external challenges. We tested if Maf1 depletion in the model plant Arabidopsis affects growth, pathogen resistance and tolerance of drought or soil salinity, a common physiological challenge that imposes both osmotic and ionic stress. We find that disruption of the Maf1 gene or RNAi-mediated depletion of its transcript is well-tolerated and confers a modest growth advantage without compromising resistance to common biotic and abiotic challenges.
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Affiliation(s)
- Joseph Blayney
- Department of Biology, University of York, Heslington, York YO10 5DD, UK
| | - James Geary
- Department of Biology, University of York, Heslington, York YO10 5DD, UK
| | - Ruby Chrisp
- Department of Biology, University of York, Heslington, York YO10 5DD, UK
| | - Joseph Violet
- Department of Biology, University of York, Heslington, York YO10 5DD, UK
| | - Liam Barratt
- Department of Biology, University of York, Heslington, York YO10 5DD, UK
| | - Laçin Tavukçu
- Department of Biology, University of York, Heslington, York YO10 5DD, UK
| | - Katherine Paine
- Department of Biology, University of York, Heslington, York YO10 5DD, UK
| | - Fabián E Vaistij
- Centre for Novel Agricultural Products (CNAP), Department of Biology, University of York, Heslington, York YO10 5DD, UK
| | - Ian A Graham
- Centre for Novel Agricultural Products (CNAP), Department of Biology, University of York, Heslington, York YO10 5DD, UK
| | - Katherine J Denby
- Centre for Novel Agricultural Products (CNAP), Department of Biology, University of York, Heslington, York YO10 5DD, UK
| | - Robert J White
- Department of Biology, University of York, Heslington, York YO10 5DD, UK.
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7
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Forestier ECF, Brown GD, Harvey D, Larson TR, Graham IA. Engineering Production of a Novel Diterpene Synthase Precursor in Nicotiana benthamiana. Front Plant Sci 2021; 12:757186. [PMID: 34745188 PMCID: PMC8564105 DOI: 10.3389/fpls.2021.757186] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 08/11/2021] [Accepted: 09/15/2021] [Indexed: 06/13/2023]
Abstract
Diterpene biosynthesis commonly originates with the methylerythritol phosphate (MEP) pathway in chloroplasts, leading to the C20 substrate, geranylgeranyl pyrophosphate (GGPP). The previous work demonstrated that over-expression of genes responsible for the first and last steps in the MEP pathway in combination with GERANYLGERANYL PYROPHOSPHATE SYNTHASE (GGPPS) and CASBENE SYNTHASE (CAS) is optimal for increasing flux through to casbene in Nicotiana benthamiana. When the gene responsible for the last step in the MEP pathway, 4-HYDROXY-3-METHYLBUT-2-ENYL DIPHOSPHATE REDUCTASE (HDR), is removed from this combination, casbene is still produced but at lower amounts. Here, we report the unexpected finding that this reduced gene combination also results in the production of 16-hydroxy-casbene (16-OH-casbene), consistent with the presence of 16-hydroxy-geranylgeranyl phosphate (16-OH-GGPP) in the same material. Indirect evidence suggests the latter is formed as a result of elevated levels of 4-hydroxy-3-methyl-but-2-enyl pyrophosphate (HMBPP) caused by a bottleneck at the HDR step responsible for conversion of HMBPP to dimethylallyl pyrophosphate (DMAPP). Over-expression of a GERANYLLINALOOL SYNTHASE from Nicotiana attenuata (NaGLS) produces 16-hydroxy-geranyllinalool (16-OH-geranyllinalool) when transiently expressed with the same reduced combination of MEP pathway genes in N. benthamiana. This work highlights the importance of pathway flux control in metabolic pathway engineering and the possibility of increasing terpene diversity through synthetic biology.
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Affiliation(s)
- Edith C. F. Forestier
- Department of Biology, Centre for Novel Agricultural Products, University of York, York, United Kingdom
| | - Geoffrey D. Brown
- Department of Chemistry, University of Reading, Reading, United Kingdom
| | - David Harvey
- Department of Biology, Centre for Novel Agricultural Products, University of York, York, United Kingdom
| | - Tony R. Larson
- Department of Biology, Centre for Novel Agricultural Products, University of York, York, United Kingdom
| | - Ian A. Graham
- Department of Biology, Centre for Novel Agricultural Products, University of York, York, United Kingdom
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Forestier EC, Czechowski T, Cording AC, Gilday AD, King AJ, Brown GD, Graham IA. Developing a Nicotiana benthamiana transgenic platform for high-value diterpene production and candidate gene evaluation. Plant Biotechnol J 2021; 19:1614-1623. [PMID: 33657678 PMCID: PMC8384591 DOI: 10.1111/pbi.13574] [Citation(s) in RCA: 10] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/28/2020] [Revised: 01/24/2021] [Accepted: 02/23/2021] [Indexed: 05/25/2023]
Abstract
To engineer Nicotiana benthamiana to produce novel diterpenoids, we first aimed to increase production of the diterpenoid precursor geranylgeranyl pyrophosphate (GGPP) by up-regulation of key genes of the non-mevalonate (MEP) pathway sourced from Arabidopsis thaliana. We used transient expression to evaluate combinations of the eight MEP pathway genes plus GGPP synthase and a Jatropha curcas casbene synthase (JcCAS) to identify an optimal combination for production of casbene from GGPP. AtDXS and AtHDR together with AtGGPPS and JcCAS gave a 410% increase in casbene production compared to transient expression of JcCAS alone. This combination was cloned into a single construct using the MoClo toolkit, and stably integrated into the N. benthamiana genome. We also created multigene constructs for stable transformation of two J. curcas cytochrome P450 genes, JcCYP726A20 and JcCYP71D495 that produce the more complex diterpenoid jolkinol C from casbene when expressed transiently with JcCAS in N. benthamiana. Stable transformation of JcCYP726A20, JcCYP71D495 and JcCAS did not produce any detectable jolkinol C until these genes were co-transformed with the optimal set of precursor-pathway genes. One such stable homozygous line was used to evaluate by transient expression the involvement of an 'alkenal reductase'-like family of four genes in the further conversion of jolkinol C, leading to the demonstration that one of these performs reduction of the 12,13-double bond in jolkinol C. This work highlights the need to optimize precursor supply for production of complex diterpenoids in stable transformants and the value of such lines for novel gene discovery.
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Affiliation(s)
- Edith C.F. Forestier
- Centre for Novel Agricultural ProductsDepartment of BiologyUniversity of YorkHeslingtonYorkUK
| | - Tomasz Czechowski
- Centre for Novel Agricultural ProductsDepartment of BiologyUniversity of YorkHeslingtonYorkUK
| | - Amy C. Cording
- Centre for Novel Agricultural ProductsDepartment of BiologyUniversity of YorkHeslingtonYorkUK
| | - Alison D. Gilday
- Centre for Novel Agricultural ProductsDepartment of BiologyUniversity of YorkHeslingtonYorkUK
| | - Andrew J. King
- Centre for Novel Agricultural ProductsDepartment of BiologyUniversity of YorkHeslingtonYorkUK
| | | | - Ian A. Graham
- Centre for Novel Agricultural ProductsDepartment of BiologyUniversity of YorkHeslingtonYorkUK
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9
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Ma X, Vaistij FE, Li Y, Jansen van Rensburg WS, Harvey S, Bairu MW, Venter SL, Mavengahama S, Ning Z, Graham IA, Van Deynze A, Van de Peer Y, Denby KJ. A chromosome-level Amaranthus cruentus genome assembly highlights gene family evolution and biosynthetic gene clusters that may underpin the nutritional value of this traditional crop. Plant J 2021; 107:613-628. [PMID: 33960539 DOI: 10.1111/tpj.15298] [Citation(s) in RCA: 7] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/14/2021] [Revised: 04/17/2021] [Accepted: 04/21/2021] [Indexed: 06/12/2023]
Abstract
Traditional crops have historically provided accessible and affordable nutrition to millions of rural dwellers but have been neglected, with most modern agricultural systems over-reliant on a small number of internationally traded crops. Traditional crops are typically well-adapted to local agro-ecological conditions and many are nutrient-dense. They can play a vital role in local food systems through enhanced nutrition (particularly where diets are dominated by starch crops), food security and livelihoods for smallholder farmers, and a climate-resilient and biodiverse agriculture. Using short-read, long-read and phased sequencing technologies, we generated a high-quality chromosome-level genome assembly for Amaranthus cruentus, an under-researched crop with micronutrient- and protein-rich leaves and gluten-free seed, but lacking improved varieties, with respect to productivity and quality traits. The 370.9 Mb genome demonstrates a shared whole genome duplication with a related species, Amaranthus hypochondriacus. Comparative genome analysis indicates chromosomal loss and fusion events following genome duplication that are common to both species, as well as fission of chromosome 2 in A. cruentus alone, giving rise to a haploid chromosome number of 17 (versus 16 in A. hypochondriacus). Genomic features potentially underlying the nutritional value of this crop include two A. cruentus-specific genes with a likely role in phytic acid synthesis (an anti-nutrient), expansion of ion transporter gene families, and identification of biosynthetic gene clusters conserved within the amaranth lineage. The A. cruentus genome assembly will underpin much-needed research and global breeding efforts to develop improved varieties for economically viable cultivation and realization of the benefits to global nutrition security and agrobiodiversity.
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Affiliation(s)
- Xiao Ma
- Department of Plant Biotechnology and Bioinformatics, Ghent University, Ghent, 9054, Belgium
- Center for Plant Systems Biology, VIB, Ghent, 9054, Belgium
| | - Fabián E Vaistij
- Department of Biology, Centre for Novel Agricultural Products (CNAP), University of York, Wentworth Way, York, YO10 5DD, UK
| | - Yi Li
- Department of Biology, Centre for Novel Agricultural Products (CNAP), University of York, Wentworth Way, York, YO10 5DD, UK
| | - Willem S Jansen van Rensburg
- Agricultural Research Council, Vegetable, Industrial and Medicinal Plants Research Campus, Private Bag X293, Pretoria, 0001, South Africa
| | - Sarah Harvey
- Department of Biology, Centre for Novel Agricultural Products (CNAP), University of York, Wentworth Way, York, YO10 5DD, UK
| | - Michael W Bairu
- Agricultural Research Council, Vegetable, Industrial and Medicinal Plants Research Campus, Private Bag X293, Pretoria, 0001, South Africa
| | - Sonja L Venter
- Agricultural Research Council, Vegetable, Industrial and Medicinal Plants Research Campus, Private Bag X293, Pretoria, 0001, South Africa
| | - Sydney Mavengahama
- Crop Science Department, Faculty of Natural and Agricultural Sciences, North West University, P/Bag X2046, Mmabatho, 2735, South Africa
| | - Zemin Ning
- Wellcome Sanger Institute, Wellcome Genome Campus, Hinxton, Cambridge, CB10 1SA, UK
| | - Ian A Graham
- Department of Biology, Centre for Novel Agricultural Products (CNAP), University of York, Wentworth Way, York, YO10 5DD, UK
| | - Allen Van Deynze
- Department of Plant Sciences, Seed Biotechnology Center, University of California, Davis, CA, 95616, USA
| | - Yves Van de Peer
- Department of Plant Biotechnology and Bioinformatics, Ghent University, Ghent, 9054, Belgium
- Center for Plant Systems Biology, VIB, Ghent, 9054, Belgium
- Department of Biochemistry, Genetics and Microbiology, University of Pretoria, Pretoria, 0028, South Africa
- College of Horticulture, Nanjing Agricultural University, Nanjing, 210095, China
| | - Katherine J Denby
- Department of Biology, Centre for Novel Agricultural Products (CNAP), University of York, Wentworth Way, York, YO10 5DD, UK
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10
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Chen L, Czechowski T, Graham IA, Hartley SE. Impact of osmotic stress on the growth and root architecture of introgression lines derived from a wild ancestor of rice and a modern cultivar. Plant Environ Interact 2020; 1:122-133. [PMID: 37283730 PMCID: PMC10168093 DOI: 10.1002/pei3.10026] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 03/03/2020] [Revised: 07/03/2020] [Accepted: 07/14/2020] [Indexed: 06/08/2023]
Abstract
Many modern rice varieties have been intensively selected for high-yielding performance under irrigated conditions, reducing their genetic diversity and potentially increasing their susceptibility to abiotic stresses such as drought. In this study, we tested benefits for stress tolerance of introducing DNA segments from wild ancestor Oryza rufipogon to the modern cultivar O. sativa cv Curinga (CUR) by applying a gradient of osmotic stress to both parents and seven introgressed lines. Shoot growth of O. rufipogon had a high tolerance to osmotic stress, and the number of total root tips increased under mild osmotic stress. One introgression line showed greater shoot growth, root growth, and higher number of total root tips than the parent line CUR under osmotic stress. Abscisic acid (ABA) is a key hormone mediating plant responses to abiotic stresses. Both root and shoot growth of O. rufipogon were much more sensitive to ABA than CUR. Introgression lines varied in the extent to which the sensitivity of their growth responses to ABA and some lines correlated with their sensitivity to osmotic stress. Our results suggest that rice responses to ABA and osmotic stress are genotype dependent, and growth responses of rice to ABA are not a consistent indicator of resilience to abiotic stress in introgression lines.
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Affiliation(s)
- Lin Chen
- Department of BiologyUniversity of YorkYorkUK
| | | | | | - Sue E. Hartley
- Department of BiologyUniversity of YorkYorkUK
- Present address:
Department of Animal and Plant SciencesUniversity of SheffieldSheffieldS10 2TNUK
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11
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Pérez-Escobar OA, Richardson JE, Howes MJR, Lucas E, Álvarez de Róman N, Collemare J, Graham IA, Gratzfeld J, Kersey PJ, Leitch IJ, Paton A, Hollingsworth PM, Antonelli A. Untapped resources for medical research. Science 2020; 369:781-782. [DOI: 10.1126/science.abc8085] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/02/2023]
Affiliation(s)
| | - James E. Richardson
- Department of Biology, Faculty of Natural Sciences, Universidad del Rosario, Bogotá, Colombia
- Royal Botanic Garden Edinburgh, Edinburgh, EH3 5LR, UK
| | - Melanie-Jayne R. Howes
- Royal Botanic Gardens, Kew, TW9 3AE, UK
- Institute of Pharmaceutical Science, Faculty of Life Sciences & Medicine, King's College London, SE1 9NH, UK
| | - Eve Lucas
- Royal Botanic Gardens, Kew, TW9 3AE, UK
| | | | | | - Ian A. Graham
- Department of Biology, Centre for Novel Agricultural Products, University of York, York, YO10 5DD, UK
| | | | | | | | | | | | - Alexandre Antonelli
- Royal Botanic Gardens, Kew, TW9 3AE, UK
- Gothenburg Global Biodiversity Centre and University of Gothenburg, Gothenburg, Sweden
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12
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Barros‐Galvão T, Dave A, Gilday AD, Harvey D, Vaistij FE, Graham IA. ABA INSENSITIVE4 promotes rather than represses PHYA-dependent seed germination in Arabidopsis thaliana. New Phytol 2020; 226:953-956. [PMID: 31828800 PMCID: PMC7216901 DOI: 10.1111/nph.16363] [Citation(s) in RCA: 13] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/29/2019] [Accepted: 11/27/2019] [Indexed: 05/04/2023]
Affiliation(s)
- Thiago Barros‐Galvão
- Department of BiologyCentre for Novel Agricultural ProductsUniversity of YorkYorkYO10 5DDUK
| | - Anuja Dave
- Department of BiologyCentre for Novel Agricultural ProductsUniversity of YorkYorkYO10 5DDUK
| | - Alison D. Gilday
- Department of BiologyCentre for Novel Agricultural ProductsUniversity of YorkYorkYO10 5DDUK
| | - David Harvey
- Department of BiologyCentre for Novel Agricultural ProductsUniversity of YorkYorkYO10 5DDUK
| | - Fabián E. Vaistij
- Department of BiologyCentre for Novel Agricultural ProductsUniversity of YorkYorkYO10 5DDUK
| | - Ian A. Graham
- Department of BiologyCentre for Novel Agricultural ProductsUniversity of YorkYorkYO10 5DDUK
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13
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Román Á, Golz JF, Webb AAR, Graham IA, Haydon MJ. Combining GAL4 GFP enhancer trap with split luciferase to measure spatiotemporal promoter activity in Arabidopsis. Plant J 2020; 102:187-198. [PMID: 31692146 PMCID: PMC7217008 DOI: 10.1111/tpj.14603] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/02/2019] [Accepted: 10/31/2019] [Indexed: 05/28/2023]
Abstract
In multicellular organisms different types of tissues have distinct gene expression profiles associated with specific function or structure of the cell. Quantification of gene expression in whole organs or whole organisms can give misleading information about levels or dynamics of expression in specific cell types. Tissue- or cell-specific analysis of gene expression has potential to enhance our understanding of gene regulation and interactions of cell signalling networks. The Arabidopsis circadian oscillator is a gene network which orchestrates rhythmic expression across the day/night cycle. There is heterogeneity between cell and tissue types of the composition and behaviour of the oscillator. In order to better understand the spatial and temporal patterns of gene expression, flexible tools are required. By combining a Gateway®-compatible split luciferase construct with a GAL4 GFP enhancer trap system, we describe a tissue-specific split luciferase assay for non-invasive detection of spatiotemporal gene expression in Arabidopsis. We demonstrate the utility of this enhancer trap-compatible split luciferase assay (ETSLA) system to investigate tissue-specific dynamics of circadian gene expression. We confirm spatial heterogeneity of circadian gene expression in Arabidopsis leaves and describe the resources available to investigate any gene of interest.
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Affiliation(s)
- Ángela Román
- School of BioSciencesUniversity of MelbourneMelbourneAustralia
- Department of BiologyUniversity of YorkYorkUnited Kingdom
| | - John F. Golz
- School of BioSciencesUniversity of MelbourneMelbourneAustralia
| | - Alex A. R. Webb
- Department of Plant SciencesUniversity of CambridgeCambridgeUnited Kingdom
| | - Ian A. Graham
- Department of BiologyUniversity of YorkYorkUnited Kingdom
| | - Michael J. Haydon
- School of BioSciencesUniversity of MelbourneMelbourneAustralia
- Department of BiologyUniversity of YorkYorkUnited Kingdom
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14
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Li Y, Winzer T, He Z, Graham IA. Over 100 Million Years of Enzyme Evolution Underpinning the Production of Morphine in the Papaveraceae Family of Flowering Plants. Plant Commun 2020; 1:100029. [PMID: 32685922 PMCID: PMC7357826 DOI: 10.1016/j.xplc.2020.100029] [Citation(s) in RCA: 25] [Impact Index Per Article: 6.3] [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: 09/17/2019] [Revised: 11/06/2019] [Accepted: 02/03/2020] [Indexed: 05/06/2023]
Abstract
Phylogenomic analysis of whole genome sequences of five benzylisoquinoline alkaloid (BIA)-producing species from the Ranunculales and Proteales orders of flowering plants revealed the sequence and timing of evolutionary events leading to the diversification of these compounds. (S)-Reticuline is a pivotal intermediate in the synthesis of many BIAs and our analyses revealed parallel evolution between the two orders, which diverged ∼122 million years ago (MYA). Berberine is present in species across the entire Ranunculales, and we found co-evolution of genes essential for production of the protoberberine class. The benzophenanthridine class, which includes the antimicrobial compound sanguinarine, is specific to the Papaveraceae family of Ranunculales, and biosynthetic genes emerged after the split with the Ranunculaceae family ∼110 MYA but before the split of the three Papaveraceae species used in this study at ∼77 MYA. The phthalideisoquinoline noscapine and morphinan class of BIAs are exclusive to the opium poppy lineage. Ks estimation of paralogous pairs indicates that morphine biosynthesis evolved more recently than 18 MYA in the Papaver genus. In the preceding 100 million years gene duplication, neofunctionalization and recruitment of additional enzyme classes, combined with gene clustering, gene fusion, and gene amplification, resulted in emergence of medicinally valuable BIAs including morphine and noscapine.
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Affiliation(s)
- Yi Li
- Centre for Novel Agricultural Products, Department of Biology, University of York, York YO10 5YW, UK
| | - Thilo Winzer
- Centre for Novel Agricultural Products, Department of Biology, University of York, York YO10 5YW, UK
| | - Zhesi He
- Centre for Novel Agricultural Products, Department of Biology, University of York, York YO10 5YW, UK
| | - Ian A. Graham
- Centre for Novel Agricultural Products, Department of Biology, University of York, York YO10 5YW, UK
- Corresponding author
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15
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Czechowski T, Weathers PJ, Brodelius PE, Brown GD, Graham IA. Editorial: Artemisinin-From Traditional Chinese Medicine to Artemisinin Combination Therapies; Four Decades of Research on the Biochemistry, Physiology, and Breeding of Artemisia annua. Front Plant Sci 2020; 11:594565. [PMID: 33042197 PMCID: PMC7530189 DOI: 10.3389/fpls.2020.594565] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/13/2020] [Accepted: 09/08/2020] [Indexed: 05/21/2023]
Affiliation(s)
- Tomasz Czechowski
- Centre for Novel Agricultural Products, Department of Biology, University of York, York, United Kingdom
| | - Pamela J. Weathers
- Department of Biology and Biotechnology, Worcester Polytechnic Institute, Worcester, MA, United States
| | - Peter E. Brodelius
- Department of Chemistry and Biomedical Sciences, Linnaeus University, Kalmar, Sweden
| | - Geoffrey D. Brown
- Department of Chemistry, University of Reading, Reading, United Kingdom
| | - Ian A. Graham
- Centre for Novel Agricultural Products, Department of Biology, University of York, York, United Kingdom
- *Correspondence: Ian A. Graham,
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16
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Barros-Galvão T, Dave A, Cole A, Harvey D, Langer S, Larson TR, Vaistij FE, Graham IA. cis-12-Oxo-phytodienoic acid represses Arabidopsis seed germination in shade conditions. J Exp Bot 2019; 70:5919-5927. [PMID: 31326997 PMCID: PMC6812700 DOI: 10.1093/jxb/erz337] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/14/2019] [Accepted: 07/16/2019] [Indexed: 05/07/2023]
Abstract
Light-dependent seed germination is induced by gibberellins (GA) and inhibited by abscisic acid (ABA). The widely accepted view of the GA/ABA ratio controlling germination does not, however, explain the fact that seeds deficient in ABA still germinate poorly under shade conditions that repress germination. In Arabidopsis, MOTHER-OF-FT-AND-TFL1 (MFT) acts as a key negative regulator of germination, modulating GA and ABA responses under shade conditions. Under full light the oxylipin cis-12-oxo-phytodienoic acid (OPDA), a precursor of the stress-related phytohormone jasmonic acid, interacts with ABA and MFT to repress germination. Here, we show that under shade conditions both OPDA and ABA repress germination to varying extents. We demonstrate that the level of shade-induced MFT expression influences the ability of OPDA and/or ABA to fully repress germination. We also found that MFT expression decreases with seed age and this again correlates with the response of seeds to OPDA and ABA. We conclude that OPDA plays an essential role alongside ABA in repressing germination in response to shade and the combined effect of these phytohormones is integrated to a significant extent through MFT.
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Affiliation(s)
- Thiago Barros-Galvão
- Centre for Novel Agricultural Products, Department of Biology, University of York, York, UK
| | - Anuja Dave
- Centre for Novel Agricultural Products, Department of Biology, University of York, York, UK
| | - Adama Cole
- Centre for Novel Agricultural Products, Department of Biology, University of York, York, UK
| | - David Harvey
- Centre for Novel Agricultural Products, Department of Biology, University of York, York, UK
| | - Swen Langer
- Centre for Novel Agricultural Products, Department of Biology, University of York, York, UK
| | - Tony R Larson
- Centre for Novel Agricultural Products, Department of Biology, University of York, York, UK
| | - Fabián E Vaistij
- Centre for Novel Agricultural Products, Department of Biology, University of York, York, UK
| | - Ian A Graham
- Centre for Novel Agricultural Products, Department of Biology, University of York, York, UK
- Correspondence:
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17
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Cabry MP, Offen WA, Saleh P, Li Y, Winzer T, Graham IA, Davies GJ. Structure of Papaver somniferum O-Methyltransferase 1 Reveals Initiation of Noscapine Biosynthesis with Implications for Plant Natural Product Methylation. ACS Catal 2019. [DOI: 10.1021/acscatal.9b01038] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/20/2022]
Affiliation(s)
- Marc P. Cabry
- Centre for Novel Agricultural Products, Department of Biology, University of York, York YO10 5DD, United Kingdom
- York Structural Biology Laboratory, Department of Chemistry, University of York, York YO10 5DD, United Kingdom
| | - Wendy A. Offen
- York Structural Biology Laboratory, Department of Chemistry, University of York, York YO10 5DD, United Kingdom
| | - Philip Saleh
- York Structural Biology Laboratory, Department of Chemistry, University of York, York YO10 5DD, United Kingdom
| | - Yi Li
- Centre for Novel Agricultural Products, Department of Biology, University of York, York YO10 5DD, United Kingdom
| | - Thilo Winzer
- Centre for Novel Agricultural Products, Department of Biology, University of York, York YO10 5DD, United Kingdom
| | - Ian A. Graham
- Centre for Novel Agricultural Products, Department of Biology, University of York, York YO10 5DD, United Kingdom
| | - Gideon J. Davies
- York Structural Biology Laboratory, Department of Chemistry, University of York, York YO10 5DD, United Kingdom
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18
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Czechowski T, Rinaldi MA, Famodimu MT, Van Veelen M, Larson TR, Winzer T, Rathbone DA, Harvey D, Horrocks P, Graham IA. Flavonoid Versus Artemisinin Anti-malarial Activity in Artemisia annua Whole-Leaf Extracts. Front Plant Sci 2019; 10:984. [PMID: 31417596 PMCID: PMC6683762 DOI: 10.3389/fpls.2019.00984] [Citation(s) in RCA: 16] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/08/2019] [Accepted: 07/12/2019] [Indexed: 05/05/2023]
Abstract
Artemisinin, a sesquiterpene lactone produced by Artemisia annua glandular secretory trichomes, is the active ingredient in the most effective treatment for uncomplicated malaria caused by Plasmodium falciparum parasites. Other metabolites in A. annua or related species, particularly flavonoids, have been proposed to either act as antimalarials on their own or act synergistically with artemisinin to enhance antimalarial activity. We identified a mutation that disrupts the CHALCONE ISOMERASE 1 (CHI1) enzyme that is responsible for the second committed step of flavonoid biosynthesis. Detailed metabolite profiling revealed that chi1-1 lacks all major flavonoids but produces wild-type artemisinin levels, making this mutant a useful tool to test the antiplasmodial effects of flavonoids. We used whole-leaf extracts from chi1-1 and mutant lines impaired in artemisinin production in bioactivity in vitro assays against intraerythrocytic P. falciparum Dd2. We found that chi1-1 extracts did not differ from wild-type extracts in antiplasmodial efficacy nor initial rate of cytocidal action. Furthermore, extracts from the A. annua cyp71av1-1 mutant and RNAi lines impaired in amorpha-4,11-diene synthase gene expression, which are both severely compromised in artemisinin biosynthesis but unaffected in flavonoid metabolism, showed very low or no antiplasmodial activity. These results demonstrate that in vitro bioactivity against P. falciparum of flavonoids is negligible when compared to that of artemisinin.
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Affiliation(s)
- Tomasz Czechowski
- Centre for Novel Agricultural Products, Department of Biology, University of York, York, United Kingdom
| | - Mauro A. Rinaldi
- Centre for Novel Agricultural Products, Department of Biology, University of York, York, United Kingdom
| | | | | | - Tony R. Larson
- Centre for Novel Agricultural Products, Department of Biology, University of York, York, United Kingdom
| | - Thilo Winzer
- Centre for Novel Agricultural Products, Department of Biology, University of York, York, United Kingdom
| | - Deborah A. Rathbone
- Centre for Novel Agricultural Products, Department of Biology, University of York, York, United Kingdom
- Biorenewables Development Centre, Dunnington, United Kingdom
| | - David Harvey
- Centre for Novel Agricultural Products, Department of Biology, University of York, York, United Kingdom
| | - Paul Horrocks
- Institute for Science and Technology in Medicine, Keele University, Keele, United Kingdom
- School of Medicine, Keele University, Keele, United Kingdom
| | - Ian A. Graham
- Centre for Novel Agricultural Products, Department of Biology, University of York, York, United Kingdom
- *Correspondence: Ian A. Graham,
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19
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Davis JL, Armengaud P, Larson TR, Graham IA, White PJ, Newton AC, Amtmann A. Contrasting nutrient-disease relationships: Potassium gradients in barley leaves have opposite effects on two fungal pathogens with different sensitivities to jasmonic acid. Plant Cell Environ 2018; 41:2357-2372. [PMID: 29851096 PMCID: PMC6175101 DOI: 10.1111/pce.13350] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/30/2016] [Accepted: 05/21/2018] [Indexed: 05/20/2023]
Abstract
Understanding the interactions between mineral nutrition and disease is essential for crop management. Our previous studies with Arabidopsis thaliana demonstrated that potassium (K) deprivation induced the biosynthesis of jasmonic acid (JA) and increased the plant's resistance to herbivorous insects. Here, we addressed the question of how tissue K affects the development of fungal pathogens and whether sensitivity of the pathogens to JA could play a role for the K-disease relationship in barley (Hordeum vulgare cv. Optic). We report that K-deprived barley plants showed increased leaf concentrations of JA and other oxylipins. Furthermore, a natural tip-to-base K-concentration gradient within leaves of K-sufficient plants was quantitatively mirrored by the transcript levels of JA-responsive genes. The local leaf tissue K concentrations affected the development of two economically important fungi in opposite ways, showing a positive correlation with powdery mildew (Blumeria graminis) and a negative correlation with leaf scald (Rhynchosporium commune) disease symptoms. B. graminis induced a JA response in the plant and was sensitive to methyl-JA treatment whereas R. commune initiated no JA response and was JA insensitive. Our study challenges the view that high K generally improves plant health and suggests that JA sensitivity of pathogens could be an important factor in determining the exact K-disease relationship.
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Affiliation(s)
- Jayne L. Davis
- Plant Science Group, Institute for Molecular, Cell and Systems Biology, College of Medical, Veterinary and Life SciencesUniversity of GlasgowGlasgowUK
- Ecological SciencesThe James Hutton InstituteDundeeUK
| | - Patrick Armengaud
- Plant Science Group, Institute for Molecular, Cell and Systems Biology, College of Medical, Veterinary and Life SciencesUniversity of GlasgowGlasgowUK
| | - Tony R. Larson
- Department of Biology, Centre for Novel Agricultural ProductsUniversity of YorkYorkUK
| | - Ian A. Graham
- Department of Biology, Centre for Novel Agricultural ProductsUniversity of YorkYorkUK
| | | | | | - Anna Amtmann
- Plant Science Group, Institute for Molecular, Cell and Systems Biology, College of Medical, Veterinary and Life SciencesUniversity of GlasgowGlasgowUK
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20
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Guo L, Winzer T, Yang X, Li Y, Ning Z, He Z, Teodor R, Lu Y, Bowser TA, Graham IA, Ye K. The opium poppy genome and morphinan production. Science 2018; 362:343-347. [PMID: 30166436 DOI: 10.1126/science.aat4096] [Citation(s) in RCA: 164] [Impact Index Per Article: 27.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/25/2018] [Revised: 05/26/2018] [Accepted: 08/21/2018] [Indexed: 12/14/2022]
Abstract
Morphinan-based painkillers are derived from opium poppy (Papaver somniferum L.). We report a draft of the opium poppy genome, with 2.72 gigabases assembled into 11 chromosomes with contig N50 and scaffold N50 of 1.77 and 204 megabases, respectively. Synteny analysis suggests a whole-genome duplication at ~7.8 million years ago and ancient segmental or whole-genome duplication(s) that occurred before the Papaveraceae-Ranunculaceae divergence 110 million years ago. Syntenic blocks representative of phthalideisoquinoline and morphinan components of a benzylisoquinoline alkaloid cluster of 15 genes provide insight into how this cluster evolved. Paralog analysis identified P450 and oxidoreductase genes that combined to form the STORR gene fusion essential for morphinan biosynthesis in opium poppy. Thus, gene duplication, rearrangement, and fusion events have led to evolution of specialized metabolic products in opium poppy.
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Affiliation(s)
- Li Guo
- MOE Key Lab for Intelligent Networks and Networks Security, School of Electronics and Information Engineering, Xi'an Jiaotong University, Xi'an, 710049 China.,The First Affiliated Hospital of Xi'an Jiaotong University, Xi'an, 710061 China.,The School of Life Science and Technology, Xi'an Jiaotong University, Xi'an, 710049 China
| | - Thilo Winzer
- Centre for Novel Agricultural Products, Department of Biology, University of York, York YO10 5DD, UK
| | - Xiaofei Yang
- MOE Key Lab for Intelligent Networks and Networks Security, School of Electronics and Information Engineering, Xi'an Jiaotong University, Xi'an, 710049 China.,Computer Science Department, School of Electronics and Information Engineering, Xi'an Jiaotong University, Xi'an, 710049 China
| | - Yi Li
- Centre for Novel Agricultural Products, Department of Biology, University of York, York YO10 5DD, UK
| | - Zemin Ning
- The Wellcome Sanger Institute, Wellcome Genome Campus, Hinxton, Cambridge CB10 1SA, UK
| | - Zhesi He
- Centre for Novel Agricultural Products, Department of Biology, University of York, York YO10 5DD, UK
| | - Roxana Teodor
- Centre for Novel Agricultural Products, Department of Biology, University of York, York YO10 5DD, UK
| | - Ying Lu
- Shanghai Ocean University, Shanghai, 201306 China
| | - Tim A Bowser
- Sun Pharmaceutical Industries Australia, Princes Highway, Port Fairy, VIC 3284, Australia
| | - Ian A Graham
- Centre for Novel Agricultural Products, Department of Biology, University of York, York YO10 5DD, UK.
| | - Kai Ye
- MOE Key Lab for Intelligent Networks and Networks Security, School of Electronics and Information Engineering, Xi'an Jiaotong University, Xi'an, 710049 China. .,The First Affiliated Hospital of Xi'an Jiaotong University, Xi'an, 710061 China.,The School of Life Science and Technology, Xi'an Jiaotong University, Xi'an, 710049 China.,Collaborative Innovation Center for Genetics and Development, School of Life Sciences, Fudan University, Shanghai, China
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21
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Czechowski T, Larson TR, Catania TM, Harvey D, Wei C, Essome M, Brown GD, Graham IA. Detailed Phytochemical Analysis of High- and Low Artemisinin-Producing Chemotypes of Artemisia annua. Front Plant Sci 2018; 9:641. [PMID: 29868094 PMCID: PMC5968107 DOI: 10.3389/fpls.2018.00641] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/02/2018] [Accepted: 04/26/2018] [Indexed: 05/21/2023]
Abstract
Chemical derivatives of artemisinin, a sesquiterpene lactone produced by Artemisia annua, are the active ingredient in the most effective treatment for malaria. Comprehensive phytochemical analysis of two contrasting chemotypes of A. annua resulted in the characterization of over 80 natural products by NMR, more than 20 of which are novel and described here for the first time. Analysis of high- and low-artemisinin producing (HAP and LAP) chemotypes of A. annua confirmed the latter to have a low level of DBR2 (artemisinic aldehyde Δ11(13) reductase) gene expression. Here we show that the LAP chemotype accumulates high levels of artemisinic acid, arteannuin B, epi-deoxyarteannuin B and other amorpha-4,11-diene derived sesquiterpenes which are unsaturated at the 11,13-position. By contrast, the HAP chemotype is rich in sesquiterpenes saturated at the 11,13-position (dihydroartemisinic acid, artemisinin and dihydro-epi-deoxyarteannunin B), which is consistent with higher expression levels of DBR2, and also with the presence of a HAP-chemotype version of CYP71AV1 (amorpha-4,11-diene C-12 oxidase). Our results indicate that the conversion steps from artemisinic acid to arteannuin B, epi-deoxyarteannuin B and artemisitene in the LAP chemotype are non-enzymatic and parallel the non-enzymatic conversion of DHAA to artemisinin and dihyro-epi-deoxyarteannuin B in the HAP chemotype. Interestingly, artemisinic acid in the LAP chemotype preferentially converts to arteannuin B rather than the endoperoxide bridge containing artemisitene. In contrast, in the HAP chemotype, DHAA preferentially converts to artemisinin. Broader metabolomic and transcriptomic profiling revealed significantly different terpenoid profiles and related terpenoid gene expression in these two morphologically distinct chemotypes.
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Affiliation(s)
- Tomasz Czechowski
- Department of Biology, Centre for Novel Agricultural Products, University of York, York, United Kingdom
| | - Tony R. Larson
- Department of Biology, Centre for Novel Agricultural Products, University of York, York, United Kingdom
| | - Theresa M. Catania
- Department of Biology, Centre for Novel Agricultural Products, University of York, York, United Kingdom
| | - David Harvey
- Department of Biology, Centre for Novel Agricultural Products, University of York, York, United Kingdom
| | - Cenxi Wei
- Department of Chemistry, University of Reading, Reading, United Kingdom
| | - Michel Essome
- Department of Chemistry, University of Reading, Reading, United Kingdom
| | - Geoffrey D. Brown
- Department of Chemistry, University of Reading, Reading, United Kingdom
- *Correspondence: Geoffrey D. Brown
| | - Ian A. Graham
- Department of Biology, Centre for Novel Agricultural Products, University of York, York, United Kingdom
- Ian A. Graham
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22
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Catania TM, Branigan CA, Stawniak N, Hodson J, Harvey D, Larson TR, Czechowski T, Graham IA. Silencing amorpha-4,11-diene synthase Genes in Artemisia annua Leads to FPP Accumulation. Front Plant Sci 2018; 9:547. [PMID: 29896204 PMCID: PMC5986941 DOI: 10.3389/fpls.2018.00547] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/02/2018] [Accepted: 04/09/2018] [Indexed: 05/21/2023]
Abstract
Artemisia annua is established as an efficient crop for the production of the anti-malarial compound artemisinin, a sesquiterpene lactone synthesized and stored in Glandular Secretory Trichomes (GSTs) located on the leaves and inflorescences. Amorpha-4,11-diene synthase (AMS) catalyzes the conversion of farnesyl pyrophosphate (FPP) to amorpha-4,11-diene and diphosphate, which is the first committed step in the synthesis of artemisinin. FPP is the precursor for sesquiterpene and sterol biosynthesis in the plant. This work aimed to investigate the effect of blocking the synthesis of artemisinin in the GSTs of a high artemisinin yielding line, Artemis, by down regulating AMS. We determined that there are up to 12 AMS gene copies in Artemis, all expressed in GSTs. We used sequence homology to design an RNAi construct under the control of a GST specific promoter that was predicted to be effective against all 12 of these genes. Stable transformation of Artemis with this construct resulted in over 95% reduction in the content of artemisinin and related products, and a significant increase in the FPP pool. The Artemis AMS silenced lines showed no morphological alterations, and metabolomic and gene expression analysis did not detect any changes in the levels of other major sesquiterpene compounds or sesquiterpene synthase genes in leaf material. FPP also acts as a precursor for squalene and sterol biosynthesis but levels of these compounds were also not altered in the AMS silenced lines. Four unknown oxygenated sesquiterpenes were produced in these lines, but at extremely low levels compared to Artemis non-transformed controls (NTC). This study finds that engineering A. annua GSTs in an Artemis background results in endogenous terpenes related to artemisinin being depleted with the precursor FPP actually accumulating rather than being utilized by other endogenous enzymes. The challenge now is to establish if this precursor pool can act as substrate for production of alternative sesquiterpenes in A. annua.
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Velázquez-Palmero D, Romero-Segura C, García-Rodríguez R, Hernández ML, Vaistij FE, Graham IA, Pérez AG, Martínez-Rivas JM. An Oleuropein β-Glucosidase from Olive Fruit Is Involved in Determining the Phenolic Composition of Virgin Olive Oil. Front Plant Sci 2017; 8:1902. [PMID: 29163620 PMCID: PMC5682033 DOI: 10.3389/fpls.2017.01902] [Citation(s) in RCA: 18] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/28/2017] [Accepted: 10/20/2017] [Indexed: 05/08/2023]
Abstract
Phenolic composition of virgin olive oil is determined by the enzymatic and/or chemical reactions that take place during olive fruit processing. Of these enzymes, β-glucosidase activity plays a relevant role in the transformation of the phenolic glycosides present in the olive fruit, generating different secoiridoid derivatives. The main goal of the present study was to characterize olive fruit β-glucosidase genes and enzymes responsible for the phenolic composition of virgin olive oil. To achieve that, we have isolated an olive β-glucosidase gene from cultivar Picual (OepGLU), expressed in Nicotiana benthamiana leaves and purified its corresponding recombinant enzyme. Western blot analysis showed that recombinant OepGLU protein is detected by an antibody raised against the purified native olive mesocarp β-glucosidase enzyme, and exhibits a deduced molecular mass of 65.0 kDa. The recombinant OepGLU enzyme showed activity on the major olive phenolic glycosides, with the highest levels with respect to oleuropein, followed by ligstroside and demethyloleuropein. In addition, expression analysis showed that olive GLU transcript level in olive fruit is spatially and temporally regulated in a cultivar-dependent manner. Furthermore, temperature, light and water regime regulate olive GLU gene expression in olive fruit mesocarp. All these data are consistent with the involvement of OepGLU enzyme in the formation of the major phenolic compounds present in virgin olive oil.
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Affiliation(s)
- David Velázquez-Palmero
- Department of Biochemistry and Molecular Biology of Plant Products, Instituto de la Grasa (CSIC), Sevilla, Spain
- Centre for Novel Agricultural Products, Department of Biology, University of York, York, United Kingdom
| | - Carmen Romero-Segura
- Department of Biochemistry and Molecular Biology of Plant Products, Instituto de la Grasa (CSIC), Sevilla, Spain
| | - Rosa García-Rodríguez
- Department of Biochemistry and Molecular Biology of Plant Products, Instituto de la Grasa (CSIC), Sevilla, Spain
| | - María L. Hernández
- Department of Biochemistry and Molecular Biology of Plant Products, Instituto de la Grasa (CSIC), Sevilla, Spain
| | - Fabián E. Vaistij
- Centre for Novel Agricultural Products, Department of Biology, University of York, York, United Kingdom
| | - Ian A. Graham
- Centre for Novel Agricultural Products, Department of Biology, University of York, York, United Kingdom
| | - Ana G. Pérez
- Department of Biochemistry and Molecular Biology of Plant Products, Instituto de la Grasa (CSIC), Sevilla, Spain
| | - José M. Martínez-Rivas
- Department of Biochemistry and Molecular Biology of Plant Products, Instituto de la Grasa (CSIC), Sevilla, Spain
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Singh P, Dave A, Vaistij FE, Worrall D, Holroyd GH, Wells JG, Kaminski F, Graham IA, Roberts MR. Jasmonic acid-dependent regulation of seed dormancy following maternal herbivory in Arabidopsis. New Phytol 2017; 214:1702-1711. [PMID: 28332706 DOI: 10.1111/nph.14525] [Citation(s) in RCA: 20] [Impact Index Per Article: 2.9] [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: 12/21/2016] [Accepted: 02/14/2017] [Indexed: 05/11/2023]
Abstract
Maternal experience of abiotic environmental factors such as temperature and light are well known to control seed dormancy in many plant species. Maternal biotic stress alters offspring defence phenotypes, but whether it also affects seed dormancy remains unexplored. We exposed Arabidopsis thaliana plants to herbivory and investigated plasticity in germination and defence phenotypes in their offspring, along with the roles of phytohormone signalling in regulating maternal effects. Maternal herbivory resulted in the accumulation of jasmonic acid-isoleucine and loss of dormancy in seeds of stressed plants. Dormancy was also reduced by engineering seed-specific accumulation of jasmonic acid in transgenic plants. Loss of dormancy was dependent on an intact jasmonate signalling pathway and was associated with increased gibberellin content and reduced abscisic acid sensitivity during germination. Altered dormancy was only observed in the first generation following herbivory, whereas defence priming was maintained for at least two generations. Herbivory generates a jasmonic acid-dependent reduction in seed dormancy, mediated by alteration of gibberellin and abscisic acid signalling. This is a direct maternal effect, operating independently from transgenerational herbivore resistance priming.
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Affiliation(s)
- Prashant Singh
- Lancaster Environment Centre, Lancaster University, Lancaster, LA1 4YQ, UK
| | - Anuja Dave
- Centre for Novel Agricultural Products, Department of Biology, University of York, York, YO10 5DD, UK
| | - Fabian E Vaistij
- Centre for Novel Agricultural Products, Department of Biology, University of York, York, YO10 5DD, UK
| | - Dawn Worrall
- Lancaster Environment Centre, Lancaster University, Lancaster, LA1 4YQ, UK
| | - Geoff H Holroyd
- Lancaster Environment Centre, Lancaster University, Lancaster, LA1 4YQ, UK
| | - Jonathan G Wells
- Lancaster Environment Centre, Lancaster University, Lancaster, LA1 4YQ, UK
| | - Filip Kaminski
- Centre for Novel Agricultural Products, Department of Biology, University of York, York, YO10 5DD, UK
| | - Ian A Graham
- Centre for Novel Agricultural Products, Department of Biology, University of York, York, YO10 5DD, UK
| | - Michael R Roberts
- Lancaster Environment Centre, Lancaster University, Lancaster, LA1 4YQ, UK
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King AJ, Brown GD, Gilday AD, Forestier E, Larson TR, Graham IA. A Cytochrome P450-Mediated Intramolecular Carbon-Carbon Ring Closure in the Biosynthesis of Multidrug-Resistance-Reversing Lathyrane Diterpenoids. Chembiochem 2016; 17:1593-7. [PMID: 27272333 PMCID: PMC5095812 DOI: 10.1002/cbic.201600316] [Citation(s) in RCA: 23] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/02/2016] [Indexed: 11/24/2022]
Abstract
The Euphorbiaceae produce a wide variety of bioactive diterpenoids. These include the lathyranes, which have received much interest due to their ability to inhibit the ABC transporters responsible for the loss of efficacy of many chemotherapy drugs. The lathyranes are also intermediates in the biosynthesis of range of other bioactive diterpenoids with potential applications in the treatment of pain, HIV and cancer. We report here a gene cluster from Jatropha curcas that contains the genes required to convert geranylgeranyl pyrophosphate into a number of diterpenoids, including the lathyranes jolkinol C and epi‐jolkinol C. The conversion of casbene to the lathyranes involves an intramolecular carbon–carbon ring closure. This requires the activity of two cytochrome P450s that we propose form a 6‐hydroxy‐5,9‐diketocasbene intermediate, which then undergoes an aldol reaction. The discovery of the P450 genes required to convert casbene to lathyranes will allow the scalable heterologous production of these potential anticancer drugs, which can often only be sourced in limited quantities from their native plant.
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Affiliation(s)
- Andrew J King
- Centre for Novel Agricultural Products, Department of Biology, University of York, Heslington, York, YO10 5DD, UK.
| | - Geoffrey D Brown
- Department of Chemistry, University of Reading, Whiteknights, Reading, RG6 6AD, UK
| | - Alison D Gilday
- Centre for Novel Agricultural Products, Department of Biology, University of York, Heslington, York, YO10 5DD, UK
| | - Edith Forestier
- Centre for Novel Agricultural Products, Department of Biology, University of York, Heslington, York, YO10 5DD, UK
| | - Tony R Larson
- Centre for Novel Agricultural Products, Department of Biology, University of York, Heslington, York, YO10 5DD, UK
| | - Ian A Graham
- Centre for Novel Agricultural Products, Department of Biology, University of York, Heslington, York, YO10 5DD, UK.
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Dave A, Vaistij FE, Gilday AD, Penfield SD, Graham IA. Regulation of Arabidopsis thaliana seed dormancy and germination by 12-oxo-phytodienoic acid. J Exp Bot 2016; 67:2277-84. [PMID: 26873978 PMCID: PMC4809285 DOI: 10.1093/jxb/erw028] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/06/2023]
Abstract
We previously demonstrated that the oxylipin 12-oxo-phytodienoic acid (OPDA) acts along with abscisic acid to regulate seed germination in Arabidopsis thaliana, but the mechanistic details of this synergistic interaction remain to be elucidated. Here, we show that OPDA acts through the germination inhibition effects of abscisic acid, the abscisic acid-sensing ABI5 protein, and the gibberellin-sensing RGL2 DELLA protein. We further demonstrate that OPDA also acts through another dormancy-promoting factor, MOTHER-OF-FT-AND-TFL1 (MFT). Both abscisic acid and MFT positively feed back into the OPDA pathway by promoting its accumulation. These results confirm the central role of OPDA in regulating seed dormancy and germination in A. thaliana and underline the complexity of interactions between OPDA and other dormancy-promoting factors such as abscisic acid, RGL2, and MFT.
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Affiliation(s)
- Anuja Dave
- Centre for Novel Agricultural Products, Department of Biology, University of York, York YO10 5DD, United Kingdom
| | - Fabián E Vaistij
- Centre for Novel Agricultural Products, Department of Biology, University of York, York YO10 5DD, United Kingdom
| | - Alison D Gilday
- Centre for Novel Agricultural Products, Department of Biology, University of York, York YO10 5DD, United Kingdom
| | - Steven D Penfield
- Department of Crop Genetics, John Innes Centre, Norwich NR4 7UH, United Kingdom
| | - Ian A Graham
- Centre for Novel Agricultural Products, Department of Biology, University of York, York YO10 5DD, United Kingdom
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Ibarra SE, Tognacca RS, Dave A, Graham IA, Sánchez RA, Botto JF. Molecular mechanisms underlying the entrance in secondary dormancy of Arabidopsis seeds. Plant Cell Environ 2016; 39:213-21. [PMID: 26177669 DOI: 10.1111/pce.12607] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.8] [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: 03/31/2015] [Revised: 06/04/2015] [Accepted: 06/26/2015] [Indexed: 05/22/2023]
Abstract
As seasons change, dormant seeds cycle through dormant states until the environmental conditions are favourable for seedling establishment. Dormancy cycle is widespread in the plant kingdom allowing the seeds to display primary and secondary dormancy. Several reports in the last decade have focused on understanding the molecular mechanisms of primary dormancy, but our knowledge regarding secondary dormancy is limited. Here, we studied secondary dormancy induced in Arabidopsis thaliana by incubating seeds at 25 °C in darkness for 4 d. By physiological, pharmacological, expression and genetics approaches, we demonstrate that (1) the entrance in secondary dormancy involves changes in the content and sensitivity to GA, but the content and sensitivity to ABA do not change, albeit ABA is required; (2) RGL2 promotes the entrance in secondary dormancy through ABI5 action; and (3) multivariate analysis with 18 geographical and environmental parameters of accession collection place suggests that temperature is an important variable influencing the induction of secondary dormancy in nature.
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Affiliation(s)
- Silvia E Ibarra
- IFEVA, Facultad de Agronomía, Universidad de Buenos Aires y Consejo Nacional de Investigaciones Científicas y Técnicas, Av. San Martín 4453, Ciudad de Buenos Aires, C1417DSE, Argentina
| | - Rocío S Tognacca
- IFEVA, Facultad de Agronomía, Universidad de Buenos Aires y Consejo Nacional de Investigaciones Científicas y Técnicas, Av. San Martín 4453, Ciudad de Buenos Aires, C1417DSE, Argentina
| | - Anuja Dave
- Centre for Novel Agricultural Products (CNAP), Department of Biology, University of York, Wentworth Way, Heslington, York, YO10 5DD, UK
| | - Ian A Graham
- Centre for Novel Agricultural Products (CNAP), Department of Biology, University of York, Wentworth Way, Heslington, York, YO10 5DD, UK
| | - Rodolfo A Sánchez
- IFEVA, Facultad de Agronomía, Universidad de Buenos Aires y Consejo Nacional de Investigaciones Científicas y Técnicas, Av. San Martín 4453, Ciudad de Buenos Aires, C1417DSE, Argentina
| | - Javier F Botto
- IFEVA, Facultad de Agronomía, Universidad de Buenos Aires y Consejo Nacional de Investigaciones Científicas y Técnicas, Av. San Martín 4453, Ciudad de Buenos Aires, C1417DSE, Argentina
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Winzer T, Kern M, King AJ, Larson TR, Teodor RI, Donninger SL, Li Y, Dowle AA, Cartwright J, Bates R, Ashford D, Thomas J, Walker C, Bowser TA, Graham IA. Plant science. Morphinan biosynthesis in opium poppy requires a P450-oxidoreductase fusion protein. Science 2015; 349:309-12. [PMID: 26113639 DOI: 10.1126/science.aab1852] [Citation(s) in RCA: 91] [Impact Index Per Article: 10.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/25/2015] [Accepted: 06/18/2015] [Indexed: 01/09/2023]
Abstract
Morphinan alkaloids from the opium poppy are used for pain relief. The direction of metabolites to morphinan biosynthesis requires isomerization of (S)- to (R)-reticuline. Characterization of high-reticuline poppy mutants revealed a genetic locus, designated STORR [(S)- to (R)-reticuline] that encodes both cytochrome P450 and oxidoreductase modules, the latter belonging to the aldo-keto reductase family. Metabolite analysis of mutant alleles and heterologous expression demonstrate that the P450 module is responsible for the conversion of (S)-reticuline to 1,2-dehydroreticuline, whereas the oxidoreductase module converts 1,2-dehydroreticuline to (R)-reticuline rather than functioning as a P450 redox partner. Proteomic analysis confirmed that these two modules are contained on a single polypeptide in vivo. This modular assembly implies a selection pressure favoring substrate channeling. The fusion protein STORR may enable microbial-based morphinan production.
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Affiliation(s)
- Thilo Winzer
- Centre for Novel Agricultural Products, Department of Biology, University of York, York YO10 5DD, UK
| | - Marcelo Kern
- Centre for Novel Agricultural Products, Department of Biology, University of York, York YO10 5DD, UK
| | - Andrew J King
- Centre for Novel Agricultural Products, Department of Biology, University of York, York YO10 5DD, UK
| | - Tony R Larson
- Centre for Novel Agricultural Products, Department of Biology, University of York, York YO10 5DD, UK
| | - Roxana I Teodor
- Centre for Novel Agricultural Products, Department of Biology, University of York, York YO10 5DD, UK
| | - Samantha L Donninger
- Centre for Novel Agricultural Products, Department of Biology, University of York, York YO10 5DD, UK
| | - Yi Li
- Centre for Novel Agricultural Products, Department of Biology, University of York, York YO10 5DD, UK
| | - Adam A Dowle
- Bioscience Technology Facility, Department of Biology, University of York, York YO10 5DD, UK
| | - Jared Cartwright
- Bioscience Technology Facility, Department of Biology, University of York, York YO10 5DD, UK
| | - Rachel Bates
- Bioscience Technology Facility, Department of Biology, University of York, York YO10 5DD, UK
| | - David Ashford
- Bioscience Technology Facility, Department of Biology, University of York, York YO10 5DD, UK
| | - Jerry Thomas
- Bioscience Technology Facility, Department of Biology, University of York, York YO10 5DD, UK
| | - Carol Walker
- GlaxoSmithKline, 1061 Mountain Highway, Post Office Box 168, Boronia, Victoria 3155, Australia
| | - Tim A Bowser
- GlaxoSmithKline, 1061 Mountain Highway, Post Office Box 168, Boronia, Victoria 3155, Australia
| | - Ian A Graham
- Centre for Novel Agricultural Products, Department of Biology, University of York, York YO10 5DD, UK
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King AJ, Montes LR, Clarke JG, Itzep J, Perez CAA, Jongschaap REE, Visser RGF, van Loo EN, Graham IA. Identification of QTL markers contributing to plant growth, oil yield and fatty acid composition in the oilseed crop Jatropha curcas L. Biotechnol Biofuels 2015; 8:160. [PMID: 26413159 PMCID: PMC4583170 DOI: 10.1186/s13068-015-0326-8] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/03/2015] [Accepted: 08/25/2015] [Indexed: 05/04/2023]
Abstract
BACKGROUND Economical cultivation of the oilseed crop Jatropha curcas is currently hampered in part due to the non-availability of purpose-bred cultivars. Although genetic maps and genome sequence data exist for this crop, marker-assisted breeding has not yet been implemented due to a lack of available marker-trait association studies. To identify the location of beneficial alleles for use in plant breeding, we performed quantitative trait loci (QTL) analysis for a number of agronomic traits in two biparental mapping populations. RESULTS The mapping populations segregated for a range of traits contributing to oil yield, including plant height, stem diameter, number of branches, total seeds per plant, 100-seed weight, seed oil content and fatty acid composition. QTL were detected for each of these traits and often over multiple years, with some variation in the phenotypic variance explained between different years. In one of the mapping populations where we recorded vegetative traits, we also observed co-localization of QTL for stem diameter and plant height, which were both overdominant, suggesting a possible locus conferring a pleotropic heterosis effect. By using a candidate gene approach and integrating physical mapping data from a recent high-quality release of the Jatropha genome, we were also able to position a large number of genes involved in the biosynthesis of storage lipids onto the genetic map. By comparing the position of these genes with QTL, we were able to detect a number of genes potentially underlying seed traits, including phosphatidate phosphatase genes. CONCLUSIONS The QTL we have identified will serve as a useful starting point in the creation of new varieties of J. curcas with improved agronomic performance for seed and oil productivity. Our ability to physically map a significant proportion of the Jatropha genome sequence onto our genetic map could also prove useful in identifying the genes underlying particular traits, allowing more controlled and precise introgression of desirable alleles and permitting the pyramiding or stacking of multiple QTL.
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Affiliation(s)
- Andrew J. King
- />Department of Biology, Centre for Novel Agricultural Products, University of York, York, YO10 5DD UK
| | - Luis R. Montes
- />Biocombustibles de Guatemala, Guatemala Ciudad, Guatemala
- />Wageningen UR Plant Breeding, Wageningen University and Research Centre, PO Box 386, 6700 AJ Wageningen, The Netherlands
- />Graduate School of Experimental Plant Sciences, Wageningen University, Wageningen, The Netherlands
| | - Jasper G. Clarke
- />Department of Biology, Centre for Novel Agricultural Products, University of York, York, YO10 5DD UK
| | - Jose Itzep
- />Biocombustibles de Guatemala, Guatemala Ciudad, Guatemala
| | - Cesar A. A. Perez
- />Facultad de Agronomia, Universidad de San Carlos de Guatemala, Edifico T-8 y T-9 Ciudad Universitaria zona 12, Guatemala Cuidad, Guatemala
| | - Raymond E. E. Jongschaap
- />Wageningen UR Agrosystems Research, Wageningen University and Research Centre, PO Box 16, 6708 AP Wageningen, The Netherlands
| | - Richard G. F. Visser
- />Wageningen UR Plant Breeding, Wageningen University and Research Centre, PO Box 386, 6700 AJ Wageningen, The Netherlands
| | - Eibertus N. van Loo
- />Wageningen UR Plant Breeding, Wageningen University and Research Centre, PO Box 386, 6700 AJ Wageningen, The Netherlands
| | - Ian A. Graham
- />Department of Biology, Centre for Novel Agricultural Products, University of York, York, YO10 5DD UK
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King AJ, Brown GD, Gilday AD, Larson TR, Graham IA. Production of bioactive diterpenoids in the euphorbiaceae depends on evolutionarily conserved gene clusters. Plant Cell 2014; 26:3286-98. [PMID: 25172144 PMCID: PMC4371829 DOI: 10.1105/tpc.114.129668] [Citation(s) in RCA: 45] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/08/2014] [Revised: 08/01/2014] [Accepted: 08/11/2014] [Indexed: 05/18/2023]
Abstract
The Euphorbiaceae produce a diverse range of diterpenoids, many of which have pharmacological activities. These diterpenoids include ingenol mebutate, which is licensed for the treatment of a precancerous skin condition (actinic keratosis), and phorbol derivatives such as resiniferatoxin and prostratin, which are undergoing investigation for the treatment of severe pain and HIV, respectively. Despite the interest in these diterpenoids, their biosynthesis is poorly understood at present, with the only characterized step being the conversion of geranylgeranyl pyrophosphate into casbene. Here, we report a physical cluster of diterpenoid biosynthetic genes from castor (Ricinus communis), including casbene synthases and cytochrome P450s from the CYP726A subfamily. CYP726A14, CYP726A17, and CYP726A18 were able to catalyze 5-oxidation of casbene, a conserved oxidation step in the biosynthesis of this family of medicinally important diterpenoids. CYP726A16 catalyzed 7,8-epoxidation of 5-keto-casbene and CYP726A15 catalyzed 5-oxidation of neocembrene. Evidence of similar gene clustering was also found in two other Euphorbiaceae, including Euphorbia peplus, the source organism of ingenol mebutate. These results demonstrate conservation of gene clusters at the higher taxonomic level of the plant family and that this phenomenon could prove useful in further elucidating diterpenoid biosynthetic pathways.
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Affiliation(s)
- Andrew J King
- Centre for Novel Agricultural Products, Department of Biology, University of York, Heslington, York YO10 5DD, United Kingdom
| | - Geoffrey D Brown
- Department of Chemistry, University of Reading, Reading RG6 6AD, United Kingdom
| | - Alison D Gilday
- Centre for Novel Agricultural Products, Department of Biology, University of York, Heslington, York YO10 5DD, United Kingdom
| | - Tony R Larson
- Centre for Novel Agricultural Products, Department of Biology, University of York, Heslington, York YO10 5DD, United Kingdom
| | - Ian A Graham
- Centre for Novel Agricultural Products, Department of Biology, University of York, Heslington, York YO10 5DD, United Kingdom
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Salas JJ, Martínez-Force E, Harwood JL, Venegas-Calerón M, Aznar-Moreno JA, Moreno-Pérez AJ, Ruíz-López N, Serrano-Vega MJ, Graham IA, Mullen RT, Garcés R. Biochemistry of high stearic sunflower, a new source of saturated fats. Prog Lipid Res 2014; 55:30-42. [DOI: 10.1016/j.plipres.2014.05.001] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/07/2014] [Revised: 05/12/2014] [Accepted: 05/12/2014] [Indexed: 01/01/2023]
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Bielecka M, Kaminski F, Adams I, Poulson H, Sloan R, Li Y, Larson TR, Winzer T, Graham IA. Targeted mutation of Δ12 and Δ15 desaturase genes in hemp produce major alterations in seed fatty acid composition including a high oleic hemp oil. Plant Biotechnol J 2014; 12:613-23. [PMID: 24506492 DOI: 10.1111/pbi.12167] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.3] [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: 10/25/2013] [Revised: 12/16/2013] [Accepted: 12/22/2013] [Indexed: 05/21/2023]
Abstract
We used expressed sequence tag library and whole genome sequence mining to identify a suite of putative desaturase genes representing the four main activities required for production of polyunsaturated fatty acids in hemp seed oil. Phylogenetic-based classification and developing seed transcriptome analysis informed selection for further analysis of one of seven Δ12 desaturases and one of three Δ15 desaturases that we designate CSFAD2A and CSFAD3A, respectively. Heterologous expression of corresponding cDNAs in Saccharomyces cerevisiae showed CSFAD2A to have Δx+3 activity, while CSFAD3A activity was exclusively at the Δ15 position. TILLING of an ethyl methane sulphonate mutagenized population identified multiple alleles including non-sense mutations in both genes and fatty acid composition of seed oil confirmed these to be the major Δ12 and Δ15 desaturases in developing hemp seed. Following four backcrosses and sibling crosses to achieve homozygosity, csfad2a-1 was grown in the field and found to produce a 70 molar per cent high oleic acid (18:1(Δ9) ) oil at yields similar to wild type. Cold-pressed high oleic oil produced fewer volatiles and had a sevenfold increase in shelf life compared to wild type. Two low abundance octadecadienoic acids, 18:2(Δ6,9) and 18:2(Δ9,15), were identified in the high oleic oil, and their presence suggests remaining endogenous desaturase activities utilize the increased levels of oleic acid as substrate. Consistent with this, CSFAD3A produces 18:2(Δ9,15) from endogenous 18:1(Δ9) when expressed in S. cerevisiae. This work lays the foundation for the development of additional novel oil varieties in this multipurpose low input crop.
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Affiliation(s)
- Monika Bielecka
- Centre for Novel Agricultural Products, Department of Biology, University of York, York, UK
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Moreno-Pérez AJ, Venegas-Calerón M, Vaistij FE, Salas JJ, Larson TR, Garcés R, Graham IA, Martínez-Force E. Effect of a mutagenized acyl-ACP thioesterase FATA allele from sunflower with improved activity in tobacco leaves and Arabidopsis seeds. Planta 2014; 239:667-77. [PMID: 24327259 DOI: 10.1007/s00425-013-2003-0] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/02/2013] [Accepted: 11/25/2013] [Indexed: 05/26/2023]
Abstract
The substrate specificity of the acyl-acyl carrier protein (ACP) thioesterases significantly determines the type of fatty acids that are exported from plastids. Thus, designing acyl-ACP thioesterases with different substrate specificities or kinetic properties would be of interest for plant lipid biotechnology to produce oils enriched in specialty fatty acids. In the present work, the FatA thioesterase from Helianthus annuus was used to test the impact of changes in the amino acids present in the binding pocket on substrate specificity and catalytic efficiency. Amongst all the mutated enzymes studied, Q215W was especially interesting as it had higher specificity towards saturated acyl-ACP substrates and higher catalytic efficiency compared to wild-type H. annuus FatA. Null, wild type and high-efficiency alleles were transiently expressed in tobacco leaves to check their effect on lipid biosynthesis. Expression of active FatA thioesterases altered the composition of leaf triacylglycerols but did not alter total lipid content. However, the expression of the wild type and the high-efficiency alleles in Arabidopsis thaliana transgenic seeds resulted in a strong reduction in oil content and an increase in total saturated fatty acid content. The role and influence of acyl-ACP thioesterases in plant metabolism and their possible applications in lipid biotechnology are discussed.
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34
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Brown LA, Larson TR, Graham IA, Hawes C, Paudyal R, Warriner SL, Baker A. An inhibitor of oil body mobilization in Arabidopsis. New Phytol 2013; 200:641-649. [PMID: 24033128 DOI: 10.1111/nph.12467] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/10/2013] [Accepted: 07/25/2013] [Indexed: 05/12/2023]
Abstract
Fatty acid β-oxidation is an essential process in many aspects of plant development, and storage oil in the form of triacylglycerol (TAG) is an important food source for humans and animals, for biofuel and for industrial feedstocks. In this study we characterize the effects of a small molecule, diphenyl methylphosphonate, on oil mobilization in Arabidopsis thaliana. Confocal laser scanning microscopy, transmission electron microscopy and quantitative lipid profiling were used to examine the effects of diphenyl methylphosphonate treatment on seedlings. Diphenyl methylphosphonate causes peroxisome clustering around oil bodies but does not affect morphology of other cellular organelles. We show that this molecule blocks the breakdown of pre-existing oil bodies resulting in retention of TAG and accumulation of acyl CoAs. The biochemical and phenotypic effects are consistent with a block in the early part of the β-oxidation pathway. Diphenyl methylphosphonate appears to be a fairly specific inhibitor of TAG mobilization in plants and whilst further work is required to identify the molecular target of the compound it should prove a useful tool to interrogate and manipulate these pathways in a controlled and reproducible manner.
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Affiliation(s)
- Laura-Anne Brown
- Centre for Plant Sciences, Faculty of Biological Sciences, University of Leeds, Leeds, LS2 9JT, UK
| | - Tony R Larson
- Centre for Novel Agricultural Products, Department of Biology, University of York, Wentworth Way, Heslington, York, YO10 5DD, UK
| | - Ian A Graham
- Centre for Novel Agricultural Products, Department of Biology, University of York, Wentworth Way, Heslington, York, YO10 5DD, UK
| | - Chris Hawes
- Department of Biological and Medical Sciences, Oxford Brookes University, Gipsy Lane, Oxford, OX3 0BP, UK
| | - Rupesh Paudyal
- Centre for Plant Sciences, Faculty of Biological Sciences, University of Leeds, Leeds, LS2 9JT, UK
| | - Stuart L Warriner
- School of Chemistry, Faculty of Mathematics and Physical Sciences, University of Leeds, Leeds, LS2 9JT, UK
| | - Alison Baker
- Centre for Plant Sciences, Faculty of Biological Sciences, University of Leeds, Leeds, LS2 9JT, UK
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35
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Lawley W, Calvert C, Graham IA. Artemisia
, Malaria, and the Red Queen
Artemisia annua
, Artemisinin, ACTs and Malaria Control in Africa:
Tradition, Science and Public Policy
by Dana G. Dalrymple
Published by the author, 2013. 274 pp. $18.95. ISBN 9780615615998. (). Science 2013. [DOI: 10.1126/science.1243594] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/03/2022]
Abstract
Dalrymple provides a community record of efforts to counter malaria with artemisinin-based therapies, especially in Africa.
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Affiliation(s)
- Wendy Lawley
- The reviewers are at the Centre for Novel Agricultural Products, Department of Biology, University of York, York YO10 5DD, UK
| | - Caroline Calvert
- The reviewers are at the Centre for Novel Agricultural Products, Department of Biology, University of York, York YO10 5DD, UK
| | - Ian A. Graham
- The reviewers are at the Centre for Novel Agricultural Products, Department of Biology, University of York, York YO10 5DD, UK
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36
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King AJ, Montes LR, Clarke JG, Affleck J, Li Y, Witsenboer H, van der Vossen E, van der Linde P, Tripathi Y, Tavares E, Shukla P, Rajasekaran T, van Loo EN, Graham IA. Linkage mapping in the oilseed crop Jatropha curcas L. reveals a locus controlling the biosynthesis of phorbol esters which cause seed toxicity. Plant Biotechnol J 2013; 11:986-96. [PMID: 23898859 PMCID: PMC4274016 DOI: 10.1111/pbi.12092] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.3] [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: 03/14/2013] [Revised: 05/15/2013] [Accepted: 05/18/2013] [Indexed: 05/08/2023]
Abstract
Current efforts to grow the tropical oilseed crop Jatropha curcas L. economically are hampered by the lack of cultivars and the presence of toxic phorbol esters (PE) within the seeds of most provenances. These PE restrict the conversion of seed cake into animal feed, although naturally occurring 'nontoxic' provenances exist which produce seed lacking PE. As an important step towards the development of genetically improved varieties of J. curcas, we constructed a linkage map from four F₂ mapping populations. The consensus linkage map contains 502 codominant markers, distributed over 11 linkage groups, with a mean marker density of 1.8 cM per unique locus. Analysis of the inheritance of PE biosynthesis indicated that this is a maternally controlled dominant monogenic trait. This maternal control is due to biosynthesis of the PE occurring only within maternal tissues. The trait segregated 3 : 1 within seeds collected from F₂ plants, and QTL analysis revealed that a locus on linkage group 8 was responsible for phorbol ester biosynthesis. By taking advantage of the draft genome assemblies of J. curcas and Ricinus communis (castor), a comparative mapping approach was used to develop additional markers to fine map this mutation within 2.3 cM. The linkage map provides a framework for the dissection of agronomic traits in J. curcas, and the development of improved varieties by marker-assisted breeding. The identification of the locus responsible for PE biosynthesis means that it is now possible to rapidly breed new nontoxic varieties.
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Affiliation(s)
- Andrew J King
- Centre for Novel Agricultural Products, Department of Biology, University of YorkYork, UK
| | - Luis R Montes
- Biocombustibles de GuatemalaGuatemala Ciudad, Guatemala
- Plant Breeding Wageningen URWageningen, The Netherlands
| | - Jasper G Clarke
- Centre for Novel Agricultural Products, Department of Biology, University of YorkYork, UK
| | - Julie Affleck
- Centre for Novel Agricultural Products, Department of Biology, University of YorkYork, UK
| | - Yi Li
- Centre for Novel Agricultural Products, Department of Biology, University of YorkYork, UK
| | | | | | | | | | | | | | | | | | - Ian A Graham
- Centre for Novel Agricultural Products, Department of Biology, University of YorkYork, UK
- (Tel +44 (0)1904 328750/fax +44 (0)1904 328762;email )
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37
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Stewart Lilley JL, Gan Y, Graham IA, Nemhauser JL. The effects of DELLAs on growth change with developmental stage and brassinosteroid levels. Plant J 2013; 76:165-73. [PMID: 23834248 DOI: 10.1111/tpj.12280] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/21/2013] [Revised: 06/26/2013] [Accepted: 07/02/2013] [Indexed: 05/03/2023]
Abstract
There are two stages in photomorphogenesis. First, seedlings detect light and open their cotyledons. Second, seedlings optimize their light environment by controlled elongation of the seedling stem or hypocotyl. In this study, we used time-lapse imaging to investigate the relationship between the brassinosteroid (BR) and gibberellin (GA) hormones across both stages of photomorphogenesis. During the transition between one stage and the other, growth promotion by BRs and GAs switched from an additive to a synergistic relationship. Molecular genetic analysis revealed unexpected roles for known participants in the GA pathway during this period. Members of the DELLA family could either repress or enhance BR growth responses, depending on developmental stage. At the transition point for seedling growth dynamics, the BR and GA pathways had opposite effects on DELLA protein levels. In contrast to GA-induced DELLA degradation, BR treatments increased the levels of REPRESSOR of ga1-3 (RGA) and mimicked the molecular effects of stabilizing DELLAs. In addition, DELLAs showed complex regulation of genes involved in BR biosynthesis, implicating them in BR homeostasis. Growth promotion by GA alone depended on the PHYTOCHROME INTERACTING FACTOR (PIF) family of master growth regulators. The effects of BR, including the synergistic effects with GA, were largely independent of PIFs. These results point to a multi-level, dynamic relationship between the BR and GA pathways.
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38
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Brabbs TR, He Z, Hogg K, Kamenski A, Li Y, Paszkiewicz KH, Moore KA, O'Toole P, Graham IA, Jones L. The stochastic silencing phenotype of Arabidopsis morc6 mutants reveals a role in efficient RNA-directed DNA methylation. Plant J 2013; 75:836-46. [PMID: 23675613 DOI: 10.1111/tpj.12246] [Citation(s) in RCA: 22] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/27/2013] [Accepted: 05/09/2013] [Indexed: 05/18/2023]
Abstract
The RNA-directed DNA methylation (RdDM) pathway is of central importance to the initiation and maintenance of transcriptional gene silencing in plants. DNA methylation is directed to target sequences by a mechanism that involves production of small RNAs by RNA polymerase IV and long non-coding RNAs by RNA polymerase V. DNA methylation then leads to recruitment of histone-modifying enzymes, followed by establishment of a silenced chromatin state. Recently MORC6, a member of the microrchidia (MORC) family of adenosine triphosphatases (ATPases), has been shown to be involved in transcriptional gene silencing. However, reports differ regarding whether MORC6 is involved in RdDM itself or acts downstream of DNA methylation to enable formation of higher-order chromatin structure. Here we demonstrate that MORC6 is required for efficient RdDM at some target loci, and, using a GFP reporter system, we found that morc6 mutants show a stochastic silencing phenotype. By using cell sorting to separate silenced and unsilenced cells, we show that release of silencing at this locus is associated with a loss of DNA methylation. Thus our data support a view that MORC6 influences RdDM and that it is not acting downstream of DNA methylation. For some loci, efficient initiation or maintenance of DNA methylation may depend on the ability to form higher-order chromatin structure.
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Affiliation(s)
- Thomas R Brabbs
- Department of Biology, University of York, YO10 5DD, York, UK
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39
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Townsend T, Segura V, Chigeza G, Penfield T, Rae A, Harvey D, Bowles D, Graham IA. The use of combining ability analysis to identify elite parents for Artemisia annua F1 hybrid production. PLoS One 2013; 8:e61989. [PMID: 23626762 PMCID: PMC3633910 DOI: 10.1371/journal.pone.0061989] [Citation(s) in RCA: 38] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/25/2012] [Accepted: 03/18/2013] [Indexed: 11/24/2022] Open
Abstract
Artemisia annua is an important medicinal crop used for the production of the anti-malarial compound artemisinin. In order to assist in the production of affordable high quality artemisinin we have carried out an A. annua breeding programme aimed at improving artemisinin concentration and biomass. Here we report on a combining ability analysis of a diallel cross to identify robust parental lines for hybrid breeding. The parental lines were selected based on a range of phenotypic traits to encourage heterosis. The general combining ability (GCA) values for the diallel parental lines correlated to the positive alleles of quantitative trait loci (QTL) in the same parents indicating the presence of beneficial alleles that contribute to parental performance. Hybrids generated from crossing specific parental lines with good GCA were identified as having an increase in both artemisinin concentration and biomass when grown either in glasshouse or experimental field trials and compared to controls. This study demonstrates that combining ability as determined by a diallel cross can be used to identify elite parents for the production of improved A. annua hybrids. Furthermore, the selection of material for breeding using this approach was found to be consistent with our QTL-based molecular breeding approach.
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Affiliation(s)
- Theresa Townsend
- Centre for Novel Agricultural Products, Department of Biology, University of York, York, United Kingdom
| | - Vincent Segura
- Centre for Novel Agricultural Products, Department of Biology, University of York, York, United Kingdom
- Institut National de la Recherche Agronomique, UR0588, Orléans, France
| | - Godfree Chigeza
- Centre for Novel Agricultural Products, Department of Biology, University of York, York, United Kingdom
- Agricultural Research Council: Grain Crops Institute, Potchefstroom, South Africa
| | - Teresa Penfield
- Centre for Novel Agricultural Products, Department of Biology, University of York, York, United Kingdom
- Research and Knowledge Transfer, University of Exeter, Exeter, United Kingdom
| | - Anne Rae
- Centre for Novel Agricultural Products, Department of Biology, University of York, York, United Kingdom
- Genetics Department, Cherry Valley Farms Ltd., Caistor, United Kingdom
| | - David Harvey
- Centre for Novel Agricultural Products, Department of Biology, University of York, York, United Kingdom
| | - Dianna Bowles
- Centre for Novel Agricultural Products, Department of Biology, University of York, York, United Kingdom
| | - Ian A. Graham
- Centre for Novel Agricultural Products, Department of Biology, University of York, York, United Kingdom
- * E-mail:
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40
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Li-Beisson Y, Shorrosh B, Beisson F, Andersson MX, Arondel V, Bates PD, Baud S, Bird D, DeBono A, Durrett TP, Franke RB, Graham IA, Katayama K, Kelly AA, Larson T, Markham JE, Miquel M, Molina I, Nishida I, Rowland O, Samuels L, Schmid KM, Wada H, Welti R, Xu C, Zallot R, Ohlrogge J. Acyl-lipid metabolism. Arabidopsis Book 2013; 11:e0161. [PMID: 23505340 PMCID: PMC3563272 DOI: 10.1199/tab.0161] [Citation(s) in RCA: 677] [Impact Index Per Article: 61.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/18/2023]
Abstract
Acyl lipids in Arabidopsis and all other plants have a myriad of diverse functions. These include providing the core diffusion barrier of the membranes that separates cells and subcellular organelles. This function alone involves more than 10 membrane lipid classes, including the phospholipids, galactolipids, and sphingolipids, and within each class the variations in acyl chain composition expand the number of structures to several hundred possible molecular species. Acyl lipids in the form of triacylglycerol account for 35% of the weight of Arabidopsis seeds and represent their major form of carbon and energy storage. A layer of cutin and cuticular waxes that restricts the loss of water and provides protection from invasions by pathogens and other stresses covers the entire aerial surface of Arabidopsis. Similar functions are provided by suberin and its associated waxes that are localized in roots, seed coats, and abscission zones and are produced in response to wounding. This chapter focuses on the metabolic pathways that are associated with the biosynthesis and degradation of the acyl lipids mentioned above. These pathways, enzymes, and genes are also presented in detail in an associated website (ARALIP: http://aralip.plantbiology.msu.edu/). Protocols and methods used for analysis of Arabidopsis lipids are provided. Finally, a detailed summary of the composition of Arabidopsis lipids is provided in three figures and 15 tables.
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41
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Li-Beisson Y, Shorrosh B, Beisson F, Andersson MX, Arondel V, Bates PD, Baud S, Bird D, Debono A, Durrett TP, Franke RB, Graham IA, Katayama K, Kelly AA, Larson T, Markham JE, Miquel M, Molina I, Nishida I, Rowland O, Samuels L, Schmid KM, Wada H, Welti R, Xu C, Zallot R, Ohlrogge J. Acyl-lipid metabolism. Arabidopsis Book 2013. [PMID: 23505340 DOI: 10.1199/tab.0161m] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [Subscribe] [Scholar Register] [Indexed: 05/08/2023]
Abstract
Acyl lipids in Arabidopsis and all other plants have a myriad of diverse functions. These include providing the core diffusion barrier of the membranes that separates cells and subcellular organelles. This function alone involves more than 10 membrane lipid classes, including the phospholipids, galactolipids, and sphingolipids, and within each class the variations in acyl chain composition expand the number of structures to several hundred possible molecular species. Acyl lipids in the form of triacylglycerol account for 35% of the weight of Arabidopsis seeds and represent their major form of carbon and energy storage. A layer of cutin and cuticular waxes that restricts the loss of water and provides protection from invasions by pathogens and other stresses covers the entire aerial surface of Arabidopsis. Similar functions are provided by suberin and its associated waxes that are localized in roots, seed coats, and abscission zones and are produced in response to wounding. This chapter focuses on the metabolic pathways that are associated with the biosynthesis and degradation of the acyl lipids mentioned above. These pathways, enzymes, and genes are also presented in detail in an associated website (ARALIP: http://aralip.plantbiology.msu.edu/). Protocols and methods used for analysis of Arabidopsis lipids are provided. Finally, a detailed summary of the composition of Arabidopsis lipids is provided in three figures and 15 tables.
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42
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Hooks KB, Turner JE, Graham IA, Runions J, Hooks MA. GFP-tagging of Arabidopsis acyl-activating enzymes raises the issue of peroxisome-chloroplast import competition versus dual localization. J Plant Physiol 2012; 169:1631-8. [PMID: 22920973 DOI: 10.1016/j.jplph.2012.05.026] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/15/2011] [Revised: 05/30/2012] [Accepted: 05/31/2012] [Indexed: 05/06/2023]
Abstract
Protein sequence analysis of a subfamily of 18 Arabidopsis acyl-activating enzymes (AAE) for organelle targeting signals revealed that eight of them possessed putative peroxisomal targeting signals (PTS1), five of which belonged to Clade VI of the AAE superfamily. Peroxisomal localization was confirmed by confocal microscopy of green fluorescent protein (GFP)-AAE fusion proteins co-localizing with peroxisomal RFP. The sequence analysis also revealed that all enzymes of Clade VI possess N-terminal regions indicative of chloroplast transit peptides (cTP). Among the five Clade VI peroxisomal enzymes tested, masking the PTS1 signal with GFP redirected three to plastids. In addition, three other peroxisomal AAEs appeared to be redirected to plastids in AAE-GFP fusion constructs. Due to the lack of evidence supporting plastid localization, we propose that competition dictates the exclusive localization to peroxisomes. AAE2 of Clade VI was the only enzyme with a putative mitochondrial targeting sequence, and it appeared to be targeted to mitochondria. The remainder of the AAEs appeared to be localized to plastids or cytosol. The AAE9-GFP fusion protein appeared to be located within discreet structures within plastids that may be plastoglobules. AAE15-GFP, but not AAE16-GFP appeared to be located in the chloroplast envelope. The number of examples is increasing whereby proteins located within other compartments contribute to plastid function. We provide an example of this through the light-sensitive phenotype of mutants of AAE2.
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Affiliation(s)
- Katarzyna B Hooks
- School of Biological Sciences, College of Natural Sciences, Bangor University, Bangor LL57 2UW, United Kingdom
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43
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Hernández ML, Whitehead L, He Z, Gazda V, Gilday A, Kozhevnikova E, Vaistij FE, Larson TR, Graham IA. A cytosolic acyltransferase contributes to triacylglycerol synthesis in sucrose-rescued Arabidopsis seed oil catabolism mutants. Plant Physiol 2012; 160:215-25. [PMID: 22760209 PMCID: PMC3440200 DOI: 10.1104/pp.112.201541] [Citation(s) in RCA: 104] [Impact Index Per Article: 8.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/06/2012] [Accepted: 07/02/2012] [Indexed: 05/19/2023]
Abstract
Triacylglycerol (TAG) levels and oil bodies persist in sucrose (Suc)-rescued Arabidopsis (Arabidopsis thaliana) seedlings disrupted in seed oil catabolism. This study set out to establish if TAG levels persist as a metabolically inert pool when downstream catabolism is disrupted, or if other mechanisms, such as fatty acid (FA) recycling into TAG are operating. We show that TAG composition changes significantly in Suc-rescued seedlings compared with that found in dry seeds, with 18:2 and 18:3 accumulating. However, 20:1 FA is not efficiently recycled back into TAG in young seedlings, instead partitioning into the membrane lipid fraction and diacylglycerol. In the lipolysis mutant sugar dependent1and the β-oxidation double mutant acx1acx2 (for acyl-Coenzyme A oxidase), levels of TAG actually increased in seedlings growing on Suc. We performed a transcriptomic study and identified up-regulation of an acyltransferase gene, DIACYLGLYCEROL ACYLTRANSFERASE3 (DGAT3), with homology to a peanut (Arachis hypogaea) cytosolic acyltransferase. The acyl-Coenzyme A substrate for this acyltransferase accumulates in mutants that are blocked in oil breakdown postlipolysis. Transient expression in Nicotiana benthamiana confirmed involvement in TAG synthesis and specificity toward 18:3 and 18:2 FAs. Double-mutant analysis with the peroxisomal ATP-binding cassette transporter mutant peroxisomal ABC transporter1 indicated involvement of DGAT3 in the partitioning of 18:3 into TAG in mutant seedlings growing on Suc. Fusion of the DGAT3 protein with green fluorescent protein confirmed localization to the cytosol of N. benthamiana. This work has demonstrated active recycling of 18:2 and 18:3 FAs into TAG when seed oil breakdown is blocked in a process involving a soluble cytosolic acyltransferase.
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Affiliation(s)
| | | | - Zhesi He
- Centre for Novel Agricultural Products, Department of Biology, University of York, York YO10 5DD, United Kingdom
| | - Valeria Gazda
- Centre for Novel Agricultural Products, Department of Biology, University of York, York YO10 5DD, United Kingdom
| | - Alison Gilday
- Centre for Novel Agricultural Products, Department of Biology, University of York, York YO10 5DD, United Kingdom
| | - Ekaterina Kozhevnikova
- Centre for Novel Agricultural Products, Department of Biology, University of York, York YO10 5DD, United Kingdom
| | - Fabián E. Vaistij
- Centre for Novel Agricultural Products, Department of Biology, University of York, York YO10 5DD, United Kingdom
| | - Tony R. Larson
- Centre for Novel Agricultural Products, Department of Biology, University of York, York YO10 5DD, United Kingdom
| | - Ian A. Graham
- Centre for Novel Agricultural Products, Department of Biology, University of York, York YO10 5DD, United Kingdom
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44
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De Rybel B, Audenaert D, Xuan W, Overvoorde P, Strader LC, Kepinski S, Hoye R, Brisbois R, Parizot B, Vanneste S, Liu X, Gilday A, Graham IA, Nguyen L, Jansen L, Njo MF, Inzé D, Bartel B, Beeckman T. A role for the root cap in root branching revealed by the non-auxin probe naxillin. Nat Chem Biol 2012; 8:798-805. [PMID: 22885787 DOI: 10.1038/nchembio.1044] [Citation(s) in RCA: 96] [Impact Index Per Article: 8.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/20/2011] [Accepted: 06/26/2012] [Indexed: 01/06/2023]
Abstract
The acquisition of water and nutrients by plant roots is a fundamental aspect of agriculture and strongly depends on root architecture. Root branching and expansion of the root system is achieved through the development of lateral roots and is to a large extent controlled by the plant hormone auxin. However, the pleiotropic effects of auxin or auxin-like molecules on root systems complicate the study of lateral root development. Here we describe a small-molecule screen in Arabidopsis thaliana that identified naxillin as what is to our knowledge the first non-auxin-like molecule that promotes root branching. By using naxillin as a chemical tool, we identified a new function for root cap-specific conversion of the auxin precursor indole-3-butyric acid into the active auxin indole-3-acetic acid and uncovered the involvement of the root cap in root branching. Delivery of an auxin precursor in peripheral tissues such as the root cap might represent an important mechanism shaping root architecture.
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Affiliation(s)
- Bert De Rybel
- Department of Plant Systems Biology, VIB, Gent, Belgium
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45
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Winzer T, Gazda V, He Z, Kaminski F, Kern M, Larson TR, Li Y, Meade F, Teodor R, Vaistij FE, Walker C, Bowser TA, Graham IA. A Papaver somniferum 10-gene cluster for synthesis of the anticancer alkaloid noscapine. Science 2012; 336:1704-8. [PMID: 22653730 DOI: 10.1126/science.1220757] [Citation(s) in RCA: 202] [Impact Index Per Article: 16.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/30/2022]
Abstract
Noscapine is an antitumor alkaloid from opium poppy that binds tubulin, arrests metaphase, and induces apoptosis in dividing human cells. Elucidation of the biosynthetic pathway will enable improvement in the commercial production of noscapine and related bioactive molecules. Transcriptomic analysis revealed the exclusive expression of 10 genes encoding five distinct enzyme classes in a high noscapine-producing poppy variety, HN1. Analysis of an F(2) mapping population indicated that these genes are tightly linked in HN1, and bacterial artificial chromosome sequencing confirmed that they exist as a complex gene cluster for plant alkaloids. Virus-induced gene silencing resulted in accumulation of pathway intermediates, allowing gene function to be linked to noscapine synthesis and a novel biosynthetic pathway to be proposed.
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Affiliation(s)
- Thilo Winzer
- Centre for Novel Agricultural Products, Department of Biology, University of York, York YO10 5DD, UK
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46
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Dave A, Graham IA. Oxylipin Signaling: A Distinct Role for the Jasmonic Acid Precursor cis-(+)-12-Oxo-Phytodienoic Acid (cis-OPDA). Front Plant Sci 2012; 3:42. [PMID: 22645585 PMCID: PMC3355751 DOI: 10.3389/fpls.2012.00042] [Citation(s) in RCA: 128] [Impact Index Per Article: 10.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/20/2011] [Accepted: 02/19/2012] [Indexed: 05/18/2023]
Abstract
Oxylipins are lipid-derived compounds, many of which act as signals in the plant response to biotic and abiotic stress. They include the phytohormone jasmonic acid (JA) and related jasmonate metabolites cis-(+)-12-oxo-phytodienoic acid (cis-OPDA), methyl jasmonate, and jasmonoyl-L-isoleucine (JA-Ile). Besides the defense response, jasmonates are involved in plant growth and development and regulate a range of processes including glandular trichome development, reproduction, root growth, and senescence. cis-OPDA is known to possess a signaling role distinct from JA-Ile. The non-enzymatically derived phytoprostanes are structurally similar to cis-OPDA and induce a common set of genes that are not responsive to JA in Arabidopsis thaliana. A novel role for cis-OPDA in seed germination regulation has recently been uncovered based on evidence from double mutants and feeding experiments showing that cis-OPDA interacts with abscisic acid (ABA), inhibits seed germination, and increases ABA INSENSITIVE5 (ABI5) protein abundance. Large amounts of cis-OPDA are esterified to galactolipids in A. thaliana and the resulting compounds, known as Arabidopsides, are thought to act as a rapidly available source of cis-OPDA.
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Affiliation(s)
- Anuja Dave
- Department of Biology, Centre for Novel Agricultural Products, University of YorkYork, UK
| | - Ian A. Graham
- Department of Biology, Centre for Novel Agricultural Products, University of YorkYork, UK
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Moreno-Pérez AJ, Venegas-Calerón M, Vaistij FE, Salas JJ, Larson TR, Garcés R, Graham IA, Martínez-Force E. Reduced expression of FatA thioesterases in Arabidopsis affects the oil content and fatty acid composition of the seeds. Planta 2012; 235:629-39. [PMID: 22002626 DOI: 10.1007/s00425-011-1534-5] [Citation(s) in RCA: 44] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/09/2011] [Accepted: 09/27/2011] [Indexed: 05/06/2023]
Abstract
Acyl-acyl carrier protein (ACP) thioesterases are enzymes that control the termination of intraplastidial fatty acid synthesis by hydrolyzing the acyl-ACP complexes. Among the different thioesterase gene families found in plants, the FatA-type fulfills a fundamental role in the export of the C18 fatty acid moieties that will be used to synthesize most plant glycerolipids. A reverse genomic approach has been used to study the FatA thioesterase in seed oil accumulation by screening different mutant collections of Arabidopsis thaliana for FatA knockouts. Two mutants were identified with T-DNA insertions in the promoter region of each of the two copies of FatA present in the Arabidopsis genome, from which a double FatA Arabidopsis mutant was made. The expression of both forms of FatA thioesterases was reduced in this double mutant (fata1 fata2), as was FatA activity. This decrease did not cause any evident morphological changes in the mutant plants, although the partial reduction of this activity affected the oil content and fatty acid composition of the Arabidopsis seeds. Thus, dry mutant seeds had less triacylglycerol content, while other neutral lipids like diacylglycerols were not affected. Furthermore, the metabolic flow of the different glycerolipid species into seed oil in the developing seeds was reduced at different stages of seed formation in the fata1 fata2 line. This diminished metabolic flow induced increases in the proportion of linolenic and erucic fatty acids in the seed oil, in a similar way as previously reported for the wri1 Arabidopsis mutant that accumulates oil poorly. The similarities between these two mutants and the origin of their phenotype are discussed in function of the results.
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Sanchez-Ortiz A, Romero-Segura C, Gazda VE, Graham IA, Sanz C, Perez AG. Factors limiting the synthesis of virgin olive oil volatile esters. J Agric Food Chem 2012; 60:1300-1307. [PMID: 22229834 DOI: 10.1021/jf203871v] [Citation(s) in RCA: 10] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/31/2023]
Abstract
The aim of the present work was to establish the limiting factors affecting the biosynthesis of volatile esters present in virgin olive oil (VOO). Oil volatile fractions of the main Spanish olive cultivars, Arbequina and Picual, were analyzed. It was observed that acetate esters were the most abundant class of volatile esters in the oils, in concordance with the high content of acetyl-CoA found in olive fruit, and that the content of C6 alcohols is limited for the synthesis of volatile esters during the production of VOO. Thus, the increase of C6 alcohol availability during VOO production produced a significant increase of the corresponding ester in the oils in both cultivars at two different maturity stages. However, the increase of acetyl-CoA availability had no effect on the VOO volatile fraction. The low synthesis of these C6 alcohols seems not to be due to a shortage of precursors or cofactors for alcohol dehydrogenase (ADH) activity because their increase during VOO production had no effect on the C6 alcohol levels. The experimental findings are compatible with a deactivation of ADH activity during olive oil production in the cultivars under study. In this sense, a strong inhibition of olive ADH activity by compounds present in the different tissues of olive fruit has been observed.
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Affiliation(s)
- Araceli Sanchez-Ortiz
- Department of Physiology and Technology of Plant Products, Instituto de la Grasa, Consejo Superior de Investigaciones Científicas (CSIC), Seville, Spain
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Brown AP, Kroon JTM, Swarbreck D, Febrer M, Larson TR, Graham IA, Caccamo M, Slabas AR. Tissue-specific whole transcriptome sequencing in castor, directed at understanding triacylglycerol lipid biosynthetic pathways. PLoS One 2012; 7:e30100. [PMID: 22319559 PMCID: PMC3272049 DOI: 10.1371/journal.pone.0030100] [Citation(s) in RCA: 87] [Impact Index Per Article: 7.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/07/2011] [Accepted: 12/09/2011] [Indexed: 12/02/2022] Open
Abstract
BACKGROUND Storage triacylglycerols in castor bean seeds are enriched in the hydroxylated fatty acid ricinoleate. Extensive tissue-specific RNA-Seq transcriptome and lipid analysis will help identify components important for its biosynthesis. METHODOLOGY/FINDINGS Storage triacylglycerols (TAGs) in the endosperm of developing castor (Ricinus communis) seeds are highly enriched in ricinoleic acid (18:1-OH). We have analysed neutral lipid fractions from other castor tissues using TLC, GLC and mass spectrometry. Cotyledons, like the endosperm, contain high levels of 18:1-OH in TAG. Pollen and male developing flowers accumulate TAG but do not contain 18:1-OH and leaves do not contain TAG or 18:1-OH. Analysis of acyl-CoAs in developing endosperm shows that ricinoleoyl-CoA is not the dominant acyl-CoA, indicating that either metabolic channelling or enzyme substrate selectivity are important in the synthesis of tri-ricinolein in this tissue. RNA-Seq transcriptomic analysis, using Illumina sequencing by synthesis technology, has been performed on mRNA isolated from two stages of developing seeds, germinating seeds, leaf and pollen-producing male flowers in order to identify differences in lipid-metabolic pathways and enzyme isoforms which could be important in the biosynthesis of TAG enriched in 18:1-OH. This study gives comprehensive coverage of gene expression in a variety of different castor tissues. The potential role of differentially expressed genes is discussed against a background of proteins identified in the endoplasmic reticulum, which is the site of TAG biosynthesis, and transgenic studies aimed at increasing the ricinoleic acid content of TAG. CONCLUSIONS/SIGNIFICANCE Several of the genes identified in this tissue-specific whole transcriptome study have been used in transgenic plant research aimed at increasing the level of ricinoleic acid in TAG. New candidate genes have been identified which might further improve the level of ricinoleic acid in transgenic crops.
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Affiliation(s)
- Adrian P. Brown
- School of Biological and Biomedical Sciences, Durham University, Durham, United Kingdom
| | - Johan T. M. Kroon
- School of Biological and Biomedical Sciences, Durham University, Durham, United Kingdom
| | - David Swarbreck
- The Genome Analysis Centre, Norwich Research Park, Colney, Norwich, United Kingdom
| | - Melanie Febrer
- The Genome Analysis Centre, Norwich Research Park, Colney, Norwich, United Kingdom
| | - Tony R. Larson
- Department of Biology, Centre for Novel Agricultural Products, University of York, York, United Kingdom
| | - Ian A. Graham
- Department of Biology, Centre for Novel Agricultural Products, University of York, York, United Kingdom
| | - Mario Caccamo
- The Genome Analysis Centre, Norwich Research Park, Colney, Norwich, United Kingdom
| | - Antoni R. Slabas
- School of Biological and Biomedical Sciences, Durham University, Durham, United Kingdom
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Penfield S, Clements S, Bailey KJ, Gilday AD, Leegood RC, Gray JE, Graham IA. Expression and manipulation of phosphoenolpyruvate carboxykinase 1 identifies a role for malate metabolism in stomatal closure. Plant J 2012; 69:679-88. [PMID: 22007864 DOI: 10.1111/j.1365-313x.2011.04822.x] [Citation(s) in RCA: 32] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/22/2023]
Abstract
Malate, along with potassium and chloride ions, is an important solute for maintaining turgor pressure during stomatal opening. Although malate is exported from guard cells during stomatal closure, there is controversy as to whether malate is also metabolised. We provide evidence that phosphoenolpyruvate carboxykinase (PEPCK), an enzyme involved in malate metabolism and gluconeogenesis, is necessary for full stomatal closure in the dark. Analysis of the Arabidopsis PCK1 gene promoter indicated that this PEPCK isoform is specifically expressed in guard cells and trichomes of the leaf. Spatially distinct promoter elements were found to be required for post-germinative, vascular expression and guard cell/trichome expression of PCK1. We show that pck1 mutant plants have reduced drought tolerance, and show increased stomatal conductance and wider stomatal apertures compared with the wild type. During light-dark transients the PEPCK mutant plants show both increased overall stomatal conductance and less responsiveness of the stomata to darkness than the wild type, indicating that stomata get 'jammed' in the open position. These results show that malate metabolism is important during dark-induced stomatal closure and that PEPCK is involved in this process.
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Affiliation(s)
- Steven Penfield
- Department of Biology, Centre for Novel Agricultural Products, University of York, Heslington, York YO10 5DD, UK
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