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Yang Z, Liu Z, Xu H, Chen Y, Du P, Li P, Lai W, Hu H, Luo J, Ding Y. The Chromosome-Level Genome of Miracle Fruit ( Synsepalum dulcificum) Provides New Insights Into the Evolution and Function of Miraculin. FRONTIERS IN PLANT SCIENCE 2022; 12:804662. [PMID: 35046985 PMCID: PMC8763355 DOI: 10.3389/fpls.2021.804662] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/29/2021] [Accepted: 11/29/2021] [Indexed: 05/25/2023]
Abstract
Miracle fruit (Synsepalum dulcificum) is a rare valuable tropical plant famous for a miraculous sweetening glycoprotein, miraculin, which can modify sour flavors to sweet flavors tasted by humans. Here, we present a chromosome-level high-quality genome of S. dulcificum with an assembly genome size of ∼550 Mb, contig N50 of ∼14.14 Mb, and 37,911 annotated protein-coding genes. Phylogenetic analysis revealed that S. dulcificum was most closely related to Camellia sinensis and Diospyros oleifera, and that S. dulcificum diverged from the Diospyros genus ∼75.8 million years ago (MYA), and that C. sinensis diverged from Synsepalum ∼63.5 MYA. Ks assessment and collinearity analysis with S. dulcificum and other species suggested that a whole-genome duplication (WGD) event occurred in S. dulcificum and that there was good collinearity between S. dulcificum and Vitis vinifera. On the other hand, transcriptome and metabolism analysis with six tissues containing three developmental stages of fleshes and seeds of miracle fruit revealed that Gene Ontology (GO) terms and metabolic pathways of "cellular response to chitin," "plant-pathogen interaction," and "plant hormone signal transduction" were significantly enriched during fruit development. Interestingly, the expression of miraculin (Chr10G0299340) progressively increased from vegetative organs to reproductive organs and reached an incredible level in mature fruit flesh, with an fragments per kilobase of transcript per million (FPKM) value of ∼113,515, which was the most highly expressed gene among all detected genes. Combining the unique signal peptide and the presence of the histidine-30 residue together composed the main potential factors impacting miraculin's unique properties in S. dulcificum. Furthermore, integrated analysis of weighted gene coexpression network analysis (WGCNA), enrichment and metabolite correlation suggested that miraculin plays potential roles in regulating plant growth, seed germination and maturation, resisting pathogen infection, and environmental pressure. In summary, valuable genomic, transcriptomic, and metabolic resources provided in this study will promote the utilization of S. dulcificum and in-depth research on species in the Sapotaceae family.
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Affiliation(s)
- Zhuang Yang
- Hainan Key Laboratory for Sustainable Utilization of Tropical Bioresource, College of Tropical Crops, Hainan University, Haikou, China
- Sanya Nanfan Research Institute of Hainan University, Hainan Yazhou Bay Seed Laboratory, Sanya, China
| | - Zhenhuan Liu
- Hainan Key Laboratory for Sustainable Utilization of Tropical Bioresource, College of Tropical Crops, Hainan University, Haikou, China
- Sanya Nanfan Research Institute of Hainan University, Hainan Yazhou Bay Seed Laboratory, Sanya, China
| | - Hang Xu
- Hainan Key Laboratory for Sustainable Utilization of Tropical Bioresource, College of Tropical Crops, Hainan University, Haikou, China
- Sanya Nanfan Research Institute of Hainan University, Hainan Yazhou Bay Seed Laboratory, Sanya, China
| | - Yayu Chen
- Hainan Key Laboratory for Sustainable Utilization of Tropical Bioresource, College of Tropical Crops, Hainan University, Haikou, China
- Sanya Nanfan Research Institute of Hainan University, Hainan Yazhou Bay Seed Laboratory, Sanya, China
| | - Pengmeng Du
- Hainan Key Laboratory for Sustainable Utilization of Tropical Bioresource, College of Tropical Crops, Hainan University, Haikou, China
- Sanya Nanfan Research Institute of Hainan University, Hainan Yazhou Bay Seed Laboratory, Sanya, China
| | - Ping Li
- Hainan Key Laboratory for Sustainable Utilization of Tropical Bioresource, College of Tropical Crops, Hainan University, Haikou, China
- Sanya Nanfan Research Institute of Hainan University, Hainan Yazhou Bay Seed Laboratory, Sanya, China
| | - Wenjie Lai
- Hainan Key Laboratory for Sustainable Utilization of Tropical Bioresource, College of Tropical Crops, Hainan University, Haikou, China
- Sanya Nanfan Research Institute of Hainan University, Hainan Yazhou Bay Seed Laboratory, Sanya, China
| | - Haiyan Hu
- Hainan Key Laboratory for Sustainable Utilization of Tropical Bioresource, College of Tropical Crops, Hainan University, Haikou, China
- Sanya Nanfan Research Institute of Hainan University, Hainan Yazhou Bay Seed Laboratory, Sanya, China
| | - Jie Luo
- Hainan Key Laboratory for Sustainable Utilization of Tropical Bioresource, College of Tropical Crops, Hainan University, Haikou, China
- Sanya Nanfan Research Institute of Hainan University, Hainan Yazhou Bay Seed Laboratory, Sanya, China
| | - Yuanhao Ding
- Hainan Key Laboratory for Sustainable Utilization of Tropical Bioresource, College of Tropical Crops, Hainan University, Haikou, China
- Sanya Nanfan Research Institute of Hainan University, Hainan Yazhou Bay Seed Laboratory, Sanya, China
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Hiwasa-Tanase K, Yano T, Kon T, Terakawa T, Ezura H. Environmental risk assessment of transgenic miraculin-accumulating tomato in a confined field trial in Japan. PLANT BIOTECHNOLOGY (TOKYO, JAPAN) 2021; 38:421-431. [PMID: 35087307 PMCID: PMC8761588 DOI: 10.5511/plantbiotechnology.21.1021a] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/25/2021] [Accepted: 10/21/2021] [Indexed: 06/14/2023]
Abstract
The commercial use of genetically modified (GM) crops requires prior assessment of the risks to the environment when these crops are grown in the field or distributed. Assessments protocols vary across countries and GM crop events, but there is a common need to assess environmental biosafety. In this study, we conducted an environmental risk assessment in a confined field of GM tomato plants that can produce miraculin, a taste-altering protein that causes sour tastes to be perceived as sweet, for practical use in Japan. The evaluation was conducted for 1) competitiveness (the ability to compete with wild plants for nutrients, sunlight, and growing areas and prevent their growth) and 2) the production of toxic substances (the ability to produce substances that interfere with the habitat and growth of wild plants, animals, and microorganisms). Investigations of plant morphology and growth characteristics as well as tolerance to low temperature during early growth and overwintering for assessment endpoints related to competitiveness showed no biologically meaningful difference between GM tomato and non-GM tomato. In addition, harmful substances in plant residues and root secretions were assessed by the plow-in method, succeeding crop test and soil microflora tests, and it was determined that GM tomato does not exhibit an increase in harmful substances. Based on these results, it was concluded that GM miraculin-accumulating tomato is comparable to conventional tomato and is unlikely to have unintended adverse effects in the natural environment of Japan.
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Affiliation(s)
- Kyoko Hiwasa-Tanase
- Faculty of Life and Environmental Sciences, University of Tsukuba, 1-1-1 Tennodai, Tsukuba, Ibaraki 305-8572, Japan
- Tsukuba-Plant Innovation Research Center, University of Tsukuba, 1-1-1 Tennodai, Tsukuba, Ibaraki 305-8572, Japan
| | - Tsubasa Yano
- Inplanta Innovations, Inc., 4-5-11 Namamugi, Tsurumi-ku, Yokohama, Kanagawa 230-0052, Japan
| | - Tatsuya Kon
- Inplanta Innovations, Inc., 4-5-11 Namamugi, Tsurumi-ku, Yokohama, Kanagawa 230-0052, Japan
| | - Teruhiko Terakawa
- Inplanta Innovations, Inc., 4-5-11 Namamugi, Tsurumi-ku, Yokohama, Kanagawa 230-0052, Japan
| | - Hiroshi Ezura
- Faculty of Life and Environmental Sciences, University of Tsukuba, 1-1-1 Tennodai, Tsukuba, Ibaraki 305-8572, Japan
- Tsukuba-Plant Innovation Research Center, University of Tsukuba, 1-1-1 Tennodai, Tsukuba, Ibaraki 305-8572, Japan
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Cheng L, Wang D, Wang Y, Xue H, Zhang F. An integrative overview of physiological and proteomic changes of cytokinin-induced potato (Solanum tuberosum L.) tuber development in vitro. PHYSIOLOGIA PLANTARUM 2020; 168:675-693. [PMID: 31343748 DOI: 10.1111/ppl.13014] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/01/2019] [Revised: 05/21/2019] [Accepted: 07/22/2019] [Indexed: 05/24/2023]
Abstract
Potato tuberization is a complicated biological process regulated by multiple phytohormones, in particular cytokinins (CKs). The information available on the molecular mechanisms regulating tuber development by CKs remains largely unclear. Physiological results initially indicated that low 6-benzylaminopurine (BAP) concentration (3 mg l-1 ) advanced the tuberization beginning time and promoted tuber formation. A comparative proteomics approach was applied to investigate the proteome change of tuber development by two-dimensional gel electrophoresis in vitro, subjected to exogenous BAP treatments (0, 3, 6 and 13 mg l-1 ). Quantitative image analysis showed a total of 83 protein spots with significantly altered abundance (>2.5-fold, P < 0.05), and 55 differentially abundant proteins were identified by MALDI-TOF/TOF MS. Among these proteins, 22 proteins exhibited up-regulation with the increase of exogenous BAP concentration, and 31 proteins were upregulated at 3 mg l-1 BAP whereas being downregulated at higher BAP concentrations. These proteins were involved in metabolism and bioenergy, storage, redox homeostasis, cell defense and rescue, transcription and translation, chaperones, signaling and transport. The favorable effects of low BAP concentrations on tuber development were found in various cellular processes, mainly including the stimulation of starch and storage protein accumulation, the enhancement of the glycolysis pathway and ATP synthesis, the cellular homeostasis maintenance, the activation of pathogen defense, the higher efficiency of transcription and translation, as well as the enhanced metabolite transport. However, higher BAP concentration, especially 13 mg l-1 , showed disadvantageous effects. The proposed hypothetical model would explain the interaction of these proteins associated with CK-induced tuber development in vitro.
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Affiliation(s)
- Lixiang Cheng
- Gansu Provincial Key Laboratory of Aridland Crop Science, College of Agronomy, Gansu Key Laboratory of Crop Improvement and Germplasm Enhancement, Gansu Agricultural University, Lanzhou, China
| | - Dongxia Wang
- Gansu Provincial Key Laboratory of Aridland Crop Science, College of Agronomy, Gansu Key Laboratory of Crop Improvement and Germplasm Enhancement, Gansu Agricultural University, Lanzhou, China
| | - Yuping Wang
- College of Horticulture, Gansu Agricultural University, Lanzhou, China
| | - Hongwei Xue
- National Key Laboratory of Plant Molecular Genetics, CAS Center for Excellence in Molecular Plant Sciences, Institute of Plant Physiology and Ecology, Shanghai Institutes for Biological Sciences, Chinese Academy of Sciences, Shanghai, China
- School of Agriculture and Biology, Shanghai Jiao Tong University, Shanghai, China
| | - Feng Zhang
- Gansu Provincial Key Laboratory of Aridland Crop Science, College of Agronomy, Gansu Key Laboratory of Crop Improvement and Germplasm Enhancement, Gansu Agricultural University, Lanzhou, China
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Ohkura SI, Hori M, Saitoh K, Okuzawa T, Okamoto I, Furukawa N, Shimizu-Ibuka A. Structural and functional analysis of miraculin-like protein from Vitis vinifera. BIOCHIMICA ET BIOPHYSICA ACTA-PROTEINS AND PROTEOMICS 2018; 1866:1125-1130. [PMID: 30282610 DOI: 10.1016/j.bbapap.2018.08.009] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/19/2018] [Revised: 08/17/2018] [Accepted: 08/24/2018] [Indexed: 11/28/2022]
Abstract
The so-called miraculin-like proteins (MLPs) are homologous to miraculin, a homodimeric protein with taste-modifying activity that converts sourness into sweetness. The identity between MLPs and miraculin generally ranges from 30% to 55%, and both MLPs and miraculin are categorized into the Kunitz-type soybean trypsin inhibitor (STI) family. MLP from grape (Vitis vinifera; vvMLP) exhibits significant homology to miraculin (61% identity), suggesting that vvMLP possesses miraculin-like properties. The results of size-exclusion chromatography and sensory analysis illustrated that vvMLP exists as a monomer in solution with no detectable taste-modifying activity. Crystal structure determination revealed that vvMLP exists as a β-trefoil fold, similarly as other MLPs and Kunitz-type protein inhibitors. The conformation of the loops, including the so-called reactive loop in the STI family, was substantially different between vvMLP and STI. Recombinant vvMLP had inhibitory activity against trypsin (Ki = 13.7 μM), indicating that the protein can act as a moderate trypsin inhibitor.
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Affiliation(s)
- So-Ichiro Ohkura
- Faculty of Applied Life Sciences, Niigata University of Pharmacy and Applied Life Sciences, 265-1 Higashijima, Akiha-ku, Niigata 956-8603, Japan
| | - Misaho Hori
- Faculty of Applied Life Sciences, Niigata University of Pharmacy and Applied Life Sciences, 265-1 Higashijima, Akiha-ku, Niigata 956-8603, Japan
| | - Kazuki Saitoh
- Faculty of Applied Life Sciences, Niigata University of Pharmacy and Applied Life Sciences, 265-1 Higashijima, Akiha-ku, Niigata 956-8603, Japan
| | - Takumi Okuzawa
- Faculty of Applied Life Sciences, Niigata University of Pharmacy and Applied Life Sciences, 265-1 Higashijima, Akiha-ku, Niigata 956-8603, Japan
| | - Ikuko Okamoto
- Faculty of Applied Life Sciences, Niigata University of Pharmacy and Applied Life Sciences, 265-1 Higashijima, Akiha-ku, Niigata 956-8603, Japan
| | - Nayuta Furukawa
- Faculty of Applied Life Sciences, Niigata University of Pharmacy and Applied Life Sciences, 265-1 Higashijima, Akiha-ku, Niigata 956-8603, Japan
| | - Akiko Shimizu-Ibuka
- Faculty of Applied Life Sciences, Niigata University of Pharmacy and Applied Life Sciences, 265-1 Higashijima, Akiha-ku, Niigata 956-8603, Japan.
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Nwugo CC, Sengoda VG, Tian L, Lin H. Characterization of physiological and molecular processes associated with potato response to Zebra chip disease. HORTICULTURE RESEARCH 2017; 4:17069. [PMID: 29238599 PMCID: PMC5717366 DOI: 10.1038/hortres.2017.69] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/21/2017] [Revised: 10/22/2017] [Accepted: 10/30/2017] [Indexed: 05/29/2023]
Abstract
Transcriptional analyses identified molecular mechanisms associated with the response of leaf and root potato tissues to 'Candidatus. Liberibacter solanacearum' (Lso) infection, presumptive causal agent of zebra chip disease (ZC). Putative Lso infection affected several host processes including defense response-, regulation-, starch metabolism- and energy production-related processes. Interestingly, while proteinase inhibitors were strongly upregulated in leaf tissues, a concomitant downregulation was observed in root tissues. Quantitative polymerase chain reaction (qPCR) analysis suggests that alternative splicing might play a role. Furthermore, the transcriptional expression of redox homeostasis-related genes, including superoxide dismutase, showed the most inconsistent response to Lso in leaf and root tissues, highlighting potential targets of Lso susceptibility. Additionally, a net increase in gene expression in ZC-affected tissues despite the concomitant downregulation of photosynthesis-related processes, suggests a putative Lso-mediated low resource-use-efficiency. Subsequent nutritional analyses revealed a hypothesized Lso-mediated increase in nutrient accumulation, particularly a 210 and 108% increases in the potassium concentration of ZC-affected leaf and root tissues, respectively, suggesting an important role for potassium in ZC pathophysiology. This study highlights insights of above and below ground tissues in molecular and physiological aspects associated with potato response to ZC.
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Affiliation(s)
- Chika C Nwugo
- San Joaquin Valley Agricultural Sciences Center, USDA-ARS, Parlier, CA 93658, USA
| | - Venkatesan G Sengoda
- California Seed and Plant Labs, Sacramento, CA 95668, USA
- USDA-ARS, Yakima Agricultural Research Laboratory, Wapato, WA 98951, USA
| | - Li Tian
- Department of Plant Sciences, University of California, Davis, Davis, CA 95616, USA
| | - Hong Lin
- San Joaquin Valley Agricultural Sciences Center, USDA-ARS, Parlier, CA 93658, USA
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López-Galiano MJ, Ruiz-Arroyo VM, Fernández-Crespo E, Rausell C, Real MD, García-Agustín P, González-Bosch C, García-Robles I. Oxylipin mediated stress response of a miraculin-like protease inhibitor in Hexanoic acid primed eggplant plants infested by Colorado potato beetle. JOURNAL OF PLANT PHYSIOLOGY 2017; 215:59-64. [PMID: 28578135 DOI: 10.1016/j.jplph.2017.04.013] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/08/2017] [Revised: 03/30/2017] [Accepted: 04/01/2017] [Indexed: 05/27/2023]
Abstract
Insect-plant interactions are governed by a complex equilibrium between the mechanisms through which plant recognize insect attack and orchestrate downstream signaling events that trigger plant defense responses, and the mechanisms by which insects overcome plant defenses. Due to this tight and dynamic interplay, insight into the nature of the plant defense response can be gained by analyzing changes in the insect herbivores digestive system upon plant feeding. In this work we have identified a Solanum melongena miraculin-like protease inhibitor in the midgut juice of Colorado potato larvae feeding on eggplant plants treated with the natural inducer of plant defenses hexanoic acid. We analyzed the corresponding gene expression by qRT-PCR and our results showed that this eggplant miraculin-like gene enhanced induction contributes to the hexanoic acid priming effect in this Solanaceae species. Moreover, our data evidencing that OPDA might be involved in this gene regulation highlights its potential as biomarker in eggplant plant responses to stress mediated this oxylipin signaling pathway.
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Affiliation(s)
- M José López-Galiano
- Department of Genetics, University of Valencia, Dr. Moliner 50, Burjassot 46100, Valencia, Spain
| | | | - Emma Fernández-Crespo
- Plant Physiology Area, Biochemistry and Biotechnology Laboratory, Department CAMN, University Jaume I, Castellón, 12071, Spain
| | - Carolina Rausell
- Department of Genetics, University of Valencia, Dr. Moliner 50, Burjassot 46100, Valencia, Spain
| | - M Dolores Real
- Department of Genetics, University of Valencia, Dr. Moliner 50, Burjassot 46100, Valencia, Spain
| | - Pilar García-Agustín
- Plant Physiology Area, Biochemistry and Biotechnology Laboratory, Department CAMN, University Jaume I, Castellón, 12071, Spain
| | - Carmen González-Bosch
- Department of Biochemistry and Molecular Biology, University of Valencia, IATA (CSIC), Paterna, Valencia, 46980, Spain
| | - Inmaculada García-Robles
- Department of Genetics, University of Valencia, Dr. Moliner 50, Burjassot 46100, Valencia, Spain.
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Nwugo CC, Doud MS, Duan YP, Lin H. Proteomics analysis reveals novel host molecular mechanisms associated with thermotherapy of 'Ca. Liberibacter asiaticus'-infected citrus plants. BMC PLANT BIOLOGY 2016; 16:253. [PMID: 27842496 PMCID: PMC5109811 DOI: 10.1186/s12870-016-0942-x] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/20/2016] [Accepted: 11/02/2016] [Indexed: 05/22/2023]
Abstract
BACKGROUND Citrus Huanglongbing (HLB), which is linked to the bacterial pathogen 'Ca. Liberibacter asiaticus' (Las), is the most devastating disease of citrus plants, and longer-term control measures via breeding or genetic engineering have been unwieldy because all cultivated citrus species are susceptible to the disease. However, the degree of susceptibility varies among citrus species, which has prompted efforts to identify potential Las resistance/tolerance-related genes in citrus plants for application in breeding or genetic engineering programs. Plant exposure to one form of stress has been shown to serendipitously induce innate resistance to other forms of stress and a recent study showed that continuous heat treatment (40 to 42 °C) reduced Las titer and HLB-associated symptoms in citrus seedlings. The goal of the present study was to apply comparative proteomics analysis via 2-DE and mass spectrometry to elucidate the molecular processes associated with heat-induced mitigation of HLB in citrus plants. Healthy or Las-infected citrus grapefruit plants were exposed to room temperature or to continuous heat treatment of 40 °C for 6 days. RESULTS An exhaustive total protein extraction process facilitated the identification of 107 differentially-expressed proteins in response to Las and/or heat treatment, which included a strong up-regulation of chaperones including small (23.6, 18.5 and 17.9 kDa) heat shock proteins, a HSP70-like protein and a ribulose-1,5-bisphosphate carboxylase oxygenase (RuBisCO)-binding 60 kDa chaperonin, particularly in response to heat treatment. Other proteins that were generally down-regulated due to Las infection but up-regulated in response to heat treatment include RuBisCO activase, chlorophyll a/b binding protein, glucosidase II beta subunit-like protein, a putative lipoxygenase protein, a ferritin-like protein, and a glutathione S-transferase. CONCLUSIONS The differentially-expressed proteins identified in this study highlights a premier characterization of the molecular mechanisms potentially involved in the reversal of Las-induced pathogenicity processes in citrus plants and are hence proposed targets for application towards the development of cisgenic Las-resistant/tolerant citrus plants.
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Affiliation(s)
- Chika C. Nwugo
- USDA, Agricultural Research Service, San Joaquin Valley Agricultural Sciences Center, 9611 South Riverbend Avenue, Parlier, 93648 CA USA
| | - Melissa S. Doud
- USDA, Agricultural Research Service, U.S. Horticultural Research Laboratory, Fort Pierce, 34945 FL USA
| | - Yong-ping Duan
- USDA, Agricultural Research Service, U.S. Horticultural Research Laboratory, Fort Pierce, 34945 FL USA
| | - Hong Lin
- USDA, Agricultural Research Service, San Joaquin Valley Agricultural Sciences Center, 9611 South Riverbend Avenue, Parlier, 93648 CA USA
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Mosquera T, Alvarez MF, Jiménez-Gómez JM, Muktar MS, Paulo MJ, Steinemann S, Li J, Draffehn A, Hofmann A, Lübeck J, Strahwald J, Tacke E, Hofferbert HR, Walkemeier B, Gebhardt C. Targeted and Untargeted Approaches Unravel Novel Candidate Genes and Diagnostic SNPs for Quantitative Resistance of the Potato (Solanum tuberosum L.) to Phytophthora infestans Causing the Late Blight Disease. PLoS One 2016; 11:e0156254. [PMID: 27281327 PMCID: PMC4900573 DOI: 10.1371/journal.pone.0156254] [Citation(s) in RCA: 33] [Impact Index Per Article: 4.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/14/2015] [Accepted: 05/08/2016] [Indexed: 11/18/2022] Open
Abstract
The oomycete Phytophthora infestans causes late blight of potato, which can completely destroy the crop. Therefore, for the past 160 years, late blight has been the most important potato disease worldwide. The identification of cultivars with high and durable field resistance to P. infestans is an objective of most potato breeding programs. This type of resistance is polygenic and therefore quantitative. Its evaluation requires multi-year and location trials. Furthermore, quantitative resistance to late blight correlates with late plant maturity, a negative agricultural trait. Knowledge of the molecular genetic basis of quantitative resistance to late blight not compromised by late maturity is very limited. It is however essential for developing diagnostic DNA markers that facilitate the efficient combination of superior resistance alleles in improved cultivars. We used association genetics in a population of 184 tetraploid potato cultivars in order to identify single nucleotide polymorphisms (SNPs) that are associated with maturity corrected resistance (MCR) to late blight. The population was genotyped for almost 9000 SNPs from three different sources. The first source was candidate genes specifically selected for their function in the jasmonate pathway. The second source was novel candidate genes selected based on comparative transcript profiling (RNA-Seq) of groups of genotypes with contrasting levels of quantitative resistance to P. infestans. The third source was the first generation 8.3k SolCAP SNP genotyping array available in potato for genome wide association studies (GWAS). Twenty seven SNPs from all three sources showed robust association with MCR. Some of those were located in genes that are strong candidates for directly controlling quantitative resistance, based on functional annotation. Most important were: a lipoxygenase (jasmonate pathway), a 3-hydroxy-3-methylglutaryl coenzyme A reductase (mevalonate pathway), a P450 protein (terpene biosynthesis), a transcription factor and a homolog of a major gene for resistance to P. infestans from the wild potato species Solanum venturii. The candidate gene approach and GWAS complemented each other as they identified different genes. The results of this study provide new insight in the molecular genetic basis of quantitative resistance in potato and a toolbox of diagnostic SNP markers for breeding applications.
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Affiliation(s)
- Teresa Mosquera
- Department of Plant Breeding and Genetics, Max-Planck Institute for Plant Breeding Research, Cologne, Germany
- Faculty of Agricultural Sciences, Universidad Nacional de Colombia, Bogotá, Colombia
| | - Maria Fernanda Alvarez
- Department of Plant Breeding and Genetics, Max-Planck Institute for Plant Breeding Research, Cologne, Germany
- Faculty of Agricultural Sciences, Universidad Nacional de Colombia, Bogotá, Colombia
| | - José M. Jiménez-Gómez
- Department of Plant Breeding and Genetics, Max-Planck Institute for Plant Breeding Research, Cologne, Germany
- Institute Jean-Pierre Bourgin, INRA, AgroParis Tech, CNRS, Université Paris-Saclay, Versailles, France
| | - Meki Shehabu Muktar
- Department of Plant Breeding and Genetics, Max-Planck Institute for Plant Breeding Research, Cologne, Germany
| | | | - Sebastian Steinemann
- Department of Plant Breeding and Genetics, Max-Planck Institute for Plant Breeding Research, Cologne, Germany
| | - Jinquan Li
- Department of Plant Breeding and Genetics, Max-Planck Institute for Plant Breeding Research, Cologne, Germany
| | - Astrid Draffehn
- Department of Plant Breeding and Genetics, Max-Planck Institute for Plant Breeding Research, Cologne, Germany
| | - Andrea Hofmann
- Department of Genomics, Life & Brain Center, Institute of Human Genetics, University of Bonn, Bonn, Germany
| | - Jens Lübeck
- SaKa-Pflanzenzucht GmbH & Co. KG, 24340, Windeby, Germany
| | | | | | | | - Birgit Walkemeier
- Department of Plant Breeding and Genetics, Max-Planck Institute for Plant Breeding Research, Cologne, Germany
| | - Christiane Gebhardt
- Department of Plant Breeding and Genetics, Max-Planck Institute for Plant Breeding Research, Cologne, Germany
- * E-mail:
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Guiguet A, Dubreuil G, Harris MO, Appel HM, Schultz JC, Pereira MH, Giron D. Shared weapons of blood- and plant-feeding insects: Surprising commonalities for manipulating hosts. JOURNAL OF INSECT PHYSIOLOGY 2016; 84:4-21. [PMID: 26705897 DOI: 10.1016/j.jinsphys.2015.12.006] [Citation(s) in RCA: 20] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/01/2015] [Revised: 12/14/2015] [Accepted: 12/15/2015] [Indexed: 05/04/2023]
Abstract
Insects that reprogram host plants during colonization remind us that the insect side of plant-insect story is just as interesting as the plant side. Insect effectors secreted by the salivary glands play an important role in plant reprogramming. Recent discoveries point to large numbers of salivary effectors being produced by a single herbivore species. Since genetic and functional characterization of effectors is an arduous task, narrowing the field of candidates is useful. We present ideas about types and functions of effectors from research on blood-feeding parasites and their mammalian hosts. Because of their importance for human health, blood-feeding parasites have more tools from genomics and other - omics than plant-feeding parasites. Four themes have emerged: (1) mechanical damage resulting from attack by blood-feeding parasites triggers "early danger signals" in mammalian hosts, which are mediated by eATP, calcium, and hydrogen peroxide, (2) mammalian hosts need to modulate their immune responses to the three "early danger signals" and use apyrases, calreticulins, and peroxiredoxins, respectively, to achieve this, (3) blood-feeding parasites, like their mammalian hosts, rely on some of the same "early danger signals" and modulate their immune responses using the same proteins, and (4) blood-feeding parasites deploy apyrases, calreticulins, and peroxiredoxins in their saliva to manipulate the "danger signals" of their mammalian hosts. We review emerging evidence that plant-feeding insects also interfere with "early danger signals" of their hosts by deploying apyrases, calreticulins and peroxiredoxins in saliva. Given emerging links between these molecules, and plant growth and defense, we propose that these effectors interfere with phytohormone signaling, and therefore have a special importance for gall-inducing and leaf-mining insects, which manipulate host-plants to create better food and shelter.
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Affiliation(s)
- Antoine Guiguet
- Institut de Recherche sur la Biologie de l'Insecte, UMR 7261 CNRS - Université François-Rabelais de Tours, 37200 Tours, France; Département de Biologie, École Normale Supérieure de Lyon, 69007 Lyon, France
| | - Géraldine Dubreuil
- Institut de Recherche sur la Biologie de l'Insecte, UMR 7261 CNRS - Université François-Rabelais de Tours, 37200 Tours, France
| | - Marion O Harris
- Department of Entomology, North Dakota State University, Fargo, ND 58105, USA; Le Studium Loire Valley Institute for Advanced Studies, 45000 Orléans, France
| | - Heidi M Appel
- Life Science Center, University of Missouri, Columbia, MO 65211, USA
| | - Jack C Schultz
- Life Science Center, University of Missouri, Columbia, MO 65211, USA
| | - Marcos H Pereira
- Le Studium Loire Valley Institute for Advanced Studies, 45000 Orléans, France; Laboratório de Fisiologia de Insectos Hematófagos, Universidade Federal de Minas Gerais, Belo Horizonte, Brazil
| | - David Giron
- Institut de Recherche sur la Biologie de l'Insecte, UMR 7261 CNRS - Université François-Rabelais de Tours, 37200 Tours, France.
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10
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Zhang H, Dugé de Bernonville T, Body M, Glevarec G, Reichelt M, Unsicker S, Bruneau M, Renou JP, Huguet E, Dubreuil G, Giron D. Leaf-mining by Phyllonorycter blancardella reprograms the host-leaf transcriptome to modulate phytohormones associated with nutrient mobilization and plant defense. JOURNAL OF INSECT PHYSIOLOGY 2016; 84:114-127. [PMID: 26068004 DOI: 10.1016/j.jinsphys.2015.06.003] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/01/2015] [Revised: 06/04/2015] [Accepted: 06/05/2015] [Indexed: 05/05/2023]
Abstract
Phytohormones have long been hypothesized to play a key role in the interactions between plant-manipulating organisms and their host-plants such as insect-plant interactions that lead to gall or 'green-islands' induction. However, mechanistic understanding of how phytohormones operate in these plant reconfigurations is lacking due to limited information on the molecular and biochemical phytohormonal modulation following attack by plant-manipulating insects. In an attempt to fill this gap, the present study provides an extensive characterization of how the leaf-miner Phyllonorycter blancardella modulates the major phytohormones and the transcriptional activity of plant cells in leaves of Malus domestica. We show here, that cytokinins strongly accumulate in mined tissues despite a weak expression of plant cytokinin-related genes. Leaf-mining is also associated with enhanced biosynthesis of jasmonic acid precursors but not the active form, a weak alteration of the salicylic acid pathway and a clear inhibition of the abscisic acid pathway. Our study consolidates previous results suggesting that insects may produce and deliver cytokinins to the plant as a strategy to manipulate the physiology of the leaf to create a favorable nutritional environment. We also demonstrate that leaf-mining by P. blancardella leads to a strong reprogramming of the plant phytohormonal balance associated with increased nutrient mobilization, inhibition of leaf senescence and mitigation of plant direct and indirect defense.
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Affiliation(s)
- Hui Zhang
- Institut de Recherche sur la Biologie de l'Insecte, UMR 7261, CNRS/Université François-Rabelais de Tours, Tours, France.
| | - Thomas Dugé de Bernonville
- Laboratoire Biologie Végétale et Biomolécules, EA 2106, Université François-Rabelais de Tours, Tours, France.
| | - Mélanie Body
- Institut de Recherche sur la Biologie de l'Insecte, UMR 7261, CNRS/Université François-Rabelais de Tours, Tours, France.
| | - Gaëlle Glevarec
- Laboratoire Biologie Végétale et Biomolécules, EA 2106, Université François-Rabelais de Tours, Tours, France.
| | - Michael Reichelt
- Department of Biochemistry, Max-Planck-Institute for Chemical Ecology, Jena, Germany.
| | - Sybille Unsicker
- Department of Biochemistry, Max-Planck-Institute for Chemical Ecology, Jena, Germany.
| | - Maryline Bruneau
- Institut de Recherche en Horticulture et Semences, UMR 1345, INRA, SFR 4207 QuaSaV, Beaucouzé, France.
| | - Jean-Pierre Renou
- Institut de Recherche en Horticulture et Semences, UMR 1345, INRA, SFR 4207 QuaSaV, Beaucouzé, France.
| | - Elisabeth Huguet
- Institut de Recherche sur la Biologie de l'Insecte, UMR 7261, CNRS/Université François-Rabelais de Tours, Tours, France.
| | - Géraldine Dubreuil
- Institut de Recherche sur la Biologie de l'Insecte, UMR 7261, CNRS/Université François-Rabelais de Tours, Tours, France.
| | - David Giron
- Institut de Recherche sur la Biologie de l'Insecte, UMR 7261, CNRS/Université François-Rabelais de Tours, Tours, France.
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11
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Podda A, Simili M, Del Carratore R, Mouhaya W, Morillon R, Maserti BE. Expression profiling of two stress-inducible genes encoding for miraculin-like proteins in citrus plants under insect infestation or salinity stress. JOURNAL OF PLANT PHYSIOLOGY 2014; 171:45-54. [PMID: 24001970 DOI: 10.1016/j.jplph.2013.08.001] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/05/2013] [Revised: 08/01/2013] [Accepted: 08/01/2013] [Indexed: 06/02/2023]
Abstract
The expression of two genes, namely Mir1 and Mir3 and the abundance of their encoded proteins, the putative miraculin-like proteins, MLP1 and MLP3, showing similarity to the Kunitz family of protease inhibitors, were monitored in the leaves of the citrus variety, 'Clementine' after Tetranychus urticae infestation and elicitor treatments, or in the leaves of three other diploid citrus: 'Willow leaf', 'Cleopatra' mandarins and 'Trifoliate' orange, as well as their respective doubled diploids and the allotetraploid somatic hybrid 'FLHORAG1' under salt stress. RT-PCR and 2-DE indicated that Mir1 and Mir3 and their products were present at low-basal expression in all citrus genotypes. Both genes and products were induced in the 'Clementine' leaves infested by T. urticae, but a contrasting profile was observed under elicitor treatments. Under salt stress, the two genes showed an expression pattern contrasting each other and depending on the genotypes. 'Cleopatra' mandarin, 'Trifoliate' orange and 'FLHORAG1' presented overexpression of Mir3 and MLP3 and decreased levels of Mir1 and MPL1. The opposite behaviour was found in 'Willow leaf' mandarin. The positive correlation of the expression profile of the two genes with that of a gene encoding a putative apoplastic cysteine protease (CysP) might suggest a possible interaction of the respective encoded proteins during the response to biotic stress. Under salt stress, CysP and Mir 1 showed a similar expression pattern but only at transcript level. The possible occurrence of post-translational CysP regulation is discussed.
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Affiliation(s)
- A Podda
- CNR-IBF, Istituto di Biofisica, Dipartimento di Scienze fisiche e tecnologie della materia, Italy
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12
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Takai A, Satoh M, Matsuyama T, Ito A, Nakata R, Aoyama T, Inoue H. Secretion of miraculin through the function of a signal peptide conserved in the Kunitz-type soybean trypsin inhibitor family. FEBS Lett 2013; 587:1767-72. [PMID: 23660404 DOI: 10.1016/j.febslet.2013.04.026] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/03/2013] [Revised: 04/19/2013] [Accepted: 04/19/2013] [Indexed: 11/26/2022]
Abstract
Miraculin, a glycoprotein that modifies sour tastes into sweet ones, belongs to the Kunitz-type soybean trypsin inhibitor (STI) family. To clarify the functional relation of miraculin with Kunitz-type STIs, we investigated its subcellular localization and trypsin inhibitory activity. In transgenic Arabidopsis thaliana, miraculin, fused to yellow fluorescent protein, localized to and outside the plasma membrane depending on the putative secretion signal peptide. When transgenic seedlings were cultured in liquid medium, miraculin was present in the supernatant only after cellulase treatment. No trypsin inhibitory activity was detected in native or recombinant miraculin. In conclusion, miraculin is secreted outside the plasma membrane through the function of a signal peptide, conserved in Kunitz-type STIs, whereas its trypsin inhibitory activity may be lost during its evolution.
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Affiliation(s)
- Ayako Takai
- Department of Food Science and Nutrition, Nara Women's University, Nara 630-8506, Japan
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13
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Selvakumar P, Gahloth D, Tomar PPS, Sharma N, Sharma AK. Molecular evolution of miraculin-like proteins in soybean Kunitz super-family. J Mol Evol 2011; 73:369-79. [PMID: 22274614 DOI: 10.1007/s00239-012-9484-5] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/02/2011] [Accepted: 01/09/2012] [Indexed: 10/14/2022]
Abstract
Miraculin-like proteins (MLPs) belong to soybean Kunitz super-family and have been characterized from many plant families like Rutaceae, Solanaceae, Rubiaceae, etc. Many of them possess trypsin inhibitory activity and are involved in plant defense. MLPs exhibit significant sequence identity (~30-95%) to native miraculin protein, also belonging to Kunitz super-family compared with a typical Kunitz family member (~30%). The sequence and structure-function comparison of MLPs with that of a classical Kunitz inhibitor have demonstrated that MLPs have evolved to form a distinct group within Kunitz super-family. Sequence analysis of new genes along with available MLP sequences in the literature revealed three major groups for these proteins. A significant feature of Rutaceae MLP type 2 sequences is the presence of phosphorylation motif. Subtle changes are seen in putative reactive loop residues among different MLPs suggesting altered specificities to specific proteases. In phylogenetic analysis, Rutaceae MLP type 1 and type 2 proteins clustered together on separate branches, whereas native miraculin along with other MLPs formed distinct clusters. Site-specific positive Darwinian selection was observed at many sites in both the groups of Rutaceae MLP sequences with most of the residues undergoing positive selection located in loop regions. The results demonstrate the sequence and thereby the structure-function divergence of MLPs as a distinct group within soybean Kunitz super-family due to biotic and abiotic stresses of local environment.
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Affiliation(s)
- Purushotham Selvakumar
- Department of Biotechnology, Indian Institute of Technology Roorkee, Roorkee 247 667, India
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14
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Guillaumie S, Fouquet R, Kappel C, Camps C, Terrier N, Moncomble D, Dunlevy JD, Davies C, Boss PK, Delrot S. Transcriptional analysis of late ripening stages of grapevine berry. BMC PLANT BIOLOGY 2011; 11:165. [PMID: 22098939 PMCID: PMC3233516 DOI: 10.1186/1471-2229-11-165] [Citation(s) in RCA: 20] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/05/2011] [Accepted: 11/18/2011] [Indexed: 05/03/2023]
Abstract
BACKGROUND The composition of grapevine berry at harvest is a major determinant of wine quality. Optimal oenological maturity of berries is characterized by a high sugar/acidity ratio, high anthocyanin content in the skin, and low astringency. However, harvest time is still mostly determined empirically, based on crude biochemical composition and berry tasting. In this context, it is interesting to identify genes that are expressed/repressed specifically at the late stages of ripening and which may be used as indicators of maturity. RESULTS Whole bunches and berries sorted by density were collected in vineyard on Chardonnay (white cultivar) grapevines for two consecutive years at three stages of ripening (7-days before harvest (TH-7), harvest (TH), and 10-days after harvest (TH+10)). Microvinification and sensory analysis indicate that the quality of the wines made from the whole bunches collected at TH-7, TH and TH+10 differed, TH providing the highest quality wines.In parallel, gene expression was studied with Qiagen/Operon microarrays using two types of samples, i.e. whole bunches and berries sorted by density. Only 12 genes were consistently up- or down-regulated in whole bunches and density sorted berries for the two years studied in Chardonnay. 52 genes were differentially expressed between the TH-7 and TH samples. In order to determine whether these genes followed a similar pattern of expression during the late stages of berry ripening in a red cultivar, nine genes were selected for RT-PCR analysis with Cabernet Sauvignon grown under two different temperature regimes affecting the precocity of ripening. The expression profiles and their relationship to ripening were confirmed in Cabernet Sauvignon for seven genes, encoding a carotenoid cleavage dioxygenase, a galactinol synthase, a late embryogenesis abundant protein, a dirigent-like protein, a histidine kinase receptor, a valencene synthase and a putative S-adenosyl-L-methionine:salicylic acid carboxyl methyltransferase. CONCLUSIONS This set of up- and down-regulated genes characterize the late stages of berry ripening in the two cultivars studied, and are indirectly linked to wine quality. They might be used directly or indirectly to design immunological, biochemical or molecular tools aimed at the determination of optimal ripening in these cultivars.
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Affiliation(s)
- Sabine Guillaumie
- Univ. Bordeaux, ISVV, Ecophysiologie et Génomique Fonctionnelle de la Vigne, UMR 1287, F-33140 Villenave d'Ornon, France
- INRA, ISVV, Ecophysiologie et Génomique Fonctionnelle de la Vigne, UMR 1287, F-33140 Villenave d'Ornon, France
| | - Romain Fouquet
- Univ. Bordeaux, ISVV, Ecophysiologie et Génomique Fonctionnelle de la Vigne, UMR 1287, F-33140 Villenave d'Ornon, France
- INRA, ISVV, Ecophysiologie et Génomique Fonctionnelle de la Vigne, UMR 1287, F-33140 Villenave d'Ornon, France
| | - Christian Kappel
- Univ. Bordeaux, ISVV, Ecophysiologie et Génomique Fonctionnelle de la Vigne, UMR 1287, F-33140 Villenave d'Ornon, France
- INRA, ISVV, Ecophysiologie et Génomique Fonctionnelle de la Vigne, UMR 1287, F-33140 Villenave d'Ornon, France
| | - Céline Camps
- Univ. Bordeaux, ISVV, Ecophysiologie et Génomique Fonctionnelle de la Vigne, UMR 1287, F-33140 Villenave d'Ornon, France
- INRA, ISVV, Ecophysiologie et Génomique Fonctionnelle de la Vigne, UMR 1287, F-33140 Villenave d'Ornon, France
| | - Nancy Terrier
- INRA, UMR1083 Science Pour l'Oenologie, 2 Place Viala, 34060 Montpellier, Cedex 01, France
| | - Dominique Moncomble
- Comité Interprofessionel du Vin de Champagne, 5 rue Henri Martin, 51204 Epernay, France
| | - Jake D Dunlevy
- Flinders University of South Australia, School of Biological Science, GPO Box 2100, SA 5001, Australia
| | - Christopher Davies
- CSIRO Plant Industry, Waite Campus, Hartley Grove, PO Box 350, Glen Osmond SA 5064, Australia
| | - Paul K Boss
- CSIRO Plant Industry, Waite Campus, Hartley Grove, PO Box 350, Glen Osmond SA 5064, Australia
| | - Serge Delrot
- Univ. Bordeaux, ISVV, Ecophysiologie et Génomique Fonctionnelle de la Vigne, UMR 1287, F-33140 Villenave d'Ornon, France
- INRA, ISVV, Ecophysiologie et Génomique Fonctionnelle de la Vigne, UMR 1287, F-33140 Villenave d'Ornon, France
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