1
|
Zhang W, Planas-Marquès M, Mazier M, Šimkovicová M, Rocafort M, Mantz M, Huesgen PF, Takken FLW, Stintzi A, Schaller A, Coll NS, Valls M. The tomato P69 subtilase family is involved in resistance to bacterial wilt. Plant J 2024; 118:388-404. [PMID: 38150324 DOI: 10.1111/tpj.16613] [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] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/01/2023] [Revised: 12/13/2023] [Accepted: 12/15/2023] [Indexed: 12/29/2023]
Abstract
The intercellular space or apoplast constitutes the main interface in plant-pathogen interactions. Apoplastic subtilisin-like proteases-subtilases-may play an important role in defence and they have been identified as targets of pathogen-secreted effector proteins. Here, we characterise the role of the Solanaceae-specific P69 subtilase family in the interaction between tomato and the vascular bacterial wilt pathogen Ralstonia solanacearum. R. solanacearum infection post-translationally activated several tomato P69s. Among them, P69D was exclusively activated in tomato plants resistant to R. solanacearum. In vitro experiments showed that P69D activation by prodomain removal occurred in an autocatalytic and intramolecular reaction that does not rely on the residue upstream of the processing site. Importantly P69D-deficient tomato plants were more susceptible to bacterial wilt and transient expression of P69B, D and G in Nicotiana benthamiana limited proliferation of R. solanacearum. Our study demonstrates that P69s have conserved features but diverse functions in tomato and that P69D is involved in resistance to R. solanacearum but not to other vascular pathogens like Fusarium oxysporum.
Collapse
Affiliation(s)
- Weiqi Zhang
- Centre for Research in Agricultural Genomics (CRAG), CSIC-IRTA-UAB-UB, Campus UAB, Bellaterra, Spain
| | - Marc Planas-Marquès
- Centre for Research in Agricultural Genomics (CRAG), CSIC-IRTA-UAB-UB, Campus UAB, Bellaterra, Spain
- Department of Genetics, Microbiology and Statistics, Universitat de Barcelona, Barcelona, Catalonia, Spain
| | | | - Margarita Šimkovicová
- Molecular Plant Pathology, Faculty of Science, Swammerdam Institute for Life Sciences, University of Amsterdam, Amsterdam, The Netherlands
| | - Mercedes Rocafort
- Centre for Research in Agricultural Genomics (CRAG), CSIC-IRTA-UAB-UB, Campus UAB, Bellaterra, Spain
| | - Melissa Mantz
- Central Institute for Engineering, Electronics and Analytics, ZEA-3, Forschungszentrum Jülich, Jülich, Germany
- CECAD, Medical Faculty and University Hospital, University of Cologne, Cologne, Germany
| | - Pitter F Huesgen
- Central Institute for Engineering, Electronics and Analytics, ZEA-3, Forschungszentrum Jülich, Jülich, Germany
- CECAD, Medical Faculty and University Hospital, University of Cologne, Cologne, Germany
- Faculty of Mathematics and Natural Sciences, Institute for Biochemistry, University of Cologne, Cologne, Germany
| | - Frank L W Takken
- Molecular Plant Pathology, Faculty of Science, Swammerdam Institute for Life Sciences, University of Amsterdam, Amsterdam, The Netherlands
| | - Annick Stintzi
- Department of Plant Physiology and Biochemistry, University of Hohenheim, Stuttgart, Germany
| | - Andreas Schaller
- Department of Plant Physiology and Biochemistry, University of Hohenheim, Stuttgart, Germany
| | - Nuria S Coll
- Centre for Research in Agricultural Genomics (CRAG), CSIC-IRTA-UAB-UB, Campus UAB, Bellaterra, Spain
- Consejo Superior de Investigaciones Científicas (CSIC), Barcelona, Spain
| | - Marc Valls
- Centre for Research in Agricultural Genomics (CRAG), CSIC-IRTA-UAB-UB, Campus UAB, Bellaterra, Spain
- Department of Genetics, Microbiology and Statistics, Universitat de Barcelona, Barcelona, Catalonia, Spain
| |
Collapse
|
2
|
Nizampatnam NR, Sharma K, Gupta P, Pamei I, Sarma S, Sreelakshmi Y, Sharma R. Introgression of a dominant phototropin1 mutant enhances carotenoids and boosts flavour-related volatiles in genome-edited tomato RIN mutants. New Phytol 2024; 241:2227-2242. [PMID: 38151719 DOI: 10.1111/nph.19510] [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] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/17/2023] [Accepted: 12/10/2023] [Indexed: 12/29/2023]
Abstract
The tomato (Solanum lycopersicum) ripening inhibitor (rin) mutation is known to completely repress fruit ripening. The heterozygous (RIN/rin) fruits have extended shelf life, ripen normally, but have inferior taste/flavour. To address this, we used genome editing to generate newer alleles of RIN (rinCR ) by targeting the K-domain. Unlike previously reported CRISPR alleles, the rinCR alleles displayed delayed onset of ripening, suggesting that the mutated K-domain represses the onset of ripening. The rinCR fruits had extended shelf life and accumulated carotenoids at an intermediate level between rin and progenitor line. Besides, the metabolites and hormonal levels in rinCR fruits were more akin to rin. To overcome the negative attributes of rin, we crossed the rinCR alleles with Nps1, a dominant-negative phototropin1 mutant, which enhances carotenoid levels in tomato fruits. The resulting Nps1/rinCR hybrids had extended shelf life and 4.4-7.1-fold higher carotenoid levels than the wild-type parent. The metabolome of Nps1/rinCR fruits revealed higher sucrose, malate, and volatiles associated with tomato taste and flavour. Notably, the boosted volatiles in Nps1/rinCR were only observed in fruits bearing the homozygous Nps1 mutation. The Nps1 introgression into tomato provides a promising strategy for developing cultivars with extended shelf life, improved taste, and flavour.
Collapse
Grants
- BT/COE/34/SP15209/2015 Department of Biotechnology, Ministry of Science and Technology, India
- BT/INF/22/SP44787/2021 Department of Biotechnology, Ministry of Science and Technology, India
- BT/PR6983/PBD/16/1007/2012 Department of Biotechnology, Ministry of Science and Technology, India
- BT/PR/7002/PBD/16/1009/2012 Department of Biotechnology, Ministry of Science and Technology, India
- BT/PR11671/PBD/16/828/2008 Department of Biotechnology, Ministry of Science and Technology, India
Collapse
Affiliation(s)
- Narasimha Rao Nizampatnam
- Repository of Tomato Genomics Resources, Department of Plant Sciences, University of Hyderabad, Hyderabad, 500046, India
| | - Kapil Sharma
- Repository of Tomato Genomics Resources, Department of Plant Sciences, University of Hyderabad, Hyderabad, 500046, India
| | - Prateek Gupta
- Repository of Tomato Genomics Resources, Department of Plant Sciences, University of Hyderabad, Hyderabad, 500046, India
- Department of Biological Sciences, SRM University-AP, Neerukonda, Andhra Pradesh, 522240, India
| | - Injangbuanang Pamei
- Repository of Tomato Genomics Resources, Department of Plant Sciences, University of Hyderabad, Hyderabad, 500046, India
| | - Supriya Sarma
- Repository of Tomato Genomics Resources, Department of Plant Sciences, University of Hyderabad, Hyderabad, 500046, India
| | - Yellamaraju Sreelakshmi
- Repository of Tomato Genomics Resources, Department of Plant Sciences, University of Hyderabad, Hyderabad, 500046, India
| | - Rameshwar Sharma
- Repository of Tomato Genomics Resources, Department of Plant Sciences, University of Hyderabad, Hyderabad, 500046, India
| |
Collapse
|
3
|
Quevedo-Colmena AS, Ortiz-Atienza A, Jáquez-Gutiérrez M, Quinet M, Atarés A, Yuste-Lisbona FJ, Moreno V, Angosto T, Lozano R. Loss of function mutations at the tomato SSI2 locus impair plant growth and development by altering the fatty acid desaturation pathway. Plant Biol (Stuttg) 2024; 26:106-116. [PMID: 37983594 DOI: 10.1111/plb.13591] [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] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/28/2023] [Accepted: 10/24/2023] [Indexed: 11/22/2023]
Abstract
The stearoyl-ACP desaturase (SACPD) is a key enzyme in the regulation of saturated to unsaturated fatty acid ratio, playing a crucial role in regulating membrane stability and fluidity, as well as photosynthesis efficiency, which makes it an important research focus in crop species. This study reports the characterization and molecular cloning of pale dwarf (pad), a new tomato (Solanum lycopersicum L.) T-DNA recessive mutant, which exhibits a dwarf and chlorotic phenotype. Functional studies of the T-DNA tagged gene were conducted, including phylogenetic analysis, expression and metabolomic analyses, and generation of CRISPR/Cas9 knockout lines. The cloning of T-DNA flanking genomic sequences and a co-segregation analysis found the pad phenotype was caused by a T-DNA insertion disrupting the tomato homologue of the Arabidopsis SUPPRESSOR OF SALICYLIC ACID INSENSITIVITY 2 (SlSSI2), encoding a plastid localized isoform of SACPD. The phenotype of CRISPR/Cas9 SlSSI2 knockout lines confirmed that the morphological abnormalities in pad plants were due to SlSSI2 loss of function. Functional, metabolomic and expression analyses proved that SlSSI2 disruption causes deficiencies in 18:1 fatty acid desaturation and leads to diminished jasmonic acid (JA) content and increased salicylic acid (SA) levels. Overall, these results proved that SSI2 plays a crucial role in the regulation of polyunsaturated fatty acid profiles in tomato, and revealed that SlSSI2 loss of function results in an inhibited JA-responsive signalling pathway and a constitutively activated SA-mediated defence signalling response. This study lays the foundation for further research on tomato SACPDs and their role in plant performance and fitness.
Collapse
Affiliation(s)
- A S Quevedo-Colmena
- Centro de Investigación en Biotecnología Agroalimentaria (CIAIMBITAL), Universidad de Almería, Almería, Spain
| | - A Ortiz-Atienza
- Centro de Investigación en Biotecnología Agroalimentaria (CIAIMBITAL), Universidad de Almería, Almería, Spain
| | - M Jáquez-Gutiérrez
- Instituto de Biología Molecular y Celular de Plantas (UPV-CSIC), Universidad Politécnica de Valencia, Valencia, Spain
| | - M Quinet
- Université catholique de Louvain, Ottignies-Louvain-la-Neuve, Belgium
| | - A Atarés
- Instituto de Biología Molecular y Celular de Plantas (UPV-CSIC), Universidad Politécnica de Valencia, Valencia, Spain
| | - F J Yuste-Lisbona
- Centro de Investigación en Biotecnología Agroalimentaria (CIAIMBITAL), Universidad de Almería, Almería, Spain
| | - V Moreno
- Instituto de Biología Molecular y Celular de Plantas (UPV-CSIC), Universidad Politécnica de Valencia, Valencia, Spain
| | - T Angosto
- Centro de Investigación en Biotecnología Agroalimentaria (CIAIMBITAL), Universidad de Almería, Almería, Spain
| | - R Lozano
- Centro de Investigación en Biotecnología Agroalimentaria (CIAIMBITAL), Universidad de Almería, Almería, Spain
| |
Collapse
|
4
|
Zhang N, Gan J, Carneal L, González-Tobón J, Filiatrault M, Martin GB. Helper NLRs Nrc2 and Nrc3 act codependently with Prf/Pto and activate MAPK signaling to induce immunity in tomato. Plant J 2024; 117:7-22. [PMID: 37844152 DOI: 10.1111/tpj.16502] [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] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/17/2023] [Revised: 09/27/2023] [Accepted: 10/04/2023] [Indexed: 10/18/2023]
Abstract
Plant intracellular immune receptors, primarily nucleotide-binding, leucine-rich repeat proteins (NLRs), detect pathogen effector proteins and activate NLR-triggered immunity (NTI). Recently, 'sensor' NLRs have been reported to function with 'helper' NLRs to activate immunity. We investigated the role of two helper NLRs, Nrc2 and Nrc3, on immunity in tomato to the bacterial pathogen Pseudomonas syringae pv. tomato (Pst) mediated by the sensor NLR Prf and the Pto kinase. An nrc2/nrc3 mutant no longer activated Prf/Pto-mediated NTI to Pst containing the effectors AvrPto and AvrPtoB. An nrc3 mutant showed intermediate susceptibility between wild-type plants and a Prf mutant, while an nrc2 mutant developed only mild disease. These observations indicate that Nrc2 and Nrc3 act additively in Prf-/Pto-mediated immunity. We examined at what point Nrc2 and Nrc3 act in the Prf/Pto-mediated immune response. In the nrc2/3 mutant, programmed cell death (PCD) normally induced by constitutively active variants of AvrPtoB, Pto, or Prf was abolished, but that induced by M3Kα or Mkk2 was not. PCD induced by a constitutively active Nrc3 was also abolished in a Nicotiana benthamiana line with reduced expression of Prf. MAPK activation triggered by expression of AvrPto in the wild-type tomato plants was completely abolished in the nrc2/3 mutant. These results indicate that Nrc2 and Nrc3 act with Prf/Pto and upstream of MAPK signaling. Nrc2 and Nrc3 were not required for PCD triggered by Ptr1, another sensor NLR-mediating Pst resistance, although these helper NLRs do appear to be involved in resistance to certain Pst race 1 strains.
Collapse
Affiliation(s)
- Ning Zhang
- Boyce Thompson Institute for Plant Research, Ithaca, New York, 14853, USA
- Plant Pathology and Plant-Microbe Biology Section, School of Integrative Plant Science, Cornell University, Ithaca, New York, 14853, USA
| | - Joyce Gan
- Boyce Thompson Institute for Plant Research, Ithaca, New York, 14853, USA
| | - Lauren Carneal
- Boyce Thompson Institute for Plant Research, Ithaca, New York, 14853, USA
| | - Juliana González-Tobón
- Plant Pathology and Plant-Microbe Biology Section, School of Integrative Plant Science, Cornell University, Ithaca, New York, 14853, USA
| | - Melanie Filiatrault
- Plant Pathology and Plant-Microbe Biology Section, School of Integrative Plant Science, Cornell University, Ithaca, New York, 14853, USA
- United States Department of Agriculture-Agricultural Research Service, Ithaca, New York, 14853, USA
| | - Gregory B Martin
- Boyce Thompson Institute for Plant Research, Ithaca, New York, 14853, USA
- Plant Pathology and Plant-Microbe Biology Section, School of Integrative Plant Science, Cornell University, Ithaca, New York, 14853, USA
| |
Collapse
|
5
|
Tsitsekian D, Daras G, Templalexis D, Avgeri F, Lotos L, Orfanidou CG, Ntoukakis V, Maliogka VI, Rigas S. A subset of highly responsive transcription factors upon tomato infection by pepino mosaic virus. Plant Biol (Stuttg) 2023; 25:529-540. [PMID: 36856454 DOI: 10.1111/plb.13515] [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] [Subscribe] [Scholar Register] [Received: 06/24/2022] [Accepted: 02/21/2023] [Indexed: 05/17/2023]
Abstract
Plants have evolved well-tuned surveillance systems, including complex defence mechanisms, to constrain pathogens. TFs are master regulators of host molecular responses against plant pathogens. While PepMV constitutes a major threat to the global tomato production, there is still a lack of information on the key TFs that regulate host responses to this virus. A combinatorial research approach was applied relying on tomato transcriptome analysis, RT-qPCR validation, phylogenetic classification, comparative analysis of structural features, cis-regulatory element mining and in silico co-expression analysis to identify a set of 11 highly responsive TFs involved in the regulation of host responses to PepMV. An endemic PepMV isolate, generating typical mosaic symptoms, modified expression of ca. 3.3% of tomato genes, resulting in 1,120 DEGs. Functional classification of 502 upregulated DEGs revealed that photosynthesis, carbon fixation and gene silencing were widely affected, whereas 618 downregulated genes had an impact mainly on plant defence and carotenoid biosynthesis. Strikingly, all 11 highly responsive TFs carried abiotic stress response cis-regulatory elements, whereas five of them were better aligned with rice than with Arabidopsis gene homologues, suggesting that plant responses against viruses may predate divergence into monocots and dicots. Interestingly, tomato C2H2 family TFs, ZAT1-like and ZF2, may have distinct roles in plant defence due to opposite response patterns, similar to their Arabidopsis ZAT10 and ZAT12 homologues. These highly responsive TFs provide a basis to study in-depth molecular responses of the tomato-PepMV pathosystem, providing a perspective to better comprehend viral infections.
Collapse
Affiliation(s)
- D Tsitsekian
- Department of Biotechnology, Molecular Biology Laboratory, Agricultural University of Athens, Athens, Greece
| | - G Daras
- Department of Biotechnology, Molecular Biology Laboratory, Agricultural University of Athens, Athens, Greece
| | - D Templalexis
- Department of Biotechnology, Molecular Biology Laboratory, Agricultural University of Athens, Athens, Greece
| | - F Avgeri
- Department of Biotechnology, Molecular Biology Laboratory, Agricultural University of Athens, Athens, Greece
| | - L Lotos
- School of Agriculture, Plant Pathology Laboratory, Aristotle University of Thessaloniki, Thessaloniki, Greece
| | - C G Orfanidou
- School of Agriculture, Plant Pathology Laboratory, Aristotle University of Thessaloniki, Thessaloniki, Greece
| | - V Ntoukakis
- School of Life Sciences and Warwick Integrative Synthetic Biology Centre, University of Warwick, Coventry, UK
| | - V I Maliogka
- School of Agriculture, Plant Pathology Laboratory, Aristotle University of Thessaloniki, Thessaloniki, Greece
| | - S Rigas
- Department of Biotechnology, Molecular Biology Laboratory, Agricultural University of Athens, Athens, Greece
| |
Collapse
|
6
|
McQuinn RP, Leroux J, Sierra J, Escobar-Tovar L, Frusciante S, Finnegan EJ, Diretto G, Giuliano G, Giovannoni JJ, León P, Pogson BJ. Deregulation of ζ-carotene desaturase in Arabidopsis and tomato exposes a unique carotenoid-derived redundant regulation of floral meristem identity and function. Plant J 2023; 114:783-804. [PMID: 36861314 DOI: 10.1111/tpj.16168] [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] [Subscribe] [Scholar Register] [Received: 03/01/2021] [Revised: 02/05/2023] [Accepted: 02/26/2023] [Indexed: 05/27/2023]
Abstract
A level of redundancy and interplay among the transcriptional regulators of floral development safeguards a plant's reproductive success and ensures crop production. In the present study, an additional layer of complexity in the regulation of floral meristem (FM) identity and flower development is elucidated linking carotenoid biosynthesis and metabolism to the regulation of determinate flowering. The accumulation and subsequent cleavage of a diverse array of ζ-carotenes in the chloroplast biogenesis 5 (clb5) mutant of Arabidopsis results in the reprogramming of meristematic gene regulatory networks establishing FM identity mirroring that of the FM identity master regulator, APETALA1 (AP1). The immediate transition to floral development in clb5 requires long photoperiods in a GIGANTEA-independent manner, whereas AP1 is essential for the floral organ development of clb5. The elucidation of this link between carotenoid metabolism and floral development translates to tomato exposing a regulation of FM identity redundant to and initiated by AP1 and proposed to be dependent on the E class floral initiation and organ identity regulator, SEPALLATA3 (SEP3).
Collapse
Affiliation(s)
- Ryan P McQuinn
- Australian Research Council Centre of Excellence in Plant Energy Biology, Research School of Biology, Australian National University, Canberra, ACT, 2601, Australia
| | - Julie Leroux
- Australian Research Council Centre of Excellence in Plant Energy Biology, Research School of Biology, Australian National University, Canberra, ACT, 2601, Australia
| | - Julio Sierra
- Departamento de Biología Molecular de Plantas, Instituto de Biotecnología, Universidad Nacional Autónoma de México, Av. Universidad 2001, Col. Chamilpa, Cuernavaca, Morelos, 62210, Mexico
| | - Lina Escobar-Tovar
- Departamento de Biología Molecular de Plantas, Instituto de Biotecnología, Universidad Nacional Autónoma de México, Av. Universidad 2001, Col. Chamilpa, Cuernavaca, Morelos, 62210, Mexico
| | - Sarah Frusciante
- Italian National Agency for New Technologies, Energy, and Sustainable Development (ENEA), Casaccia Research Center, Rome, 00196, Italy
| | | | - Gianfranco Diretto
- Italian National Agency for New Technologies, Energy, and Sustainable Development (ENEA), Casaccia Research Center, Rome, 00196, Italy
| | - Giovanni Giuliano
- Italian National Agency for New Technologies, Energy, and Sustainable Development (ENEA), Casaccia Research Center, Rome, 00196, Italy
| | - James J Giovannoni
- US Department of Agriculture-Agricultural Research Service, Robert W. Holley Center for Agriculture and Health, Ithaca, NY, 14853, USA
| | - Patricia León
- Departamento de Biología Molecular de Plantas, Instituto de Biotecnología, Universidad Nacional Autónoma de México, Av. Universidad 2001, Col. Chamilpa, Cuernavaca, Morelos, 62210, Mexico
| | - Barry J Pogson
- Australian Research Council Centre of Excellence in Plant Energy Biology, Research School of Biology, Australian National University, Canberra, ACT, 2601, Australia
| |
Collapse
|
7
|
Ding S, Lv J, Hu Z, Wang J, Wang P, Yu J, Foyer CH, Shi K. Phytosulfokine peptide optimizes plant growth and defense via glutamine synthetase GS2 phosphorylation in tomato. EMBO J 2023; 42:e111858. [PMID: 36562188 PMCID: PMC10015362 DOI: 10.15252/embj.2022111858] [Citation(s) in RCA: 7] [Impact Index Per Article: 7.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/14/2022] [Revised: 12/05/2022] [Accepted: 12/08/2022] [Indexed: 12/24/2022] Open
Abstract
Phytosulfokine (PSK) is a plant pentapeptide hormone that fulfills a wide range of functions. Although PSK has frequently been reported to function in the inverse regulation of growth and defense in response to (hemi)biotrophic pathogens, the mechanisms involved remain largely unknown. Using the tomato (Solanum lycopersicum) and Pseudomonas syringae pv. tomato (Pst) DC3000 pathogen system, we present compelling evidence that the PSK receptor PSKR1 interacts with the calcium-dependent protein kinase CPK28, which in turn phosphorylates the key enzyme of nitrogen assimilation glutamine synthetase GS2 at two sites (Serine-334 and Serine-360). GS2 phosphorylation at S334 specifically regulates plant defense, whereas S360 regulates growth, uncoupling the PSK-induced effects on defense responses and growth regulation. The discovery of these sites will inform breeding strategies designed to optimize the growth-defense balance in a compatible manner.
Collapse
Affiliation(s)
- Shuting Ding
- Department of HorticultureZhejiang UniversityHangzhouChina
| | - Jianrong Lv
- Department of HorticultureZhejiang UniversityHangzhouChina
| | - Zhangjian Hu
- Department of HorticultureZhejiang UniversityHangzhouChina
| | - Jiao Wang
- Department of HorticultureZhejiang UniversityHangzhouChina
| | - Ping Wang
- Department of HorticultureZhejiang UniversityHangzhouChina
| | - Jingquan Yu
- Department of HorticultureZhejiang UniversityHangzhouChina
- Hainan Institute, Yazhou Bay Science and Technology CityZhejiang UniversitySanyaChina
- Key Laboratory of Horticultural Plant Growth and DevelopmentMinistry of Agriculture and Rural AffairsHangzhouChina
| | - Christine H Foyer
- School of Biosciences, College of Life and Environmental SciencesUniversity of BirminghamBirminghamUK
| | - Kai Shi
- Department of HorticultureZhejiang UniversityHangzhouChina
- Hainan Institute, Yazhou Bay Science and Technology CityZhejiang UniversitySanyaChina
- Key Laboratory of Horticultural Plant Growth and DevelopmentMinistry of Agriculture and Rural AffairsHangzhouChina
| |
Collapse
|
8
|
Méline V, Caldwell DL, Kim BS, Khangura RS, Baireddy S, Yang C, Sparks EE, Dilkes B, Delp EJ, Iyer-Pascuzzi AS. Image-based assessment of plant disease progression identifies new genetic loci for resistance to Ralstonia solanacearum in tomato. Plant J 2023; 113:887-903. [PMID: 36628472 DOI: 10.1111/tpj.16101] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/21/2022] [Revised: 11/12/2022] [Accepted: 01/02/2023] [Indexed: 06/17/2023]
Abstract
A major challenge in global crop production is mitigating yield loss due to plant diseases. One of the best strategies to control these losses is through breeding for disease resistance. One barrier to the identification of resistance genes is the quantification of disease severity, which is typically based on the determination of a subjective score by a human observer. We hypothesized that image-based, non-destructive measurements of plant morphology over an extended period after pathogen infection would capture subtle quantitative differences between genotypes, and thus enable identification of new disease resistance loci. To test this, we inoculated a genetically diverse biparental mapping population of tomato (Solanum lycopersicum) with Ralstonia solanacearum, a soilborne pathogen that causes bacterial wilt disease. We acquired over 40 000 time-series images of disease progression in this population, and developed an image analysis pipeline providing a suite of 10 traits to quantify bacterial wilt disease based on plant shape and size. Quantitative trait locus (QTL) analyses using image-based phenotyping for single and multi-traits identified QTLs that were both unique and shared compared with those identified by human assessment of wilting, and could detect QTLs earlier than human assessment. Expanding the phenotypic space of disease with image-based, non-destructive phenotyping both allowed earlier detection and identified new genetic components of resistance.
Collapse
Affiliation(s)
- Valérian Méline
- Department of Botany and Plant Pathology and Center for Plant Biology, Purdue University, 915 W. State Street, West Lafayette, Indiana, USA
| | - Denise L Caldwell
- Department of Botany and Plant Pathology and Center for Plant Biology, Purdue University, 915 W. State Street, West Lafayette, Indiana, USA
| | - Bong-Suk Kim
- Department of Botany and Plant Pathology and Center for Plant Biology, Purdue University, 915 W. State Street, West Lafayette, Indiana, USA
| | - Rajdeep S Khangura
- Department of Biochemistry and Center for Plant Biology, Purdue University, West Lafayette, Indiana, 47907, USA
| | - Sriram Baireddy
- Video and Image Processing Laboratory (VIPER), School of Electrical and Computer Engineering, Purdue University, West Lafayette, Indiana, USA
| | - Changye Yang
- Video and Image Processing Laboratory (VIPER), School of Electrical and Computer Engineering, Purdue University, West Lafayette, Indiana, USA
| | - Erin E Sparks
- Department of Plant and Soil Sciences and the Delaware Biotechnology Institute, University of Delaware, Newark, Delaware, USA
| | - Brian Dilkes
- Department of Biochemistry and Center for Plant Biology, Purdue University, West Lafayette, Indiana, 47907, USA
| | - Edward J Delp
- Video and Image Processing Laboratory (VIPER), School of Electrical and Computer Engineering, Purdue University, West Lafayette, Indiana, USA
| | - Anjali S Iyer-Pascuzzi
- Department of Botany and Plant Pathology and Center for Plant Biology, Purdue University, 915 W. State Street, West Lafayette, Indiana, USA
| |
Collapse
|
9
|
Yang T, Peng Q, Lin H, Xi D. Alpha-momorcharin preserves catalase activity to inhibit viral infection by disrupting the 2b-CAT interaction in Solanum lycopersicum. Mol Plant Pathol 2023; 24:107-122. [PMID: 36377585 PMCID: PMC9831283 DOI: 10.1111/mpp.13279] [Citation(s) in RCA: 3] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 06/19/2022] [Revised: 10/20/2022] [Accepted: 10/26/2022] [Indexed: 06/16/2023]
Abstract
Many host factors of plants are used by viruses to facilitate viral infection. However, little is known about how alpha-momorcharin (αMMC) counters virus-mediated attack strategies in tomato. Our present research revealed that the 2b protein of cucumber mosaic virus (CMV) directly interacted with catalases (CATs) and inhibited their activities. Further analysis revealed that transcription levels of catalase were induced by CMV infection and that virus accumulation increased in CAT-silenced or 2b-overexpressing tomato plants compared with that in control plants, suggesting that the interaction between 2b and catalase facilitated the accumulation of CMV in hosts. However, both CMV accumulation and viral symptoms were reduced in αMMC transgenic tomato plants, indicating that αMMC engaged in an antiviral role in the plant response to CMV infection. Molecular experimental analysis demonstrated that αMMC interfered with the interactions between catalases and 2b in a competitive manner, with the expression of αMMC inhibited by CMV infection. We further demonstrated that the inhibition of catalase activity by 2b was weakened by αMMC. Accordingly, αMMC transgenic plants exhibited a greater ability to maintain redox homeostasis than wild-type plants when infected with CMV. Altogether, these results reveal that αMMC retains catalase activity to inhibit CMV infection by subverting the interaction between 2b and catalase in tomato.
Collapse
Affiliation(s)
- Ting Yang
- Key Laboratory of Bio‐Resource and Eco‐Environment of Ministry of Education, College of Life SciencesSichuan UniversityChengduChina
- Hubei Engineering Research Center for Protection and Utilization of Special Biological Resources in the Hanjiang River Basin, College of Life SciencesJianghan UniversityWuhanChina
| | - Qiding Peng
- Key Laboratory of Bio‐Resource and Eco‐Environment of Ministry of Education, College of Life SciencesSichuan UniversityChengduChina
| | - Honghui Lin
- Key Laboratory of Bio‐Resource and Eco‐Environment of Ministry of Education, College of Life SciencesSichuan UniversityChengduChina
| | - Dehui Xi
- Key Laboratory of Bio‐Resource and Eco‐Environment of Ministry of Education, College of Life SciencesSichuan UniversityChengduChina
| |
Collapse
|
10
|
Salazar‐Sarasua B, López‐Martín MJ, Roque E, Hamza R, Cañas LA, Beltrán JP, Gómez‐Mena C. The tapetal tissue is essential for the maintenance of redox homeostasis during microgametogenesis in tomato. Plant J 2022; 112:1281-1297. [PMID: 36307971 PMCID: PMC10100220 DOI: 10.1111/tpj.16014] [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] [MESH Headings] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 02/25/2022] [Revised: 10/21/2022] [Accepted: 10/26/2022] [Indexed: 06/16/2023]
Abstract
The tapetum is a specialized layer of cells within the anther, adjacent to the sporogenous tissue. During its short life, it provides nutrients, molecules and materials to the pollen mother cells and microsporocytes, being essential during callose degradation and pollen wall formation. The interaction between the tapetum and sporogenous cells in Solanum lycopersicum (tomato) plants, despite its importance for breeding purposes, is poorly understood. To investigate this process, gene editing was used to generate loss-of-function mutants that showed the complete and specific absence of tapetal cells. These plants were obtained targeting the previously uncharacterized Solyc03g097530 (SlTPD1) gene, essential for tapetum specification in tomato plants. In the absence of tapetum, sporogenous cells developed and callose deposition was observed. However, sporocytes failed to undergo the process of meiosis and finally degenerated, leading to male sterility. Transcriptomic analysis conducted in mutant anthers lacking tapetum revealed the downregulation of a set of genes related to redox homeostasis. Indeed, mutant anthers showed a reduction in the accumulation of reactive oxygen species (ROS) at early stages and altered activity of ROS-scavenging enzymes. The results obtained highlight the importance of the tapetal tissue in maintaining redox homeostasis during male gametogenesis in tomato plants.
Collapse
Affiliation(s)
- Blanca Salazar‐Sarasua
- Instituto de Biología Molecular y Celular de Plantas (Consejo Superior de Investigaciones Científicas‐Universitat Politècnica de Valencia)C/Ingeniero Fausto Elio s/n Edif. 8EValencia46022Spain
| | - María Jesús López‐Martín
- Instituto de Biología Molecular y Celular de Plantas (Consejo Superior de Investigaciones Científicas‐Universitat Politècnica de Valencia)C/Ingeniero Fausto Elio s/n Edif. 8EValencia46022Spain
| | - Edelín Roque
- Instituto de Biología Molecular y Celular de Plantas (Consejo Superior de Investigaciones Científicas‐Universitat Politècnica de Valencia)C/Ingeniero Fausto Elio s/n Edif. 8EValencia46022Spain
| | - Rim Hamza
- Instituto de Biología Molecular y Celular de Plantas (Consejo Superior de Investigaciones Científicas‐Universitat Politècnica de Valencia)C/Ingeniero Fausto Elio s/n Edif. 8EValencia46022Spain
| | - Luis Antonio Cañas
- Instituto de Biología Molecular y Celular de Plantas (Consejo Superior de Investigaciones Científicas‐Universitat Politècnica de Valencia)C/Ingeniero Fausto Elio s/n Edif. 8EValencia46022Spain
| | - José Pío Beltrán
- Instituto de Biología Molecular y Celular de Plantas (Consejo Superior de Investigaciones Científicas‐Universitat Politècnica de Valencia)C/Ingeniero Fausto Elio s/n Edif. 8EValencia46022Spain
| | - Concepción Gómez‐Mena
- Instituto de Biología Molecular y Celular de Plantas (Consejo Superior de Investigaciones Científicas‐Universitat Politècnica de Valencia)C/Ingeniero Fausto Elio s/n Edif. 8EValencia46022Spain
| |
Collapse
|
11
|
Sang K, Li J, Qian X, Yu J, Zhou Y, Xia X. The APETALA2a/DWARF/BRASSINAZOLE-RESISTANT 1 module contributes to carotenoid synthesis in tomato fruits. Plant J 2022; 112:1238-1251. [PMID: 36271694 DOI: 10.1111/tpj.16009] [Citation(s) in RCA: 5] [Impact Index Per Article: 2.5] [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: 04/28/2022] [Revised: 10/11/2022] [Accepted: 10/18/2022] [Indexed: 06/16/2023]
Abstract
Ethylene (ET) signaling plays a critical role in the ripening of climacteric fruits such as tomato. Brassinosteroids (BRs) were found to promote the ripening of both climacteric and non-climacteric fruits. However, the mechanism of interaction between ET and BRs during fruit ripening is unclear. Here, we found that BR synthesis and signaling increased after the onset of fruit ripening. Overexpression of the BR synthesis gene DWARF (DWF) promotedfruit softening, lycopene synthesis and ET production, whereas defect of DWF inhibited them. BRASSINAZOLE RESISTANT 1 (BZR1) as a key component of BR signaling, enhanced fruit lycopene content by directly activating the transcription of PSY1 gene. Interestingly, the increases in BR synthesis and BZR1 protein levels were dependent on ET signaling. Knocking out the ET-induced APETALA2a (AP2a) suppressed the expression of DWF and BR accumulation. Molecular assays demonstrated that AP2a was a positive regulator of DWF expression. Furthermore, 28-homobrassinolide, a bioactive BR, partially compensated the defects of lycopene accumulation and expression of PSY1 in ap2a mutant fruits. The results demonstrated that AP2a mediated ET signaling to regulate BR synthesis and signaling. BRs played critical roles in lycopene synthesis after onset of fruit ripening.
Collapse
Affiliation(s)
- Kangqi Sang
- Department of Horticulture, Zijingang Campus, Zhejiang University, Hangzhou, 310058, People's Republic of China
| | - Junjie Li
- Department of Horticulture, Zijingang Campus, Zhejiang University, Hangzhou, 310058, People's Republic of China
| | - Xiangjie Qian
- Department of Horticulture, Zijingang Campus, Zhejiang University, Hangzhou, 310058, People's Republic of China
| | - Jingquan Yu
- Department of Horticulture, Zijingang Campus, Zhejiang University, Hangzhou, 310058, People's Republic of China
- Hainan Institute, Zhejiang University, Sanya, 572025, People's Republic of China
- Key Laboratory of Horticultural Plants Growth, Development and Quality Improvement, Agricultural Ministry of China, Hangzhou, 310058, People's Republic of China
| | - Yanhong Zhou
- Department of Horticulture, Zijingang Campus, Zhejiang University, Hangzhou, 310058, People's Republic of China
- Hainan Institute, Zhejiang University, Sanya, 572025, People's Republic of China
| | - Xiaojian Xia
- Department of Horticulture, Zijingang Campus, Zhejiang University, Hangzhou, 310058, People's Republic of China
- Hainan Institute, Zhejiang University, Sanya, 572025, People's Republic of China
| |
Collapse
|
12
|
Poucet T, Beauvoit B, González‐Moro MB, Cabasson C, Pétriacq P, Flandin A, Gibon Y, Marino D, Dieuaide‐Noubhani M. Impaired cell growth under ammonium stress explained by modeling the energy cost of vacuole expansion in tomato leaves. Plant J 2022; 112:1014-1028. [PMID: 36198049 PMCID: PMC9828129 DOI: 10.1111/tpj.15991] [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] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 06/17/2022] [Revised: 09/20/2022] [Accepted: 09/23/2022] [Indexed: 06/16/2023]
Abstract
Ammonium (NH4 + )-based fertilization efficiently mitigates the adverse effects of nitrogen fertilization on the environment. However, high concentrations of soil NH4 + provoke growth inhibition, partly caused by the reduction of cell enlargement and associated with modifications of cell composition, such as an increase of sugars and a decrease in organic acids. Cell expansion depends largely on the osmotic-driven enlargement of the vacuole. However, the involvement of subcellular compartmentation in the adaptation of plants to ammonium nutrition has received little attention, until now. To investigate this, tomato (Solanum lycopersicum) plants were cultivated under nitrate and ammonium nutrition and the fourth leaf was harvested at seven developmental stages. The vacuolar expansion was monitored and metabolites and inorganic ion contents, together with intracellular pH, were determined. A data-constrained model was constructed to estimate subcellular concentrations of major metabolites and ions. It was first validated at the three latter developmental stages by comparison with subcellular concentrations obtained experimentally using non-aqueous fractionation. Then, the model was used to estimate the subcellular concentrations at the seven developmental stages and the net vacuolar uptake of solutes along the developmental series. Our results showed ammonium nutrition provokes an acidification of the vacuole and a reduction in the flux of solutes into the vacuoles. Overall, analysis of the subcellular compartmentation reveals a mechanism behind leaf growth inhibition under ammonium stress linked to the higher energy cost of vacuole expansion, as a result of alterations in pH, the inhibition of glycolysis routes and the depletion of organic acids.
Collapse
Affiliation(s)
- Théo Poucet
- Department of Plant Biology and EcologyUniversity of the Basque Country (UPV/EHU)E‐48940LeioaSpain
- Université de Bordeaux, INRAE, UMR Biologie du Fruit et PathologieVillenave d'Ornon33140France
| | - Bertrand Beauvoit
- Université de Bordeaux, INRAE, UMR Biologie du Fruit et PathologieVillenave d'Ornon33140France
| | | | - Cécile Cabasson
- Université de Bordeaux, INRAE, UMR Biologie du Fruit et PathologieVillenave d'Ornon33140France
- Bordeaux Metabolome, MetaboHUBPHENOME‐EMPHASISVillenave d'Ornon33140France
| | - Pierre Pétriacq
- Université de Bordeaux, INRAE, UMR Biologie du Fruit et PathologieVillenave d'Ornon33140France
- Bordeaux Metabolome, MetaboHUBPHENOME‐EMPHASISVillenave d'Ornon33140France
| | - Amélie Flandin
- Université de Bordeaux, INRAE, UMR Biologie du Fruit et PathologieVillenave d'Ornon33140France
- Bordeaux Metabolome, MetaboHUBPHENOME‐EMPHASISVillenave d'Ornon33140France
| | - Yves Gibon
- Université de Bordeaux, INRAE, UMR Biologie du Fruit et PathologieVillenave d'Ornon33140France
- Bordeaux Metabolome, MetaboHUBPHENOME‐EMPHASISVillenave d'Ornon33140France
| | - Daniel Marino
- Department of Plant Biology and EcologyUniversity of the Basque Country (UPV/EHU)E‐48940LeioaSpain
- Ikerbasque, Basque Foundation for ScienceE‐48011BilbaoSpain
| | | |
Collapse
|
13
|
Niu XL, Li HL, Li R, Liu GS, Peng ZZ, Jia W, Ji X, Zhu HL, Zhu BZ, Grierson D, Giuliano G, Luo YB, Fu DQ. Transcription factor SlBEL2 interferes with GOLDEN2-LIKE and influences green shoulder formation in tomato fruits. Plant J 2022; 112:982-997. [PMID: 36164829 DOI: 10.1111/tpj.15989] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [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: 01/22/2022] [Revised: 09/09/2022] [Accepted: 09/18/2022] [Indexed: 06/16/2023]
Abstract
Chloroplasts play a crucial role in plant growth and fruit quality. However, the molecular mechanisms of chloroplast development are still poorly understood in fruits. In this study, we investigated the role of the transcription factor SlBEL2 (BEL1-LIKE HOMEODOMAIN 2) in fruit of Solanum lycopersicum (tomato). Phenotypic analysis of SlBEL2 overexpression (OE-SlBEL2) and SlBEL2 knockout (KO-SlBEL2) plants revealed that SlBEL2 has the function of inhibiting green shoulder formation in tomato fruits by affecting the development of fruit chloroplasts. Transcriptome profiling revealed that the expression of chloroplast-related genes such as SlGLK2 and SlLHCB1 changed significantly in the fruit of OE-SlBEL2 and KO-SlBEL2 plants. Further analysis showed that SlBEL2 could not only bind to the promoter of SlGLK2 to inhibit its transcription, but also interacted with the SlGLK2 protein to inhibit the transcriptional activity of SlGLK2 and its downstream target genes. SlGLK2 knockout (KO-SlGLK2) plants exhibited a complete absence of the green shoulder, which was consistent with the fruit phenotype of OE-SlBEL2 plants. SlBEL2 showed an expression gradient in fruits, in contrast with that reported for SlGLK2. In conclusion, our study reveals that SlBEL2 affects the formation of green shoulder in tomato fruits by negatively regulating the gradient expression of SlGLK2, thus providing new insights into the molecular mechanism of fruit green shoulder formation.
Collapse
Affiliation(s)
- Xiao-Lin Niu
- Laboratory of Fruit Biology, College of Food Science & Nutritional Engineering, China Agricultural University, Beijing, 100083, China
| | - Hong-Li Li
- Laboratory of Fruit Biology, College of Food Science & Nutritional Engineering, China Agricultural University, Beijing, 100083, China
| | - Rui Li
- State Key Laboratory of Agrobiotechnology, College of Biological Sciences, China Agricultural University, Beijing, 100193, China
| | - Gang-Shuai Liu
- Laboratory of Fruit Biology, College of Food Science & Nutritional Engineering, China Agricultural University, Beijing, 100083, China
| | - Zhen-Zhen Peng
- Laboratory of Fruit Biology, College of Food Science & Nutritional Engineering, China Agricultural University, Beijing, 100083, China
| | - Wen Jia
- Laboratory of Fruit Biology, College of Food Science & Nutritional Engineering, China Agricultural University, Beijing, 100083, China
| | - Xiang Ji
- Laboratory of Fruit Biology, College of Food Science & Nutritional Engineering, China Agricultural University, Beijing, 100083, China
| | - Hong-Liang Zhu
- Laboratory of Fruit Biology, College of Food Science & Nutritional Engineering, China Agricultural University, Beijing, 100083, China
| | - Ben-Zhong Zhu
- Laboratory of Fruit Biology, College of Food Science & Nutritional Engineering, China Agricultural University, Beijing, 100083, China
| | - Donald Grierson
- Laboratory of Fruit Quality Biology/Zhejiang Provincial Key Laboratory of Horticultural Plant Integrative Biology, Zhejiang University, Zijingang Campus, Hangzhou, 310058, China
- Plant Sciences Division, School of Biosciences, University of Nottingham, Sutton Bonington Campus, Loughborough, LE12 5RD, UK
| | - Giovanni Giuliano
- Italian National Agency for New Technologies, Energy and Sustainable Economic Development, Casaccia Res. Ctr, Via Anguillarese 301, Rome, 00123, Italy
| | - Yun-Bo Luo
- Laboratory of Fruit Biology, College of Food Science & Nutritional Engineering, China Agricultural University, Beijing, 100083, China
| | - Da-Qi Fu
- Laboratory of Fruit Biology, College of Food Science & Nutritional Engineering, China Agricultural University, Beijing, 100083, China
| |
Collapse
|
14
|
Wang J, Wang A, Luo Q, Hu Z, Ma Q, Li Y, Lin T, Liang X, Yu J, Foyer CH, Shi K. Glucose sensing by regulator of G protein signaling 1 (RGS1) plays a crucial role in coordinating defense in response to environmental variation in tomato. New Phytol 2022; 236:561-575. [PMID: 35789001 DOI: 10.1111/nph.18356] [Citation(s) in RCA: 6] [Impact Index Per Article: 3.0] [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: 01/18/2022] [Accepted: 06/28/2022] [Indexed: 06/15/2023]
Abstract
Low light intensities affect the outbreak of plant diseases. However, the underlying molecular mechanisms remain poorly understood. High-performance liquid chromatography analysis of tomato (Solanum lycopersicum) revealed that apoplastic glucose (Glc) levels decreased in response to low light. Conversely, low-light-induced susceptibility to Pseudomonas syringae pv tomato (Pst) DC3000 was significantly alleviated by exogenous Glc treatment. Using cell-based biolayer interferometry assays, we found that Glc specifically binds to the tomato regulator of G protein signaling 1 (RGS1). Laser scanning confocal microscopy imaging revealed that Glc triggers RGS1 endocytosis, which influences the uncoupling of the RGS1-Gα (GPA1) and GPA1-Gβ (SlGB1) proteins, in a dose- and duration-dependent manner. Analysis of G protein single and double mutants revealed that RGS1 negatively regulates disease resistance under low light and is required for Glc-enhanced defense. Downstream of RGS1-Glc binding, GPA1 negatively mediates the light-intensity-regulated defense, whereas SlGB1 positively regulates this process. These results reveal a novel light-intensity-responsive defense system that is mediated by a Glc-RGS1-G protein signaling pathway. This information will be critical for future investigations of how plant cells sense extracellular sugars and adjust defense under different environments, as well as for genetic engineering approaches to improve stress resilience.
Collapse
Affiliation(s)
- Jiao Wang
- Department of Horticulture, Zhejiang University, Hangzhou, 310058, China
| | - Anran Wang
- Department of Horticulture, Zhejiang University, Hangzhou, 310058, China
| | - Qian Luo
- Department of Horticulture, Zhejiang University, Hangzhou, 310058, China
| | - Zhangjian Hu
- Department of Horticulture, Zhejiang University, Hangzhou, 310058, China
| | - Qiaomei Ma
- Department of Horticulture, Zhejiang University, Hangzhou, 310058, China
| | - Yimei Li
- Department of Horticulture, Zhejiang University, Hangzhou, 310058, China
| | - Teng Lin
- Department of Horticulture, Zhejiang University, Hangzhou, 310058, China
| | - Xiao Liang
- Department of Horticulture, Zhejiang University, Hangzhou, 310058, China
| | - Jingquan Yu
- Department of Horticulture, Zhejiang University, Hangzhou, 310058, China
- Hainan Insitute, Zhejiang University, Sanya, 572025, China
| | - Christine H Foyer
- School of Biosciences, College of Life and Environmental Sciences, University of Birmingham, Edgbaston, B15 2TT, UK
| | - Kai Shi
- Department of Horticulture, Zhejiang University, Hangzhou, 310058, China
- Hainan Insitute, Zhejiang University, Sanya, 572025, China
| |
Collapse
|
15
|
Tyagi K, Sunkum A, Rai M, Yadav A, Sircar S, Sreelakshmi Y, Sharma R. Seeing the unseen: a trifoliate (MYB117) mutant allele fortifies folate and carotenoids in tomato fruits. Plant J 2022; 112:38-54. [PMID: 35899408 DOI: 10.1111/tpj.15925] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [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: 03/23/2022] [Revised: 07/13/2022] [Accepted: 07/25/2022] [Indexed: 06/15/2023]
Abstract
In tomato (Solanum lycopersicum), mutations in the gene encoding the R2R3-MYB117 transcription factor elicit trifoliate leaves and initiate the formation of axillary meristems; however, their effects on fruit ripening remain unexplored. The fruits of a new trifoliate (tf) mutant (tf-5) were firmer and had higher °Brix values and higher folate and carotenoid contents. The transcriptome, proteome, and metabolome profiling of tf-5 reflected a broad-spectrum change in cellular homeostasis. The tf-5 allele enhanced the fruit firmness by suppressing cell wall softening-related proteins. tf-5 fruit displayed a substantial increase in amino acids, particularly γ-aminobutyric acid, with a parallel reduction in aminoacyl-tRNA synthases. The increased lipoxygenase protein and transcript levels seemingly elevated jasmonic acid levels. In addition, increased abscisic acid hydrolase transcript levels coupled with reduced precursor supply lowered abscisic acid levels. The upregulation of carotenoids was mediated by modulation of methylerythreitol and plastoquinone pathways and increased the levels of carotenoid isomerization proteins. The upregulation of folate in tf-5 was connoted by the increase in the precursor p-aminobenzoic acid and transcript levels of several folate biosynthesis genes. The reduction in pterin-6-carboxylate levels and γ-glutamyl hydrolase activity indicated that reduced folate degradation in tf-5 increased folate levels. Our study delineates that in addition to leaf development, MYB117 also influences fruit metabolism. The tf-5 allele can be used to increase γ-aminobutyric acid, carotenoid, and folate levels in tomato.
Collapse
Affiliation(s)
- Kamal Tyagi
- Repository of Tomato Genomics Resources, Department of Plant Sciences, University of Hyderabad, Hyderabad, 500046, India
| | - Anusha Sunkum
- Repository of Tomato Genomics Resources, Department of Plant Sciences, University of Hyderabad, Hyderabad, 500046, India
| | - Meenakshi Rai
- Repository of Tomato Genomics Resources, Department of Plant Sciences, University of Hyderabad, Hyderabad, 500046, India
| | - Amita Yadav
- Repository of Tomato Genomics Resources, Department of Plant Sciences, University of Hyderabad, Hyderabad, 500046, India
| | - Sanchari Sircar
- Repository of Tomato Genomics Resources, Department of Plant Sciences, University of Hyderabad, Hyderabad, 500046, India
| | - Yellamaraju Sreelakshmi
- Repository of Tomato Genomics Resources, Department of Plant Sciences, University of Hyderabad, Hyderabad, 500046, India
| | - Rameshwar Sharma
- Repository of Tomato Genomics Resources, Department of Plant Sciences, University of Hyderabad, Hyderabad, 500046, India
| |
Collapse
|
16
|
Rao S, Gupta A, Bansal C, Sorin C, Crespi M, Mathur S. A conserved HSF:miR169:NF-YA loop involved in tomato and Arabidopsis heat stress tolerance. Plant J 2022; 112:7-26. [PMID: 36050841 DOI: 10.1111/tpj.15963] [Citation(s) in RCA: 6] [Impact Index Per Article: 3.0] [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: 04/06/2022] [Revised: 07/15/2022] [Accepted: 08/19/2022] [Indexed: 06/15/2023]
Abstract
Heat stress transcription factors (HSFs) and microRNAs (miRNAs) regulate different stress and developmental networks in plants. Regulatory feedback mechanisms are at the basis of these networks. Here, we report that plants improve their heat stress tolerance through HSF-mediated transcriptional regulation of MIR169 and post-transcriptional regulation of Nuclear Factor-YA (NF-YA) transcription factors. We show that HSFs recognize tomato (Solanum lycopersicum) and Arabidopsis MIR169 promoters using yeast one-hybrid/chromatin immunoprecipitation-quantitative PCR. Silencing tomato HSFs using virus-induced gene silencing (VIGS) reduced Sly-MIR169 levels and enhanced Sly-NF-YA9/A10 target expression. Further, Sly-NF-YA9/A10 VIGS knockdown tomato plants and Arabidopsis plants overexpressing At-MIR169d or At-nf-ya2 mutants showed a link with increased heat tolerance. In contrast, Arabidopsis plants overexpressing At-NF-YA2 and those expressing a non-cleavable At-NF-YA2 form (miR169d-resistant At-NF-YA2) as well as plants in which At-miR169d regulation is inhibited (miR169d mimic plants) were more sensitive to heat stress, highlighting NF-YA as a negative regulator of heat tolerance. Furthermore, post-transcriptional cleavage of NF-YA by elevated miR169 levels resulted in alleviation of the repression of the heat stress effector HSFA7 in tomato and Arabidopsis, revealing a retroactive control of HSFs by the miR169:NF-YA node. Hence, a regulatory feedback loop involving HSFs, miR169s and NF-YAs plays a critical role in the regulation of the heat stress response in tomato and Arabidopsis plants.
Collapse
Affiliation(s)
- Sombir Rao
- National Institute of Plant Genome Research, Aruna Asaf Ali Marg, PO Box No. 10531, New Delhi, 110 067, India
| | - Apoorva Gupta
- National Institute of Plant Genome Research, Aruna Asaf Ali Marg, PO Box No. 10531, New Delhi, 110 067, India
| | - Chandni Bansal
- National Institute of Plant Genome Research, Aruna Asaf Ali Marg, PO Box No. 10531, New Delhi, 110 067, India
| | - Celine Sorin
- CNRS, INRAE, Institute of Plant Sciences Paris-Saclay (IPS2), Université Paris-Saclay, Univ Evry, 91405, Orsay, France
- CNRS, INRAE, Institute of Plant Sciences Paris-Saclay (IPS2), Université de Paris, 91405, Orsay, France
| | - Martin Crespi
- CNRS, INRAE, Institute of Plant Sciences Paris-Saclay (IPS2), Université Paris-Saclay, Univ Evry, 91405, Orsay, France
- CNRS, INRAE, Institute of Plant Sciences Paris-Saclay (IPS2), Université de Paris, 91405, Orsay, France
| | - Saloni Mathur
- National Institute of Plant Genome Research, Aruna Asaf Ali Marg, PO Box No. 10531, New Delhi, 110 067, India
| |
Collapse
|
17
|
Qing Y, Zheng Y, Mlotshwa S, Smith HN, Wang X, Zhai X, van der Knaap E, Wang Y, Fei Z. Dynamically expressed small RNAs, substantially driven by genomic structural variants, contribute to transcriptomic changes during tomato domestication. Plant J 2022; 110:1536-1550. [PMID: 35514123 DOI: 10.1111/tpj.15798] [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] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/20/2021] [Revised: 04/23/2022] [Accepted: 05/02/2022] [Indexed: 06/14/2023]
Abstract
Tomato has undergone extensive selections during domestication. Recent progress has shown that genomic structural variants (SVs) have contributed to gene expression dynamics during tomato domestication, resulting in changes of important traits. Here, we performed comprehensive analyses of small RNAs (sRNAs) from nine representative tomato accessions. We demonstrate that SVs substantially contribute to the dynamic expression of the three major classes of plant sRNAs: microRNAs (miRNAs), phased secondary short interfering RNAs (phasiRNAs), and 24-nucleotide heterochromatic siRNAs (hc-siRNAs). Changes in the abundance of phasiRNAs and 24-nucleotide hc-siRNAs likely contribute to the alteration of mRNA gene expression in cis during tomato domestication, particularly for genes associated with biotic and abiotic stress tolerance. We also observe that miRNA expression dynamics are associated with imprecise processing, alternative miRNA-miRNA* selections, and SVs. SVs mainly affect the expression of less-conserved miRNAs that do not have established regulatory functions or low abundant members in highly expressed miRNA families. Our data highlight different selection pressures on miRNAs compared to phasiRNAs and 24-nucleotide hc-siRNAs. Our findings provide insights into plant sRNA evolution as well as SV-based gene regulation during crop domestication. Furthermore, our dataset provides a rich resource for mining the sRNA regulatory network in tomato.
Collapse
Affiliation(s)
- You Qing
- Beijing Key Laboratory for Agricultural Application and New Technique, College of Plant Science and Technology, Beijing University of Agriculture, Beijing, 102206, China
- Bioinformatics Center, Beijing University of Agriculture, Beijing, 102206, China
| | - Yi Zheng
- Beijing Key Laboratory for Agricultural Application and New Technique, College of Plant Science and Technology, Beijing University of Agriculture, Beijing, 102206, China
- Bioinformatics Center, Beijing University of Agriculture, Beijing, 102206, China
- Boyce Thompson Institute, Cornell University, Ithaca, NY, 14853, USA
| | | | - Heather N Smith
- Department of Biological Sciences, Mississippi State University, Starkville, MS, 39759, USA
| | - Xin Wang
- Boyce Thompson Institute, Cornell University, Ithaca, NY, 14853, USA
| | - Xuyang Zhai
- Beijing Key Laboratory for Agricultural Application and New Technique, College of Plant Science and Technology, Beijing University of Agriculture, Beijing, 102206, China
- Bioinformatics Center, Beijing University of Agriculture, Beijing, 102206, China
| | - Esther van der Knaap
- Center for Applied Genetic Technologies, University of Georgia, Athens, GA, 30602, USA
- Institute for Plant Breeding, Genetics and Genomics, University of Georgia, Athens, GA, 30602, USA
- Department of Horticulture, University of Georgia, Athens, GA, 30602, USA
| | - Ying Wang
- Department of Molecular Genetics, Ohio State University, Columbus, OH, 43210, USA
- Department of Biological Sciences, Mississippi State University, Starkville, MS, 39759, USA
| | - Zhangjun Fei
- Boyce Thompson Institute, Cornell University, Ithaca, NY, 14853, USA
- USDA-ARS, Robert W. Holley Center for Agriculture and Health, Ithaca, NY, 14853, USA
| |
Collapse
|
18
|
Andolfo G, Dohm JC, Himmelbauer H. Prediction of NB-LRR resistance genes based on full-length sequence homology. Plant J 2022; 110:1592-1602. [PMID: 35365907 PMCID: PMC9322396 DOI: 10.1111/tpj.15756] [Citation(s) in RCA: 9] [Impact Index Per Article: 4.5] [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: 02/08/2022] [Revised: 03/10/2022] [Accepted: 03/29/2022] [Indexed: 05/11/2023]
Abstract
The activation of plant immunity is mediated by resistance (R)-gene receptors, also known as nucleotide-binding leucine-rich repeat (NB-LRR) genes, which in turn trigger the authentic defense response. R-gene identification is a crucial goal for both classic and modern plant breeding strategies for disease resistance. The conventional method identifies NB-LRR genes using a protein motif/domain-based search (PDS) within an automatically predicted gene set of the respective genome assembly. PDS proved to be imprecise since repeat masking prior to automatic genome annotation unwittingly prevented comprehensive NB-LRR gene detection. Furthermore, R-genes have diversified in a species-specific manner, so that NB-LRR gene identification cannot be universally standardized. Here, we present the full-length Homology-based R-gene Prediction (HRP) method for the comprehensive identification and annotation of a genome's R-gene repertoire. Our method has substantially addressed the complex genomic organization of tomato (Solanum lycopersicum) NB-LRR gene loci, proving to be more performant than the well-established RenSeq approach. HRP efficiency was also tested on three differently assembled and annotated Beta sp. genomes. Indeed, HRP identified up to 45% more full-length NB-LRR genes compared to previous approaches. HRP also turned out to be a more refined strategy for R-gene allele mining, testified by the identification of hitherto undiscovered Fom-2 homologs in five Cucurbita sp. genomes. In summary, our high-performance method for full-length NB-LRR gene discovery will propel the identification of novel R-genes towards development of improved cultivars.
Collapse
Affiliation(s)
- Giuseppe Andolfo
- Department of Agricultural SciencesUniversity of Naples ‘Federico II’Via Università 10080055Portici (Naples)Italy
| | - Juliane C. Dohm
- Institute of Computational Biology, Department of BiotechnologyUniversity of Natural Resources and Life SciencesViennaMuthgasse 181190ViennaAustria
| | - Heinz Himmelbauer
- Institute of Computational Biology, Department of BiotechnologyUniversity of Natural Resources and Life SciencesViennaMuthgasse 181190ViennaAustria
| |
Collapse
|
19
|
Yuan Y, Ren S, Liu X, Su L, Wu Y, Zhang W, Li Y, Jiang Y, Wang H, Fu R, Bouzayen M, Liu M, Zhang Y. SlWRKY35 positively regulates carotenoid biosynthesis by activating the MEP pathway in tomato fruit. New Phytol 2022; 234:164-178. [PMID: 35048386 DOI: 10.1111/nph.17977] [Citation(s) in RCA: 29] [Impact Index Per Article: 14.5] [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: 09/24/2021] [Accepted: 01/05/2022] [Indexed: 06/14/2023]
Abstract
Carotenoids are vital phytonutrients widely recognised for their health benefits. Therefore, it is vital to thoroughly investigate the metabolic regulatory network underlying carotenoid biosynthesis and accumulation to open new leads towards improving their contents in vegetables and crops. The outcome of our study defines SlWRKY35 as a positive regulator of carotenoid biosynthesis in tomato. SlWRKY35 can directly activate the expression of the 1-deoxy-d-xylulose 5-phosphate synthase (SlDXS1) gene to reprogramme metabolism towards the 2-C-methyl-d-erythritol 4-phosphate (MEP) pathway, leading to enhanced carotenoid accumulation. We also show that the master regulator SlRIN directly regulates the expression of SlWRKY35 during tomato fruit ripening. Compared with the SlLCYE overexpression lines, coexpression of SlWRKY35 and SlLCYE can further enhance lutein production in transgenic tomato fruit, indicating that SlWRKY35 represents a potential target towards designing innovative metabolic engineering strategies for carotenoid derivatives. In addition to providing new insights into the metabolic regulatory network associated with tomato fruit ripening, our data define a new tool for improving fruit content in specific carotenoid compounds.
Collapse
Affiliation(s)
- Yong Yuan
- Key Laboratory of Bio-resource and Eco-environment of Ministry of Education, College of Life Sciences, Sichuan University, Chengdu, 610065, China
| | - Siyan Ren
- Key Laboratory of Bio-resource and Eco-environment of Ministry of Education, College of Life Sciences, Sichuan University, Chengdu, 610065, China
| | - Xiaofeng Liu
- Key Laboratory of Bio-resource and Eco-environment of Ministry of Education, College of Life Sciences, Sichuan University, Chengdu, 610065, China
| | - Liyang Su
- Key Laboratory of Bio-resource and Eco-environment of Ministry of Education, College of Life Sciences, Sichuan University, Chengdu, 610065, China
| | - Yu Wu
- Key Laboratory of Bio-resource and Eco-environment of Ministry of Education, College of Life Sciences, Sichuan University, Chengdu, 610065, China
| | - Wen Zhang
- Key Laboratory of Bio-resource and Eco-environment of Ministry of Education, College of Life Sciences, Sichuan University, Chengdu, 610065, China
| | - Yan Li
- Hainan Key Laboratory for Sustainable Utilisation of Tropical Bioresource, Institute of Tropical Agriculture and Forestry, Hainan University, Haikou, 572208, China
| | - Yidan Jiang
- Key Laboratory of Bio-resource and Eco-environment of Ministry of Education, College of Life Sciences, Sichuan University, Chengdu, 610065, China
| | - Hsihua Wang
- Key Laboratory of Bio-resource and Eco-environment of Ministry of Education, College of Life Sciences, Sichuan University, Chengdu, 610065, China
| | - Rao Fu
- Key Laboratory of Bio-resource and Eco-environment of Ministry of Education, College of Life Sciences, Sichuan University, Chengdu, 610065, China
| | - Mondher Bouzayen
- Key Laboratory of Bio-resource and Eco-environment of Ministry of Education, College of Life Sciences, Sichuan University, Chengdu, 610065, China
- GBF, University of Toulouse, INRA, Castanet-Tolosan, 31320, France
| | - Mingchun Liu
- Key Laboratory of Bio-resource and Eco-environment of Ministry of Education, College of Life Sciences, Sichuan University, Chengdu, 610065, China
| | - Yang Zhang
- Key Laboratory of Bio-resource and Eco-environment of Ministry of Education, College of Life Sciences, Sichuan University, Chengdu, 610065, China
| |
Collapse
|
20
|
van Rengs WMJ, Schmidt MHW, Effgen S, Le DB, Wang Y, Zaidan MWAM, Huettel B, Schouten HJ, Usadel B, Underwood CJ. A chromosome scale tomato genome built from complementary PacBio and Nanopore sequences alone reveals extensive linkage drag during breeding. Plant J 2022; 110:572-588. [PMID: 35106855 DOI: 10.1111/tpj.15690] [Citation(s) in RCA: 6] [Impact Index Per Article: 3.0] [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: 11/18/2021] [Revised: 01/19/2022] [Accepted: 01/24/2022] [Indexed: 05/16/2023]
Abstract
The assembly and scaffolding of plant crop genomes facilitate the characterization of genetically diverse cultivated and wild germplasm. The cultivated tomato (Solanum lycopersicum) has been improved through the introgression of genetic material from related wild species, including resistance to pandemic strains of tobacco mosaic virus (TMV) from Solanum peruvianum. Here we applied PacBio HiFi and ONT Nanopore sequencing to develop independent, highly contiguous and complementary assemblies of an inbred TMV-resistant tomato variety. We show specific examples of how HiFi and ONT datasets can complement one another to improve assembly contiguity. We merged the HiFi and ONT assemblies to generate a long-read-only assembly where all 12 chromosomes were represented as 12 contiguous sequences (N50 = 68.5 Mbp). This chromosome scale assembly did not require scaffolding using an orthogonal data type. The merged assembly was validated by chromosome conformation capture data and is highly consistent with previous tomato genome assemblies that made use of genetic maps and Hi-C for scaffolding. Our long-read-only assembly reveals that a complex series of structural variants linked to the TMV resistance gene likely contributed to linkage drag of a 64.1-Mbp region of the S. peruvianum genome during tomato breeding. Through marker studies and ONT-based comprehensive haplotyping we show that this minimal introgression region is present in six cultivated tomato hybrid varieties developed in three commercial breeding programs. Our results suggest that complementary long read technologies can facilitate the rapid generation of near-complete genome sequences.
Collapse
Affiliation(s)
- Willem M J van Rengs
- Department of Chromosome Biology, Max Planck Institute for Plant Breeding Research, Carl-von-Linné-Weg 10, 50829, Cologne, Germany
| | | | - Sieglinde Effgen
- Department of Chromosome Biology, Max Planck Institute for Plant Breeding Research, Carl-von-Linné-Weg 10, 50829, Cologne, Germany
| | - Duyen Bao Le
- Heinrich Heine University Düsseldorf, Institute of Biological Data Science, Düsseldorf, Germany
| | - Yazhong Wang
- Department of Chromosome Biology, Max Planck Institute for Plant Breeding Research, Carl-von-Linné-Weg 10, 50829, Cologne, Germany
| | - Mohd Waznul Adly Mohd Zaidan
- Department of Chromosome Biology, Max Planck Institute for Plant Breeding Research, Carl-von-Linné-Weg 10, 50829, Cologne, Germany
| | - Bruno Huettel
- Max Planck-Genome-center Cologne, Carl-von-Linné-Weg 10, 50829, Cologne, Germany
| | - Henk J Schouten
- Department of Plant Breeding, Wageningen University and Research, P.O. Box 386, 6700, AJ, Wageningen, The Netherlands
| | - Björn Usadel
- IBG-4 Bioinformatics, Forschungszentrum Jülich, 52428, Jülich, Germany
- Heinrich Heine University Düsseldorf, Institute of Biological Data Science, Düsseldorf, Germany
| | - Charles J Underwood
- Department of Chromosome Biology, Max Planck Institute for Plant Breeding Research, Carl-von-Linné-Weg 10, 50829, Cologne, Germany
| |
Collapse
|
21
|
Berhin A, Nawrath C, Hachez C. Subtle interplay between trichome development and cuticle formation in plants. New Phytol 2022; 233:2036-2046. [PMID: 34704619 DOI: 10.1111/nph.17827] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/15/2021] [Accepted: 10/21/2021] [Indexed: 06/13/2023]
Abstract
Trichomes and cuticles are key protective epidermal specializations. This review highlights the genetic interplay existing between trichome and cuticle formation in a variety of species. Controlling trichome development, the biosynthesis of trichome-derived specialized metabolites as well as cuticle biosynthesis and deposition can be viewed as different aspects of a common defensive strategy adopted by plants to protect themselves from environmental stresses. Existence of such interplay is based on the mining of published transcriptomic data as well as on phenotypic observations in trichome or cuticle mutants where the morphology of both structures often appear to be concomitantly altered. Given the existence of several trichome developmental pathways depending on the plant species and the types of trichomes, genetic interactions between cuticle formation and trichome development are complex to decipher and not easy to generalize. Based on our review of the literature, a schematic overview of the gene network mediating this transcriptional interplay is presented for two model plant species: Arabidopsis thaliana and Solanum lycopersicum. In addition to fundamental new insights on the regulation of these processes, identifying key transcriptional switches controlling both processes could also facilitate more applied investigations aiming at improving much desired agronomical traits in plants.
Collapse
Affiliation(s)
- Alice Berhin
- Louvain Institute of Biomolecular Science and Technology, UCLouvain, 1348, Louvain-la-Neuve, Belgium
| | - Christiane Nawrath
- Department of Molecular Plant Biology, University of Lausanne, Unil-Sorge, 1015, Lausanne, Switzerland
| | - Charles Hachez
- Louvain Institute of Biomolecular Science and Technology, UCLouvain, 1348, Louvain-la-Neuve, Belgium
| |
Collapse
|
22
|
Wang F, Wang X, Zhang Y, Yan J, Ahammed GJ, Bu X, Sun X, Liu Y, Xu T, Qi H, Qi M, Li T. SlFHY3 and SlHY5 act compliantly to enhance cold tolerance through the integration of myo-inositol and light signaling in tomato. New Phytol 2022; 233:2127-2143. [PMID: 34936108 DOI: 10.1111/nph.17934] [Citation(s) in RCA: 17] [Impact Index Per Article: 8.5] [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: 10/20/2021] [Accepted: 12/06/2021] [Indexed: 06/14/2023]
Abstract
Plants have evolved sophisticated regulatory networks to cope with dynamically changing light and temperature environments during day-night and seasonal cycles. However, the integration mechanisms of light and low temperature remain largely unclear. Here, we show that low red : far-red ratio (LR : FR) induces FAR-RED ELONGATED HYPOCOTYL3 (SlFHY3) transcription under cold stress in tomato (Solanum lycopersicum). Reverse genetic approaches revealed that knocking out SlFHY3 decreases myo-inositol accumulation and increases cold susceptibility, whereas overexpressing SlFHY3 induces myo-inositol accumulation and enhances cold tolerance in tomato plants. SlFHY3 physically interacts with ELONGATED HYPOCOTYL5 (SlHY5) to promote the transcriptional activity of SlHY5 on MYO-INOSITOL-1-PHOSPHATE SYNTHASE 3 (SlMIPS3) and induce myo-inositol accumulation in tomato plants under cold stress. Disruption of SlHY5 and SlMIPS3 largely suppresses the cold tolerance of SlFHY3-overexpressing plants and myo-inositol accumulation in tomato. Furthermore, silencing of SlMIPS3 drastically reduces myo-inositol accumulation and compromises LR : FR-induced cold tolerance in tomato. Together, our results reveal a crucial role of SlFHY3 in LR : FR-induced cold tolerance in tomato and unravel a novel regulatory mechanism whereby plants integrate dynamic environmental light signals and internal cues (inositol biosynthesis) to induce and control cold tolerance in tomato plants.
Collapse
Affiliation(s)
- Feng Wang
- College of Horticulture, Shenyang Agricultural University, Shenyang, 110866, China
- Key Laboratory of Protected Horticulture, Ministry of Education, Shenyang, 110866, China
- National & Local Joint Engineering Research Center of Northern Horticultural Facilities Design & Application Technology (Liaoning), Shenyang, 110866, China
| | - Xiujie Wang
- College of Horticulture, Shenyang Agricultural University, Shenyang, 110866, China
| | - Ying Zhang
- College of Horticulture, Shenyang Agricultural University, Shenyang, 110866, China
| | - Jiarong Yan
- College of Horticulture, Shenyang Agricultural University, Shenyang, 110866, China
| | - Golam Jalal Ahammed
- College of Horticulture and Plant Protection, Henan University of Science and Technology, Luoyang, 471000, China
| | - Xin Bu
- College of Horticulture, Shenyang Agricultural University, Shenyang, 110866, China
| | - Xin Sun
- College of Land and Environment, Shenyang Agricultural University, Shenyang, 110866, China
| | - Yufeng Liu
- College of Horticulture, Shenyang Agricultural University, Shenyang, 110866, China
- Key Laboratory of Protected Horticulture, Ministry of Education, Shenyang, 110866, China
- National & Local Joint Engineering Research Center of Northern Horticultural Facilities Design & Application Technology (Liaoning), Shenyang, 110866, China
| | - Tao Xu
- College of Horticulture, Shenyang Agricultural University, Shenyang, 110866, China
- Key Laboratory of Protected Horticulture, Ministry of Education, Shenyang, 110866, China
- National & Local Joint Engineering Research Center of Northern Horticultural Facilities Design & Application Technology (Liaoning), Shenyang, 110866, China
| | - Hongyan Qi
- College of Horticulture, Shenyang Agricultural University, Shenyang, 110866, China
- Key Laboratory of Protected Horticulture, Ministry of Education, Shenyang, 110866, China
- National & Local Joint Engineering Research Center of Northern Horticultural Facilities Design & Application Technology (Liaoning), Shenyang, 110866, China
| | - Mingfang Qi
- College of Horticulture, Shenyang Agricultural University, Shenyang, 110866, China
- Key Laboratory of Protected Horticulture, Ministry of Education, Shenyang, 110866, China
- National & Local Joint Engineering Research Center of Northern Horticultural Facilities Design & Application Technology (Liaoning), Shenyang, 110866, China
| | - Tianlai Li
- College of Horticulture, Shenyang Agricultural University, Shenyang, 110866, China
- Key Laboratory of Protected Horticulture, Ministry of Education, Shenyang, 110866, China
- National & Local Joint Engineering Research Center of Northern Horticultural Facilities Design & Application Technology (Liaoning), Shenyang, 110866, China
| |
Collapse
|
23
|
Francesca S, Vitale L, Arena C, Raimondi G, Olivieri F, Cirillo V, Paradiso A, de Pinto MC, Maggio A, Barone A, Rigano MM. The efficient physiological strategy of a novel tomato genotype to adapt to chronic combined water and heat stress. Plant Biol (Stuttg) 2022; 24:62-74. [PMID: 34605594 PMCID: PMC9293464 DOI: 10.1111/plb.13339] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [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: 06/17/2021] [Accepted: 08/26/2021] [Indexed: 05/28/2023]
Abstract
Climate change is increasing the frequency of high temperature shocks and water shortages, pointing to the need to develop novel tolerant varieties and to understand the mechanisms employed to withstand combined abiotic stresses. Two tomato genotypes, a heat-tolerant Solanum lycopersicum accession (LA3120) and a novel genotype (E42), previously selected as a stable yielding genotype under high temperatures, were exposed to single and combined water and heat stress. Plant functional traits, pollen viability and physiological (leaf gas exchange and chlorophyll a fluorescence emission measurements) and biochemical (antioxidant content and antioxidant enzyme activity) measurements were carried out. A Reduced Representation Sequencing approach allowed exploration of the genetic variability of both genotypes to identify candidate genes that could regulate stress responses. Both abiotic stresses had a severe impact on plant growth parameters and on the reproductive phase of development. Growth parameters and leaf gas exchange measurements revealed that the two genotypes used different physiological strategies to overcome individual and combined stresses, with E42 having a more efficient capacity to utilize the limiting water resources. Activation of antioxidant defence mechanisms seemed to be critical for both genotypes to counteract combined abiotic stresses. Candidate genes were identified that could explain the different physiological responses to stress observed in E42 compared with LA3120. Results here obtained have shown how new tomato genetic resources can be a valuable source of traits for adaptation to combined abiotic stresses and should be used in breeding programmes to improve stress tolerance in commercial varieties.
Collapse
Affiliation(s)
- S. Francesca
- Department of Agricultural SciencesUniversity of Naples “Federico II”PorticiItaly
| | - L. Vitale
- Department of Biology, Agriculture and Food SciencesNational Research CouncilInstitute for Agricultural and Forestry Systems in the MediterraneanPorticiItaly
| | - C. Arena
- Department of BiologyUniversity of Naples “Federico II”NaplesItaly
- BATCenter ‐ Interuniversity Center for Studies on Bioinspired Agro‐Environmental TechnologyPorticiItaly
| | - G. Raimondi
- Department of Agricultural SciencesUniversity of Naples “Federico II”PorticiItaly
| | - F. Olivieri
- Department of Agricultural SciencesUniversity of Naples “Federico II”PorticiItaly
| | - V. Cirillo
- Department of Agricultural SciencesUniversity of Naples “Federico II”PorticiItaly
| | - A. Paradiso
- Department of BiologyUniversity of Bari “Aldo Moro”BariItaly
| | - M. C. de Pinto
- Department of BiologyUniversity of Bari “Aldo Moro”BariItaly
| | - A. Maggio
- Department of Agricultural SciencesUniversity of Naples “Federico II”PorticiItaly
| | - A. Barone
- Department of Agricultural SciencesUniversity of Naples “Federico II”PorticiItaly
| | - M. M. Rigano
- Department of Agricultural SciencesUniversity of Naples “Federico II”PorticiItaly
| |
Collapse
|
24
|
Osdaghi E, Jones JB, Sharma A, Goss EM, Abrahamian P, Newberry EA, Potnis N, Carvalho R, Choudhary M, Paret ML, Timilsina S, Vallad GE. A centenary for bacterial spot of tomato and pepper. Mol Plant Pathol 2021; 22:1500-1519. [PMID: 34472193 PMCID: PMC8578828 DOI: 10.1111/mpp.13125] [Citation(s) in RCA: 31] [Impact Index Per Article: 10.3] [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: 05/24/2021] [Revised: 08/03/2021] [Accepted: 08/05/2021] [Indexed: 05/08/2023]
Abstract
DISEASE SYMPTOMS Symptoms include water-soaked areas surrounded by chlorosis turning into necrotic spots on all aerial parts of plants. On tomato fruits, small, water-soaked, or slightly raised pale-green spots with greenish-white halos are formed, ultimately becoming dark brown and slightly sunken with a scabby or wart-like surface. HOST RANGE Main and economically important hosts include different types of tomatoes and peppers. Alternative solanaceous and nonsolanaceous hosts include Datura spp., Hyoscyamus spp., Lycium spp., Nicotiana rustica, Physalis spp., Solanum spp., Amaranthus lividus, Emilia fosbergii, Euphorbia heterophylla, Nicandra physaloides, Physalis pubescens, Sida glomerata, and Solanum americanum. TAXONOMIC STATUS OF THE PATHOGEN Domain, Bacteria; phylum, Proteobacteria; class, Gammaproteobacteria; order, Xanthomonadales; family, Xanthomonadaceae; genus, Xanthomonas; species, X. euvesicatoria, X. hortorum, X. vesicatoria. SYNONYMS (NONPREFERRED SCIENTIFIC NAMES) Bacterium exitiosum, Bacterium vesicatorium, Phytomonas exitiosa, Phytomonas vesicatoria, Pseudomonas exitiosa, Pseudomonas gardneri, Pseudomonas vesicatoria, Xanthomonas axonopodis pv. vesicatoria, Xanthomonas campestris pv. vesicatoria, Xanthomonas cynarae pv. gardneri, Xanthomonas gardneri, Xanthomonas perforans. MICROBIOLOGICAL PROPERTIES Colonies are gram-negative, oxidase-negative, and catalase-positive and have oxidative metabolism. Pale-yellow domed circular colonies of 1-2 mm in diameter grow on general culture media. DISTRIBUTION The bacteria are widespread in Africa, Brazil, Canada and the USA, Australia, eastern Europe, and south-east Asia. Occurrence in western Europe is restricted. PHYTOSANITARY CATEGORIZATION A2 no. 157, EU Annex designation II/A2. EPPO CODES XANTEU, XANTGA, XANTPF, XANTVE.
Collapse
Affiliation(s)
- Ebrahim Osdaghi
- Department of Plant ProtectionCollege of AgricultureUniversity of TehranKarajIran
| | - Jeffrey B. Jones
- Plant Pathology DepartmentUniversity of FloridaGainesvilleFloridaUSA
| | - Anuj Sharma
- Plant Pathology DepartmentUniversity of FloridaGainesvilleFloridaUSA
| | - Erica M. Goss
- Plant Pathology DepartmentUniversity of FloridaGainesvilleFloridaUSA
- Emerging Pathogens InstituteUniversity of FloridaGainesvilleFloridaUSA
| | - Peter Abrahamian
- Plant Pathology DepartmentUniversity of FloridaGainesvilleFloridaUSA
- Gulf Coast Research and Education CenterUniversity of FloridaWimaumaFloridaUSA
| | - Eric A. Newberry
- Department of Entomology and Plant PathologyAuburn UniversityAuburnAlabamaUSA
| | - Neha Potnis
- Department of Entomology and Plant PathologyAuburn UniversityAuburnAlabamaUSA
| | - Renato Carvalho
- Plant Pathology DepartmentUniversity of FloridaGainesvilleFloridaUSA
| | - Manoj Choudhary
- Plant Pathology DepartmentUniversity of FloridaGainesvilleFloridaUSA
| | - Mathews L. Paret
- Department of Plant PathologyNorth Florida Research and Education CenterUniversity of FloridaQuincyFloridaUSA
| | - Sujan Timilsina
- Plant Pathology DepartmentUniversity of FloridaGainesvilleFloridaUSA
| | - Gary E. Vallad
- Gulf Coast Research and Education CenterUniversity of FloridaWimaumaFloridaUSA
| |
Collapse
|
25
|
Tian P, Lin Z, Lin D, Dong S, Huang J, Huang T. The pattern of DNA methylation alteration, and its association with the changes of gene expression and alternative splicing during phosphate starvation in tomato. Plant J 2021; 108:841-858. [PMID: 34492142 DOI: 10.1111/tpj.15486] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [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: 03/23/2021] [Accepted: 09/02/2021] [Indexed: 05/20/2023]
Abstract
DNA methylation is changed and associates with gene expression alterations in plant response to phosphate starvation (Pi-), a common stress that impacts plant growth and productivity. However, in the horticultural model species Solanum lycopersicum (tomato), the dynamics of DNA methylation and its relationship with changes in gene transcription and alternative splicing (AS) under Pi- are unknown. Here, we performed integrative methylome and transcriptome analyses of tomato seedlings under Pi-deficient and -sufficient conditions. We found Pi- caused a slight increase in the overall methylation level, with millions of differentially methylated cytosines (DmCs) and a few hundred differentially methylated regions (DMRs). We also identified thousands of differentially expressed (DE) and differential AS (DAS) genes induced by Pi-, and found that DmCs were more abundant in non-expressed genes than in DE or DAS genes. Moreover, DNA methylation alterations weakly correlated with transcription changes but not with DAS events, and hyper-CHH-DMRs overlapping with transposable elements (TEs) were enriched in a subset of Pi starvation response (PSR) genes. We propose that changes in DNA methylation may be associated with the differential expression of some PSR genes, but that most of these changes probably control the expression of nearby TEs, rather than directly affecting the transcription or AS of PSR genes. Besides, the pattern of methylation changes upon Pi- may largely be shaped by TE distributions. Together, our study provides comprehensive insights into the association of DNA methylation with gene transcription and AS under Pi- in tomato and may contribute to unveiling novel roles of epigenetic mechanisms in plant stress response.
Collapse
Affiliation(s)
- Peng Tian
- Guangdong Provincial Key Laboratory for Plant Epigenetics, College of Life Sciences and Oceanography, Shenzhen University, Shenzhen, Guangdong, 518060, China
- Key Laboratory of Optoelectronic Devices and Systems of Ministry of Education and Guangdong, College of Physics and Optoelectronic Engineering, Shenzhen University, Shenzhen, Guangdong, 518060, China
| | - Zeteng Lin
- Guangdong Provincial Key Laboratory for Plant Epigenetics, College of Life Sciences and Oceanography, Shenzhen University, Shenzhen, Guangdong, 518060, China
| | - Dongbo Lin
- Guangdong Provincial Key Laboratory for Plant Epigenetics, College of Life Sciences and Oceanography, Shenzhen University, Shenzhen, Guangdong, 518060, China
- Key Laboratory of Optoelectronic Devices and Systems of Ministry of Education and Guangdong, College of Physics and Optoelectronic Engineering, Shenzhen University, Shenzhen, Guangdong, 518060, China
| | - Shuangyu Dong
- Guangdong Provincial Key Laboratory for Plant Epigenetics, College of Life Sciences and Oceanography, Shenzhen University, Shenzhen, Guangdong, 518060, China
- Key Laboratory of Optoelectronic Devices and Systems of Ministry of Education and Guangdong, College of Physics and Optoelectronic Engineering, Shenzhen University, Shenzhen, Guangdong, 518060, China
| | - Jianzi Huang
- Guangdong Provincial Key Laboratory for Plant Epigenetics, College of Life Sciences and Oceanography, Shenzhen University, Shenzhen, Guangdong, 518060, China
| | - Tengbo Huang
- Guangdong Provincial Key Laboratory for Plant Epigenetics, College of Life Sciences and Oceanography, Shenzhen University, Shenzhen, Guangdong, 518060, China
| |
Collapse
|
26
|
Zamora O, Schulze S, Azoulay-Shemer T, Parik H, Unt J, Brosché M, Schroeder JI, Yarmolinsky D, Kollist H. Jasmonic acid and salicylic acid play minor roles in stomatal regulation by CO 2 , abscisic acid, darkness, vapor pressure deficit and ozone. Plant J 2021; 108:134-150. [PMID: 34289193 PMCID: PMC8842987 DOI: 10.1111/tpj.15430] [Citation(s) in RCA: 11] [Impact Index Per Article: 3.7] [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: 12/08/2020] [Revised: 07/07/2021] [Accepted: 07/14/2021] [Indexed: 05/08/2023]
Abstract
Jasmonic acid (JA) and salicylic acid (SA) regulate stomatal closure, preventing pathogen invasion into plants. However, to what extent abscisic acid (ABA), SA and JA interact, and what the roles of SA and JA are in stomatal responses to environmental cues, remains unclear. Here, by using intact plant gas-exchange measurements in JA and SA single and double mutants, we show that stomatal responsiveness to CO2 , light intensity, ABA, high vapor pressure deficit and ozone either did not or, for some stimuli only, very slightly depended upon JA and SA biosynthesis and signaling mutants, including dde2, sid2, coi1, jai1, myc2 and npr1 alleles. Although the stomata in the mutants studied clearly responded to ABA, CO2 , light and ozone, ABA-triggered stomatal closure in npr1-1 was slightly accelerated compared with the wild type. Stomatal reopening after ozone pulses was quicker in the coi1-16 mutant than in the wild type. In intact Arabidopsis plants, spraying with methyl-JA led to only a modest reduction in stomatal conductance 80 min after treatment, whereas ABA and CO2 induced pronounced stomatal closure within minutes. We could not document a reduction of stomatal conductance after spraying with SA. Coronatine-induced stomatal opening was initiated slowly after 1.5-2.0 h, and reached a maximum by 3 h after spraying intact plants. Our results suggest that ABA, CO2 and light are major regulators of rapid guard cell signaling, whereas JA and SA could play only minor roles in the whole-plant stomatal response to environmental cues in Arabidopsis and Solanum lycopersicum (tomato).
Collapse
Affiliation(s)
- Olena Zamora
- Plant Signal Research Group, Institute of Technology, University of Tartu, Nooruse 1, Tartu 50411, Estonia
| | - Sebastian Schulze
- Division of Biological Sciences, Cell and Developmental Biology Section, University of California, San Diego, La Jolla, CA 92093, USA
| | - Tamar Azoulay-Shemer
- Division of Biological Sciences, Cell and Developmental Biology Section, University of California, San Diego, La Jolla, CA 92093, USA
- Fruit Tree Sciences, Agricultural Research Organization (ARO), the Volcani Center, Newe Ya’ar Research Center, Ramat Yishay, Israel, and
| | - Helen Parik
- Plant Signal Research Group, Institute of Technology, University of Tartu, Nooruse 1, Tartu 50411, Estonia
| | - Jaanika Unt
- Plant Signal Research Group, Institute of Technology, University of Tartu, Nooruse 1, Tartu 50411, Estonia
| | - Mikael Brosché
- Plant Signal Research Group, Institute of Technology, University of Tartu, Nooruse 1, Tartu 50411, Estonia
- Organismal and Evolutionary Biology Research Programme, Faculty of Biological and Environmental Sciences, Viikki Plant Science Centre, University of Helsinki, PO Box 65 (Viikinkaari 1), Helsinki FI-00014, Finland
| | - Julian I. Schroeder
- Division of Biological Sciences, Cell and Developmental Biology Section, University of California, San Diego, La Jolla, CA 92093, USA
| | - Dmitry Yarmolinsky
- Plant Signal Research Group, Institute of Technology, University of Tartu, Nooruse 1, Tartu 50411, Estonia
- For correspondence ()
| | - Hannes Kollist
- Plant Signal Research Group, Institute of Technology, University of Tartu, Nooruse 1, Tartu 50411, Estonia
| |
Collapse
|
27
|
Ke CJ, Lin XJ, Zhang BY, Chen LY. Turgor regulation defect 1 proteins play a conserved role in pollen tube reproductive innovation of the angiosperms. Plant J 2021; 106:1356-1365. [PMID: 33735469 DOI: 10.1111/tpj.15241] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [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: 02/03/2020] [Revised: 03/11/2021] [Accepted: 03/16/2021] [Indexed: 06/12/2023]
Abstract
Sexual reproduction in angiosperms is siphonogamous, and the interaction between pollen tube and pistil is critical for successful fertilization. Our previous study demonstrated that mutation of the Arabidopsis turgor regulation defect 1 (TOD1) gene leads to reduced male fertility, a result of retarded pollen tube growth in the pistil. TOD1 encodes a Golgi-localized alkaline ceramidase, a key enzyme for the production of sphingosine-1-phosphate (S1P), which is involved in the regulation of turgor pressure in plant cells. However, whether TOD1s play a conserved role in the innovation of siphonogamy is largely unknown. In this study, we provide evidence that OsTOD1, which is similar to AtTOD1, is also preferentially expressed in rice pollen grains and pollen tubes. OsTOD1 knockout results in reduced pollen tube growth potential in rice pistil. Both the OsTOD1 genomic sequence with its own promoter and the coding sequence under the AtTOD1 promoter can partially rescue the attod1 mutant phenotype. Furthermore, TOD1s from other angiosperm species can partially rescue the attod1 mutant phenotype, while TOD1s from gymnosperm species are not able to complement the attod1 mutant phenotype. Our data suggest that TOD1 acts conservatively in angiosperms, and this opens up an opportunity to dissect the role of sphingolipids in pollen tube growth in angiosperms.
Collapse
Affiliation(s)
- Chang-Jiao Ke
- Fujian Provincial Key Laboratory of Haixia Applied Plant Systems Biology, Key Laboratory of Ministry of Education for Genetics, Breeding and Multiple Utilization of Crops, Center for Genomics and Biotechnology, College of Agriculture, Fujian Agriculture and Forestry University, Fuzhou, 350002, China
| | - Xian-Ju Lin
- Fujian Provincial Key Laboratory of Haixia Applied Plant Systems Biology, Key Laboratory of Ministry of Education for Genetics, Breeding and Multiple Utilization of Crops, Center for Genomics and Biotechnology, College of Agriculture, Fujian Agriculture and Forestry University, Fuzhou, 350002, China
| | - Bao-Yu Zhang
- Fujian Provincial Key Laboratory of Haixia Applied Plant Systems Biology, Key Laboratory of Ministry of Education for Genetics, Breeding and Multiple Utilization of Crops, Center for Genomics and Biotechnology, College of Agriculture, Fujian Agriculture and Forestry University, Fuzhou, 350002, China
- College of Life Sciences, Fujian Agriculture and Forestry University, Fuzhou, 350002, China
| | - Li-Yu Chen
- Fujian Provincial Key Laboratory of Haixia Applied Plant Systems Biology, Key Laboratory of Ministry of Education for Genetics, Breeding and Multiple Utilization of Crops, Center for Genomics and Biotechnology, College of Agriculture, Fujian Agriculture and Forestry University, Fuzhou, 350002, China
| |
Collapse
|
28
|
Lunardon A, Kariuki SM, Axtell MJ. Expression and processing of polycistronic artificial microRNAs and trans-acting siRNAs from transiently introduced transgenes in Solanum lycopersicum and Nicotiana benthamiana. Plant J 2021; 106:1087-1104. [PMID: 33655542 DOI: 10.1111/tpj.15221] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [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: 01/07/2021] [Revised: 02/22/2021] [Accepted: 02/24/2021] [Indexed: 06/12/2023]
Abstract
Targeted gene silencing using small regulatory RNAs is a widely used technique for genetic studies in plants. Artificial microRNAs are one common approach, as they have the advantage of producing just a single functional small RNA, which can be designed for high target specificity and low off-target effects. Simultaneous silencing of multiple targets with artificial microRNAs can be achieved by producing polycistronic microRNA precursors. Alternatively, specialized trans-acting short interfering RNA (tasiRNA) precursors can be designed to produce several specific tasiRNAs at once. Here we tested several artificial microRNA- and tasiRNA-based methods for multiplexed gene silencing in Solanum lycopersicum (tomato) and Nicotiana benthamiana. All analyses used transiently expressed transgenes delivered by infiltration of leaves with Agrobacterium tumefacians. Small RNA sequencing analyses revealed that many previously described approaches resulted in poor small RNA processing. The 5'-most microRNA precursor hairpins on polycistronic artificial microRNA precursors were generally processed more accurately than precursors at the 3'-end. Polycistronic artificial microRNAs where the hairpin precursors were separated by transfer RNAs had the best processing precision. Strikingly, artificial tasiRNA precursors failed to be processed in the expected phased manner in our system. These results highlight the need for further development of multiplexed artificial microRNA and tasiRNA strategies. The importance of small RNA sequencing, as opposed to single-target assays such as RNA blots or real-time polymerase chain reaction, is also discussed.
Collapse
Affiliation(s)
- Alice Lunardon
- Department of Biology, The Pennsylvania State University, University Park, PA, 16802, USA
| | - Samwel Muiruri Kariuki
- International Institute of Tropical Agriculture, Nairobi, PO Box 30709-00100, Kenya
- Department of Plant Sciences, Kenyatta University, Nairobi, PO Box 43844-00100, Kenya
| | - Michael J Axtell
- Department of Biology, The Pennsylvania State University, University Park, PA, 16802, USA
- Huck Institutes of the Life Sciences, The Pennsylvania State University, University Park, PA, 16802, USA
| |
Collapse
|
29
|
Kilambi HV, Dindu A, Sharma K, Nizampatnam NR, Gupta N, Thazath NP, Dhanya AJ, Tyagi K, Sharma S, Kumar S, Sharma R, Sreelakshmi Y. The new kid on the block: a dominant-negative mutation of phototropin1 enhances carotenoid content in tomato fruits. Plant J 2021; 106:844-861. [PMID: 33608974 DOI: 10.1111/tpj.15206] [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] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/26/2020] [Revised: 01/15/2021] [Accepted: 02/10/2021] [Indexed: 06/12/2023]
Abstract
Phototropins, the UVA-blue light photoreceptors, endow plants to detect the direction of light and optimize photosynthesis by regulating positioning of chloroplasts and stomatal gas exchange. Little is known about their functions in other developmental responses. A tomato Non-phototropic seedling1 (Nps1) mutant, bearing an Arg495His substitution in the vicinity of LOV2 domain in phototropin1, dominant-negatively blocks phototropin1 responses. The fruits of Nps1 mutant were enriched in carotenoids, particularly lycopene, compared with its parent, Ailsa Craig. On the contrary, CRISPR/CAS9-edited loss of function phototropin1 mutants displayed subdued carotenoids compared with the parent. The enrichment of carotenoids in Nps1 fruits is genetically linked with the mutation and exerted in a dominant-negative fashion. Nps1 also altered volatile profiles with high levels of lycopene-derived 6-methyl 5-hepten2-one. The transcript levels of several MEP and carotenogenesis pathway genes were upregulated in Nps1. Nps1 fruits showed altered hormonal profiles with subdued ethylene emission and reduced respiration. Proteome profiles showed a causal link between higher carotenogenesis and increased levels of protein protection machinery, which may stabilize proteins contributing to MEP and carotenogenesis pathways. The enhancement of carotenoid content by Nps1 in a dominant-negative fashion offers a potential tool for high lycopene-bearing hybrid tomatoes.
Collapse
Affiliation(s)
- Himabindu Vasuki Kilambi
- Repository of Tomato Genomics Resources, Department of Plant Sciences, University of Hyderabad, Hyderabad, 500046, India
| | - Alekhya Dindu
- Repository of Tomato Genomics Resources, Department of Plant Sciences, University of Hyderabad, Hyderabad, 500046, India
| | - Kapil Sharma
- Repository of Tomato Genomics Resources, Department of Plant Sciences, University of Hyderabad, Hyderabad, 500046, India
| | - Narasimha Rao Nizampatnam
- Repository of Tomato Genomics Resources, Department of Plant Sciences, University of Hyderabad, Hyderabad, 500046, India
| | - Neha Gupta
- Repository of Tomato Genomics Resources, Department of Plant Sciences, University of Hyderabad, Hyderabad, 500046, India
| | - Nikhil Padmanabhan Thazath
- Repository of Tomato Genomics Resources, Department of Plant Sciences, University of Hyderabad, Hyderabad, 500046, India
| | - Ajayakumar Jaya Dhanya
- Repository of Tomato Genomics Resources, Department of Plant Sciences, University of Hyderabad, Hyderabad, 500046, India
| | - Kamal Tyagi
- Repository of Tomato Genomics Resources, Department of Plant Sciences, University of Hyderabad, Hyderabad, 500046, India
| | - Sulabha Sharma
- Repository of Tomato Genomics Resources, Department of Plant Sciences, University of Hyderabad, Hyderabad, 500046, India
| | - Sumit Kumar
- Repository of Tomato Genomics Resources, Department of Plant Sciences, University of Hyderabad, Hyderabad, 500046, India
| | - Rameshwar Sharma
- Repository of Tomato Genomics Resources, Department of Plant Sciences, University of Hyderabad, Hyderabad, 500046, India
| | - Yellamaraju Sreelakshmi
- Repository of Tomato Genomics Resources, Department of Plant Sciences, University of Hyderabad, Hyderabad, 500046, India
| |
Collapse
|
30
|
Whitbread AL, Dorn A, Röhrig S, Puchta H. Different functional roles of RTR complex factors in DNA repair and meiosis in Arabidopsis and tomato. Plant J 2021; 106:965-977. [PMID: 33619799 DOI: 10.1111/tpj.15211] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [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: 06/16/2020] [Accepted: 02/19/2021] [Indexed: 06/12/2023]
Abstract
The RTR (RecQ/Top3/Rmi1) complex has been elucidated as essential for ensuring genome stability in eukaryotes. Fundamental for the dissolution of Holliday junction (HJ)-like recombination intermediates, the factors have been shown to play further, partly distinct roles in DNA repair and homologous recombination. Across all kingdoms, disruption of this complex results in characteristic phenotypes including hyper-recombination and sensitivity to genotoxins. The type IA topoisomerase TOP3α has been shown as essential for viability in various animals. In contrast, in the model plant species Arabidopsis, the top3α mutant is viable. rmi1 mutants are deficient in the repair of DNA damage. Moreover, as opposed to other eukaryotes, TOP3α and RMI1 were found to be indispensable for proper meiotic progression, with mutants showing severe meiotic defects and sterility. We now established mutants of both TOP3α and RMI1 in tomato using CRISPR/Cas technology. Surprisingly, we found phenotypes that differed dramatically from those of Arabidopsis: the top3α mutants proved to be embryo-lethal, implying an essential role of the topoisomerase in tomato. In contrast, no defect in somatic DNA repair or meiosis was detectable for rmi1 mutants in tomato. This points to a differentiation of function of RTR complex partners between plant species. Our results indicate that there are relevant differences in the roles of basic factors involved in DNA repair and meiosis within dicotyledons, and thus should be taken as a note of caution when generalizing knowledge regarding basic biological processes obtained in the model plant Arabidopsis for the entire plant kingdom.
Collapse
Affiliation(s)
- Amy Leanne Whitbread
- Karlsruhe Institute of Technology, Botanical Institute, Fritz-Haber-Weg 4, Karlsruhe, 76133, Germany
| | - Annika Dorn
- Karlsruhe Institute of Technology, Botanical Institute, Fritz-Haber-Weg 4, Karlsruhe, 76133, Germany
| | - Sarah Röhrig
- Karlsruhe Institute of Technology, Botanical Institute, Fritz-Haber-Weg 4, Karlsruhe, 76133, Germany
| | - Holger Puchta
- Karlsruhe Institute of Technology, Botanical Institute, Fritz-Haber-Weg 4, Karlsruhe, 76133, Germany
| |
Collapse
|
31
|
Rebaque D, del Hierro I, López G, Bacete L, Vilaplana F, Dallabernardina P, Pfrengle F, Jordá L, Sánchez‐Vallet A, Pérez R, Brunner F, Molina A, Mélida H. Cell wall-derived mixed-linked β-1,3/1,4-glucans trigger immune responses and disease resistance in plants. Plant J 2021; 106:601-615. [PMID: 33544927 PMCID: PMC8252745 DOI: 10.1111/tpj.15185] [Citation(s) in RCA: 51] [Impact Index Per Article: 17.0] [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: 08/27/2020] [Revised: 01/26/2021] [Accepted: 01/28/2021] [Indexed: 05/05/2023]
Abstract
Pattern-triggered immunity (PTI) is activated in plants upon recognition by pattern recognition receptors (PRRs) of damage- and microbe-associated molecular patterns (DAMPs and MAMPs) derived from plants or microorganisms, respectively. To understand better the plant mechanisms involved in the perception of carbohydrate-based structures recognized as DAMPs/MAMPs, we have studied the ability of mixed-linked β-1,3/1,4-glucans (MLGs), present in some plant and microbial cell walls, to trigger immune responses and disease resistance in plants. A range of MLG structures were tested for their capacity to induce PTI hallmarks, such as cytoplasmic Ca2+ elevations, reactive oxygen species production, phosphorylation of mitogen-activated protein kinases and gene transcriptional reprogramming. These analyses revealed that MLG oligosaccharides are perceived by Arabidopsis thaliana and identified a trisaccharide, β-d-cellobiosyl-(1,3)-β-d-glucose (MLG43), as the smallest MLG structure triggering strong PTI responses. These MLG43-mediated PTI responses are partially dependent on LysM PRRs CERK1, LYK4 and LYK5, as they were weaker in cerk1 and lyk4 lyk5 mutants than in wild-type plants. Cross-elicitation experiments between MLG43 and the carbohydrate MAMP chitohexaose [β-1,4-d-(GlcNAc)6 ], which is also perceived by these LysM PRRs, indicated that the mechanism of MLG43 recognition could differ from that of chitohexaose, which is fully impaired in cerk1 and lyk4 lyk5 plants. MLG43 treatment confers enhanced disease resistance in A. thaliana to the oomycete Hyaloperonospora arabidopsidis and in tomato and pepper to different bacterial and fungal pathogens. Our data support the classification of MLGs as a group of carbohydrate-based molecular patterns that are perceived by plants and trigger immune responses and disease resistance.
Collapse
Affiliation(s)
- Diego Rebaque
- Centro de Biotecnología y Genómica de PlantasUniversidad Politécnica de Madrid (UPM) ‐ Instituto Nacional de Investigación y Tecnología Agraria y Alimentaria (INIA)Campus de Montegancedo UPMPozuelo de Alarcón (Madrid)Spain
- Departamento de Biotecnología‐Biología VegetalEscuela Técnica Superior de Ingeniería AgronómicaAlimentaría y de BiosistemasUPMMadridSpain
- Plant Response BiotechCentro de Empresas, Campus de Montegancedo UPMPozuelo de Alarcón (Madrid)Spain
| | - Irene del Hierro
- Centro de Biotecnología y Genómica de PlantasUniversidad Politécnica de Madrid (UPM) ‐ Instituto Nacional de Investigación y Tecnología Agraria y Alimentaria (INIA)Campus de Montegancedo UPMPozuelo de Alarcón (Madrid)Spain
- Departamento de Biotecnología‐Biología VegetalEscuela Técnica Superior de Ingeniería AgronómicaAlimentaría y de BiosistemasUPMMadridSpain
| | - Gemma López
- Centro de Biotecnología y Genómica de PlantasUniversidad Politécnica de Madrid (UPM) ‐ Instituto Nacional de Investigación y Tecnología Agraria y Alimentaria (INIA)Campus de Montegancedo UPMPozuelo de Alarcón (Madrid)Spain
| | - Laura Bacete
- Centro de Biotecnología y Genómica de PlantasUniversidad Politécnica de Madrid (UPM) ‐ Instituto Nacional de Investigación y Tecnología Agraria y Alimentaria (INIA)Campus de Montegancedo UPMPozuelo de Alarcón (Madrid)Spain
- Departamento de Biotecnología‐Biología VegetalEscuela Técnica Superior de Ingeniería AgronómicaAlimentaría y de BiosistemasUPMMadridSpain
- Present address:
Institute for BiologyFaculty of Natural SciencesNorwegian University of Science and TechnologyTrondheimNorway
| | - Francisco Vilaplana
- Division of GlycoscienceSchool of BiotechnologyRoyal Institute of Technology (KTH)StockholmSweden
| | - Pietro Dallabernardina
- Department of Biomolecular SystemsMax Planck Institute of Colloids and InterfacesPotsdamGermany
| | - Fabian Pfrengle
- Department of Biomolecular SystemsMax Planck Institute of Colloids and InterfacesPotsdamGermany
- Present address:
Department of ChemistryUniversity of Natural Resources and Life SciencesViennaAustria
| | - Lucía Jordá
- Centro de Biotecnología y Genómica de PlantasUniversidad Politécnica de Madrid (UPM) ‐ Instituto Nacional de Investigación y Tecnología Agraria y Alimentaria (INIA)Campus de Montegancedo UPMPozuelo de Alarcón (Madrid)Spain
- Departamento de Biotecnología‐Biología VegetalEscuela Técnica Superior de Ingeniería AgronómicaAlimentaría y de BiosistemasUPMMadridSpain
| | - Andrea Sánchez‐Vallet
- Centro de Biotecnología y Genómica de PlantasUniversidad Politécnica de Madrid (UPM) ‐ Instituto Nacional de Investigación y Tecnología Agraria y Alimentaria (INIA)Campus de Montegancedo UPMPozuelo de Alarcón (Madrid)Spain
| | - Rosa Pérez
- Plant Response BiotechCentro de Empresas, Campus de Montegancedo UPMPozuelo de Alarcón (Madrid)Spain
| | - Frédéric Brunner
- Plant Response BiotechCentro de Empresas, Campus de Montegancedo UPMPozuelo de Alarcón (Madrid)Spain
| | - Antonio Molina
- Centro de Biotecnología y Genómica de PlantasUniversidad Politécnica de Madrid (UPM) ‐ Instituto Nacional de Investigación y Tecnología Agraria y Alimentaria (INIA)Campus de Montegancedo UPMPozuelo de Alarcón (Madrid)Spain
- Departamento de Biotecnología‐Biología VegetalEscuela Técnica Superior de Ingeniería AgronómicaAlimentaría y de BiosistemasUPMMadridSpain
| | - Hugo Mélida
- Centro de Biotecnología y Genómica de PlantasUniversidad Politécnica de Madrid (UPM) ‐ Instituto Nacional de Investigación y Tecnología Agraria y Alimentaria (INIA)Campus de Montegancedo UPMPozuelo de Alarcón (Madrid)Spain
- Present address:
Área de Fisiología VegetalDepartamento de Ingeniería y Ciencias AgrariasUniversidad de LeónLeónSpain
| |
Collapse
|
32
|
Sharma K, Gupta S, Sarma S, Rai M, Sreelakshmi Y, Sharma R. Mutations in tomato 1-aminocyclopropane carboxylic acid synthase2 uncover its role in development beside fruit ripening. Plant J 2021; 106:95-112. [PMID: 33370496 DOI: 10.1111/tpj.15148] [Citation(s) in RCA: 11] [Impact Index Per Article: 3.7] [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: 06/26/2020] [Revised: 11/26/2020] [Accepted: 12/03/2020] [Indexed: 06/12/2023]
Abstract
The role of ethylene in plant development is mostly inferred from its exogenous application. The usage of mutants affecting ethylene biosynthesis proffers a better alternative to decipher its role. In tomato (Solanum lycopersicum), 1-aminocyclopropane carboxylic acid synthase2 (ACS2) is a key enzyme regulating ripening-specific ethylene biosynthesis. We characterised two contrasting acs2 mutants; acs2-1 overproduces ethylene, has higher ACS activity, and has increased protein levels, while acs2-2 is an ethylene underproducer, displays lower ACS activity, and has lower protein levels than wild type. Consistent with high/low ethylene emission, the mutants show opposite phenotypes, physiological responses, and metabolomic profiles compared with the wild type. The acs2-1 mutant shows early seed germination, faster leaf senescence, and accelerated fruit ripening. Conversely, acs2-2 has delayed seed germination, slower leaf senescence, and prolonged fruit ripening. The phytohormone profiles of mutants were mostly opposite in the leaves and fruits. The faster/slower senescence of acs2-1/acs2-2 leaves correlated with the endogenous ethylene/zeatin ratio. The genetic analysis showed that the metabolite profiles of respective mutants co-segregated with the homozygous mutant progeny. Our results uncover that besides ripening, ACS2 participates in the vegetative and reproductive development of tomato. The distinct influence of ethylene on phytohormone profiles indicates the intertwining of ethylene action with other phytohormones in regulating plant development.
Collapse
Affiliation(s)
- Kapil Sharma
- Repository of Tomato Genomics Resources, Department of Plant Sciences, University of Hyderabad, Hyderabad, 500046, India
| | - Soni Gupta
- Repository of Tomato Genomics Resources, Department of Plant Sciences, University of Hyderabad, Hyderabad, 500046, India
| | - Supriya Sarma
- Repository of Tomato Genomics Resources, Department of Plant Sciences, University of Hyderabad, Hyderabad, 500046, India
| | - Meenakshi Rai
- Repository of Tomato Genomics Resources, Department of Plant Sciences, University of Hyderabad, Hyderabad, 500046, India
| | - Yellamaraju Sreelakshmi
- Repository of Tomato Genomics Resources, Department of Plant Sciences, University of Hyderabad, Hyderabad, 500046, India
| | - Rameshwar Sharma
- Repository of Tomato Genomics Resources, Department of Plant Sciences, University of Hyderabad, Hyderabad, 500046, India
| |
Collapse
|
33
|
Abstract
The glycoalkaloid saponin α-tomatine is a tomato-specific secondary metabolite that accumulates to millimolar levels in vegetative tissues and has antimicrobial and antinutritional activity that kills microbial pathogens and deters herbivorous insects. We describe recent insights into the biosynthetic pathway of α-tomatine synthesis and its regulation. We discuss the mode of action of α-tomatine by physically interacting with sterols, thereby disrupting membranes, and how tomato protects itself from its toxic action. Tomato pathogenic microbes can enzymatically hydrolyze, and thereby inactivate, α-tomatine using either of three distinct types of glycosyl hydrolases. We also describe findings that extend well beyond the simple concept of plants producing toxins and pathogens inactivating them. There are reports that toxicity of α-tomatine is modulated by external pH, that α-tomatine can trigger programmed cell death in fungi, that cellular localization matters for the impact of α-tomatine on invading microbes, and that α-tomatine breakdown products generated by microbial hydrolytic enzymes can modulate plant immune responses. Finally, we address a number of outstanding questions that deserve attention in the future.
Collapse
Affiliation(s)
- Yaohua You
- Laboratory of PhytopathologyWageningen UniversityWageningen6708 PBthe Netherlands
| | - Jan A.L. van Kan
- Laboratory of PhytopathologyWageningen UniversityWageningen6708 PBthe Netherlands
| |
Collapse
|
34
|
Sharma K, Gupta S, Sarma S, Rai M, Sreelakshmi Y, Sharma R. Mutations in tomato 1-aminocyclopropane carboxylic acid synthase2 uncover its role in development beside fruit ripening. Plant J 2021; 106:95-112. [PMID: 33370496 DOI: 10.1101/2020.05.12.090431] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [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: 06/26/2020] [Revised: 11/26/2020] [Accepted: 12/03/2020] [Indexed: 05/24/2023]
Abstract
The role of ethylene in plant development is mostly inferred from its exogenous application. The usage of mutants affecting ethylene biosynthesis proffers a better alternative to decipher its role. In tomato (Solanum lycopersicum), 1-aminocyclopropane carboxylic acid synthase2 (ACS2) is a key enzyme regulating ripening-specific ethylene biosynthesis. We characterised two contrasting acs2 mutants; acs2-1 overproduces ethylene, has higher ACS activity, and has increased protein levels, while acs2-2 is an ethylene underproducer, displays lower ACS activity, and has lower protein levels than wild type. Consistent with high/low ethylene emission, the mutants show opposite phenotypes, physiological responses, and metabolomic profiles compared with the wild type. The acs2-1 mutant shows early seed germination, faster leaf senescence, and accelerated fruit ripening. Conversely, acs2-2 has delayed seed germination, slower leaf senescence, and prolonged fruit ripening. The phytohormone profiles of mutants were mostly opposite in the leaves and fruits. The faster/slower senescence of acs2-1/acs2-2 leaves correlated with the endogenous ethylene/zeatin ratio. The genetic analysis showed that the metabolite profiles of respective mutants co-segregated with the homozygous mutant progeny. Our results uncover that besides ripening, ACS2 participates in the vegetative and reproductive development of tomato. The distinct influence of ethylene on phytohormone profiles indicates the intertwining of ethylene action with other phytohormones in regulating plant development.
Collapse
Affiliation(s)
- Kapil Sharma
- Repository of Tomato Genomics Resources, Department of Plant Sciences, University of Hyderabad, Hyderabad, 500046, India
| | - Soni Gupta
- Repository of Tomato Genomics Resources, Department of Plant Sciences, University of Hyderabad, Hyderabad, 500046, India
| | - Supriya Sarma
- Repository of Tomato Genomics Resources, Department of Plant Sciences, University of Hyderabad, Hyderabad, 500046, India
| | - Meenakshi Rai
- Repository of Tomato Genomics Resources, Department of Plant Sciences, University of Hyderabad, Hyderabad, 500046, India
| | - Yellamaraju Sreelakshmi
- Repository of Tomato Genomics Resources, Department of Plant Sciences, University of Hyderabad, Hyderabad, 500046, India
| | - Rameshwar Sharma
- Repository of Tomato Genomics Resources, Department of Plant Sciences, University of Hyderabad, Hyderabad, 500046, India
| |
Collapse
|
35
|
Israeli A, Ben-Herzel O, Burko Y, Shwartz I, Ben-Gera H, Harpaz-Saad S, Bar M, Efroni I, Ori N. Coordination of differentiation rate and local patterning in compound-leaf development. New Phytol 2021; 229:3558-3572. [PMID: 33259078 DOI: 10.1111/nph.17124] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [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: 08/17/2020] [Accepted: 11/24/2020] [Indexed: 06/12/2023]
Abstract
The variability in leaf form in nature is immense. Leaf patterning occurs by differential growth, taking place during a limited window of morphogenetic activity at the leaf marginal meristem. While many regulators have been implicated in the designation of the morphogenetic window and in leaf patterning, how these effectors interact to generate a particular form is still not well understood. We investigated the interaction among different effectors of tomato (Solanum lycopersicum) compound-leaf development, using genetic and molecular analyses. Mutations in the tomato auxin response factor SlARF5/SlMP, which normally promotes leaflet formation, suppressed the increased leaf complexity of mutants with extended morphogenetic window. Impaired activity of the NAC/CUC transcription factor GOBLET (GOB), which specifies leaflet boundaries, also reduced leaf complexity in these backgrounds. Analysis of genetic interactions showed that the patterning factors SlMP, GOB and the MYB transcription factor LYRATE (LYR) coordinately regulate leaf patterning by modulating in parallel different aspects of leaflet formation and shaping. This work places an array of developmental regulators in a morphogenetic context. It reveals how organ-level differentiation rate and local growth are coordinated to sculpture an organ. These concepts are applicable to the coordination of pattering and differentiation in other species and developmental processes.
Collapse
Affiliation(s)
- Alon Israeli
- The Robert H. Smith Institute of Plant Sciences and Genetics in Agriculture, Hebrew University, PO Box 12, Rehovot, 76100, Israel
| | - Ori Ben-Herzel
- The Robert H. Smith Institute of Plant Sciences and Genetics in Agriculture, Hebrew University, PO Box 12, Rehovot, 76100, Israel
| | - Yogev Burko
- The Robert H. Smith Institute of Plant Sciences and Genetics in Agriculture, Hebrew University, PO Box 12, Rehovot, 76100, Israel
- Howard Hughes Medical Institute, Salk Institute for Biological Studies, La Jolla, CA, 92037, USA
- Plant Biology Laboratory, Salk Institute for Biological Studies, 10010 North Torrey Pines Road, La Jolla, CA, 92037, USA
| | - Ido Shwartz
- The Robert H. Smith Institute of Plant Sciences and Genetics in Agriculture, Hebrew University, PO Box 12, Rehovot, 76100, Israel
| | - Hadas Ben-Gera
- The Robert H. Smith Institute of Plant Sciences and Genetics in Agriculture, Hebrew University, PO Box 12, Rehovot, 76100, Israel
- Unit of Aromatic and Medicinal Plants, Newe Ya'ar Research Center, Agricultural Research Organization, PO Box 102, Ramat Yishay, 30095, Israel
| | - Smadar Harpaz-Saad
- The Robert H. Smith Institute of Plant Sciences and Genetics in Agriculture, Hebrew University, PO Box 12, Rehovot, 76100, Israel
| | - Maya Bar
- The Robert H. Smith Institute of Plant Sciences and Genetics in Agriculture, Hebrew University, PO Box 12, Rehovot, 76100, Israel
- Department of Plant Pathology and Weed Research, Agricultural Research Organization, The Volcani Center, 68 HaMaccabim Road, Rishon LeZion, 7505101, Israel
| | - Idan Efroni
- The Robert H. Smith Institute of Plant Sciences and Genetics in Agriculture, Hebrew University, PO Box 12, Rehovot, 76100, Israel
| | - Naomi Ori
- The Robert H. Smith Institute of Plant Sciences and Genetics in Agriculture, Hebrew University, PO Box 12, Rehovot, 76100, Israel
| |
Collapse
|
36
|
Burgos E, Belen De Luca M, Diouf I, de Haro LA, Albert E, Sauvage C, Tao ZJ, Bermudez L, Asís R, Nesi AN, Matringe M, Bréhélin C, Guiraud T, Ferrand C, Atienza I, Jorly J, Mauxion JP, Baldet P, Fernie AR, Quadrana L, Rothan C, Causse M, Carrari F. Validated MAGIC and GWAS population mapping reveals the link between vitamin E content and natural variation in chorismate metabolism in tomato. Plant J 2021; 105:907-923. [PMID: 33179365 DOI: 10.1111/tpj.15077] [Citation(s) in RCA: 4] [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: 07/31/2020] [Accepted: 10/27/2020] [Indexed: 05/21/2023]
Abstract
Tocochromanols constitute the different forms of vitamin E (VTE), essential components of the human diet, and display a high membrane protectant activity. By combining interval mapping and genome-wide association studies (GWAS), we unveiled the genetic determinants of tocochromanol accumulation in tomato (Solanum lycopersicum) fruits. To enhance the nutritional value of this highly consumed vegetable, we dissected the natural intraspecific variability of tocochromanols in tomato fruits and genetically engineered their biosynthetic pathway. These analyses allowed the identification of a total of 25 quantitative trait loci interspersed across the genome pinpointing the chorismate-tyrosine pathway as a regulatory hub controlling the supply of the aromatic head group for tocochromanol biosynthesis. To validate the link between the chorismate-tyrosine pathway and VTE, we engineered tomato plants to bypass the pathway at the arogenate branch point. Transgenic tomatoes showed moderate increments in tocopherols (up to approximately 20%) and a massive accumulation of tocotrienols (up to approximately 3400%). Gene expression analyses of these plants reveal a trade-off between VTE and natural variation in chorismate metabolism explained by transcriptional reprogramming of specific structural genes of the pathway. By restoring the accumulation of alpha-tocotrienols (α-t3) in fruits, the plants produced here are of high pharmacological and nutritional interest.
Collapse
Affiliation(s)
- Estanislao Burgos
- Instituto de Fisiología, Biología Molecular y Neurociencias (IFIBYNE-UBA-CONICET), Universidad de Buenos Aires, Ciudad Universitaria, Buenos Aires, C1428EHA, Argentina
| | - Maria Belen De Luca
- Instituto de Fisiología, Biología Molecular y Neurociencias (IFIBYNE-UBA-CONICET), Universidad de Buenos Aires, Ciudad Universitaria, Buenos Aires, C1428EHA, Argentina
| | - Isidore Diouf
- INRAE, Génétique et Amélioration des Fruits et Légumes, Centre de Recherche PACA, 67 Allée des Chênes, Domaine Saint Maurice CS60094, Montfavet, 84143, France
| | - Luis A de Haro
- Instituto de Fisiología, Biología Molecular y Neurociencias (IFIBYNE-UBA-CONICET), Universidad de Buenos Aires, Ciudad Universitaria, Buenos Aires, C1428EHA, Argentina
| | - Elise Albert
- Department of Biochemistry and Molecular Biology, Michigan State University, East Lansing, MI, USA
| | | | - Zhao J Tao
- INRAE, Génétique et Amélioration des Fruits et Légumes, Centre de Recherche PACA, 67 Allée des Chênes, Domaine Saint Maurice CS60094, Montfavet, 84143, France
| | - Luisa Bermudez
- Instituto de Biotecnología, Instituto Nacional de Tecnología Agropecuaria, and Consejo Nacional de Investigaciones Científicas y Técnicas, PO Box 25, Castelar, B1712WAA, Argentina
- Facultad de Agronomía, Cátedra de Genética, Universidad de Buenos Aires, Buenos Aires, Argentina
| | - Ramon Asís
- CIBICI, Facultad de Ciencias Químicas, Universidad Nacional de Córdoba, Córdoba, CC, 5000, Argentina
| | - Adriano N Nesi
- Departamento de Biologia Vegetal, Universidade Federal de Viçosa, Viçosa, Minas Gerais, 36570-900, Brazil
| | - Michel Matringe
- Laboratoire de Physiologie Cellulaire Végétale, Unité Mixte de Recherche 5168 CNRS-CEA-INRAE, Université Joseph Fourier, CEA Grenoble, PCV, Grenoble Cedex 9, Grenoble, 38054, France
| | - Claire Bréhélin
- Laboratoire de Physiologie Cellulaire Végétale, Unité Mixte de Recherche 5168 CNRS-CEA-INRAE, Université Joseph Fourier, CEA Grenoble, PCV, Grenoble Cedex 9, Grenoble, 38054, France
| | - Thomas Guiraud
- Univ. Bordeaux, Biologie du Fruit et Pathologie, INRAE, Villenave d'OrnoF-33140, Villenave d'Ornon Cedex, UMR 1332, France
| | - Carine Ferrand
- Univ. Bordeaux, Biologie du Fruit et Pathologie, INRAE, Villenave d'OrnoF-33140, Villenave d'Ornon Cedex, UMR 1332, France
| | - Isabelle Atienza
- Univ. Bordeaux, Biologie du Fruit et Pathologie, INRAE, Villenave d'OrnoF-33140, Villenave d'Ornon Cedex, UMR 1332, France
| | - Joana Jorly
- Univ. Bordeaux, Biologie du Fruit et Pathologie, INRAE, Villenave d'OrnoF-33140, Villenave d'Ornon Cedex, UMR 1332, France
| | - Jean P Mauxion
- Univ. Bordeaux, Biologie du Fruit et Pathologie, INRAE, Villenave d'OrnoF-33140, Villenave d'Ornon Cedex, UMR 1332, France
| | - Pierre Baldet
- Univ. Bordeaux, Biologie du Fruit et Pathologie, INRAE, Villenave d'OrnoF-33140, Villenave d'Ornon Cedex, UMR 1332, France
| | - Alisdair R Fernie
- Institute of Molecular Plant Physiology, Max-Planck, Am Muehlenberg 1, Potsdam-Golm, 14476, Germany
| | - Leandro Quadrana
- Centre National de la Recherche Scientifique (CNRS), Institut de Biologie de l'Ecole Normale Supérieure (IBENS), Ecole Normale Supérieure, Institut National de la Santé et de la Recherche Médicale (INSERM), Paris, F-75005, France
| | - Christophe Rothan
- Univ. Bordeaux, Biologie du Fruit et Pathologie, INRAE, Villenave d'OrnoF-33140, Villenave d'Ornon Cedex, UMR 1332, France
| | - Mathilde Causse
- INRAE, Génétique et Amélioration des Fruits et Légumes, Centre de Recherche PACA, 67 Allée des Chênes, Domaine Saint Maurice CS60094, Montfavet, 84143, France
| | - Fernando Carrari
- Instituto de Fisiología, Biología Molecular y Neurociencias (IFIBYNE-UBA-CONICET), Universidad de Buenos Aires, Ciudad Universitaria, Buenos Aires, C1428EHA, Argentina
- Facultad de Agronomía, Cátedra de Genética, Universidad de Buenos Aires, Buenos Aires, Argentina
| |
Collapse
|
37
|
Ramon U, Weiss D, Illouz-Eliaz N. Underground gibberellin activity: differential gibberellin response in tomato shoots and roots. New Phytol 2021; 229:1196-1200. [PMID: 32790883 DOI: 10.1111/nph.16876] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/28/2020] [Accepted: 08/04/2020] [Indexed: 06/11/2023]
Affiliation(s)
- Uria Ramon
- Institute of Plant Sciences and Genetics in Agriculture, The Robert H. Smith Faculty of Agriculture, Food and Environment, The Hebrew University of Jerusalem, PO Box 12, Rehovot, 76100, Israel
| | - David Weiss
- Institute of Plant Sciences and Genetics in Agriculture, The Robert H. Smith Faculty of Agriculture, Food and Environment, The Hebrew University of Jerusalem, PO Box 12, Rehovot, 76100, Israel
| | - Natanella Illouz-Eliaz
- Institute of Plant Sciences and Genetics in Agriculture, The Robert H. Smith Faculty of Agriculture, Food and Environment, The Hebrew University of Jerusalem, PO Box 12, Rehovot, 76100, Israel
| |
Collapse
|
38
|
Lu Y, Song Y, Liu L, Wang T. DNA methylation dynamics of sperm cell lineage development in tomato. Plant J 2021; 105:565-579. [PMID: 33249677 DOI: 10.1111/tpj.15098] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [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: 01/31/2020] [Revised: 11/16/2020] [Accepted: 11/23/2020] [Indexed: 06/12/2023]
Abstract
During the sexual reproduction of higher plants, DNA methylation and transcription are broadly changed to reshape a microspore into two sperm cells (SCs) and a vegetative cell (VC). However, when and how the DNA methylation of SCs is established remains not fully understood. Here we investigate the DNA methylation (5 mC) dynamics of SC lineage and the VC in tomato using whole-genome bisulfite sequencing. We find the asymmetric division of the microspore gives its two daughter cells differential methylome. Compared with the generative cell (GC), the VC is hypomethylated at CG sites while hypermethylated at CHG and CHH sites, with the majority of differentially methylation regions targeted to transposable elements (TEs). SCs have a nearly identical DNA methylome to the GC, suggesting that the methylation landscape in SCs may be pre-established following the asymmetric division or inherited from the GC. The random forest classifier for predicting gene and TE expression shows that methylation within the gene body is a more powerful predictor for gene expression. Among all tested samples, gene and TE expression in the microspore may be more predictable by DNA methylation. Our results depict an intact DNA methylome landscape of SC lineage in higher plants, and reveal that the impact of DNA methylation on transcription is variant in different cell types.
Collapse
Affiliation(s)
- Yunlong Lu
- Key Laboratory of Plant Molecular Physiology, Institute of Botany, Chinese Academy of Sciences, Beijing, 100093, China
- College of Life Science, University of Chinese Academy of Sciences, Beijing, 100093, China
| | - Yunyun Song
- Key Laboratory of Plant Molecular Physiology, Institute of Botany, Chinese Academy of Sciences, Beijing, 100093, China
- College of Life Science, University of Chinese Academy of Sciences, Beijing, 100093, China
| | - Lingtong Liu
- Key Laboratory of Plant Molecular Physiology, Institute of Botany, Chinese Academy of Sciences, Beijing, 100093, China
| | - Tai Wang
- Key Laboratory of Plant Molecular Physiology, Institute of Botany, Chinese Academy of Sciences, Beijing, 100093, China
- College of Life Science, University of Chinese Academy of Sciences, Beijing, 100093, China
- Innovative Academy of Seed Design, Chinese Academy of Sciences, Beijing, 100093, China
| |
Collapse
|
39
|
Hu G, Huang B, Wang K, Frasse P, Maza E, Djari A, Benhamed M, Gallusci P, Li Z, Zouine M, Bouzayen M. Histone posttranslational modifications rather than DNA methylation underlie gene reprogramming in pollination-dependent and pollination-independent fruit set in tomato. New Phytol 2021; 229:902-919. [PMID: 32875585 PMCID: PMC7821339 DOI: 10.1111/nph.16902] [Citation(s) in RCA: 20] [Impact Index Per Article: 6.7] [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: 06/18/2020] [Accepted: 08/10/2020] [Indexed: 05/10/2023]
Abstract
Fruit formation comprises a series of developmental transitions among which the fruit set process is essential in determining crop yield. Yet, our understanding of the epigenetic landscape remodelling associated with the flower-to-fruit transition remains poor. We investigated the epigenetic and transcriptomic reprogramming underlying pollination-dependent and auxin-induced flower-to-fruit transitions in the tomato (Solanum lycopersicum) using combined genomewide transcriptomic profiling, global ChIP-sequencing and whole genomic DNA bisulfite sequencing (WGBS). Variation in the expression of the overwhelming majority of genes was associated with change in histone mark distribution, whereas changes in DNA methylation concerned a minor fraction of differentially expressed genes. Reprogramming of genes involved in processes instrumental to fruit set correlated with their H3K9ac or H3K4me3 marking status but not with changes in cytosine methylation, indicating that histone posttranslational modifications rather than DNA methylation are associated with the remodelling of the epigenetic landscape underpinning the flower-to-fruit transition. Given the prominent role previously assigned to DNA methylation in reprogramming key genes of the transition to ripening, the outcome of the present study supports the idea that the two main developmental transitions in fleshy fruit and the underlying transcriptomic reprogramming are associated with different modes of epigenetic regulations.
Collapse
Affiliation(s)
- Guojian Hu
- UMR990 Génomique et Biotechnologie des FruitsINRAe/INP ToulouseUniversité de ToulouseAvenue de l’AgrobiopoleCastanet‐TolosanCS32607, F‐31326France
| | - Baowen Huang
- UMR990 Génomique et Biotechnologie des FruitsINRAe/INP ToulouseUniversité de ToulouseAvenue de l’AgrobiopoleCastanet‐TolosanCS32607, F‐31326France
| | - Keke Wang
- UMR990 Génomique et Biotechnologie des FruitsINRAe/INP ToulouseUniversité de ToulouseAvenue de l’AgrobiopoleCastanet‐TolosanCS32607, F‐31326France
| | - Pierre Frasse
- UMR990 Génomique et Biotechnologie des FruitsINRAe/INP ToulouseUniversité de ToulouseAvenue de l’AgrobiopoleCastanet‐TolosanCS32607, F‐31326France
| | - Elie Maza
- UMR990 Génomique et Biotechnologie des FruitsINRAe/INP ToulouseUniversité de ToulouseAvenue de l’AgrobiopoleCastanet‐TolosanCS32607, F‐31326France
| | - Anis Djari
- UMR990 Génomique et Biotechnologie des FruitsINRAe/INP ToulouseUniversité de ToulouseAvenue de l’AgrobiopoleCastanet‐TolosanCS32607, F‐31326France
| | - Moussa Benhamed
- Institute of Plant Sciences Paris‐SaclayCNRSINRAUniversity Paris‐SudUniversity of EvryUniversity Paris‐DiderotSorbonne Paris‐CiteUniversity of Paris‐SaclayBatiment 630Orsay91405France
| | - Philippe Gallusci
- UMR EGFVBordeaux Sciences AgroINRAUniversité de Bordeaux210 Chemin de Leysotte, CS 50008Villenave d’Ornon33882France
| | - Zhengguo Li
- Center of Plant Functional GenomicsInstitute of Advanced Interdisciplinary StudiesChongqing UniversityChongqing401331China
| | - Mohamed Zouine
- UMR990 Génomique et Biotechnologie des FruitsINRAe/INP ToulouseUniversité de ToulouseAvenue de l’AgrobiopoleCastanet‐TolosanCS32607, F‐31326France
| | - Mondher Bouzayen
- UMR990 Génomique et Biotechnologie des FruitsINRAe/INP ToulouseUniversité de ToulouseAvenue de l’AgrobiopoleCastanet‐TolosanCS32607, F‐31326France
- Center of Plant Functional GenomicsInstitute of Advanced Interdisciplinary StudiesChongqing UniversityChongqing401331China
| |
Collapse
|
40
|
Cao H, Chen J, Yue M, Xu C, Jian W, Liu Y, Song B, Gao Y, Cheng Y, Li Z. Tomato transcriptional repressor MYB70 directly regulates ethylene-dependent fruit ripening. Plant J 2020; 104:1568-1581. [PMID: 33048422 DOI: 10.1111/tpj.15021] [Citation(s) in RCA: 34] [Impact Index Per Article: 8.5] [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: 11/20/2019] [Revised: 09/04/2020] [Accepted: 09/17/2020] [Indexed: 05/02/2023]
Abstract
Ethylene is a key plant hormone controlling the ripening of climacteric fruits, and several transcription factors acting as important regulators of fruit ripening have been identified in tomato (Solanum lycopersicum), a model for climacteric fruits. The vast majority of these transcription factors are transcriptional activators, however, and the associated transcriptional regulatory mechanisms of most regulators are unclear. Here, we report on a tomato transcriptional repressor (termed SlMYB70) that negatively regulates fruit ripening by directly modulating ethylene biosynthesis. As an EAR motif-containing MYB transcription factor-encoding gene, SlMYB70 displayed a ripening-associated expression pattern and was responsive to ethylene. RNA interference (RNAi)-mediated repression of SlMYB70 accelerated fruit ripening, but overexpression of SlMYB70 delayed fruit ripening. Ethylene production was noticeably increased and decreased in SlMYB70-RNAi and SlMYB70-overexpressing lines, respectively, compared with wild-type tomatoes. SlMYB70 was proven to be a transcriptional repressor, dependent on the EAR repression motif, and to repress the transcription of two ethylene biosynthesis genes in fruit ripening, namely SlACS2 and SlACO3. The promoters of SlACS2 and SlACO3 are directly bound by SlMYB70, which was verified using a combination of yeast one-hybrid chromatin immunoprecipitation quantitative polymerase chain reaction and electrophoretic mobility shift assays. These results suggest that SlMYB70 negatively regulates fruit ripening via the direct transcriptional repression of ethylene biosynthesis genes, which provides insights into the ethylene-mediated key regulatory hierarchy in climacteric fruit ripening, and also highlights different types of transcriptional regulation of fruit ripening.
Collapse
Affiliation(s)
- Haohao Cao
- Key Laboratory of Plant Hormones and Development Regulation of Chongqing, School of Life Sciences, Chongqing University, Chongqing, 401331, China
- Center of Plant Functional Genomics, Institute of Advanced Interdisciplinary Studies, Chongqing University, Chongqing, 401331, China
| | - Jing Chen
- Key Laboratory of Plant Hormones and Development Regulation of Chongqing, School of Life Sciences, Chongqing University, Chongqing, 401331, China
- Center of Plant Functional Genomics, Institute of Advanced Interdisciplinary Studies, Chongqing University, Chongqing, 401331, China
| | - Min Yue
- Key Laboratory of Plant Hormones and Development Regulation of Chongqing, School of Life Sciences, Chongqing University, Chongqing, 401331, China
- Center of Plant Functional Genomics, Institute of Advanced Interdisciplinary Studies, Chongqing University, Chongqing, 401331, China
| | - Chan Xu
- Key Laboratory of Plant Hormones and Development Regulation of Chongqing, School of Life Sciences, Chongqing University, Chongqing, 401331, China
- Center of Plant Functional Genomics, Institute of Advanced Interdisciplinary Studies, Chongqing University, Chongqing, 401331, China
| | - Wei Jian
- Key Laboratory of Plant Hormones and Development Regulation of Chongqing, School of Life Sciences, Chongqing University, Chongqing, 401331, China
- Center of Plant Functional Genomics, Institute of Advanced Interdisciplinary Studies, Chongqing University, Chongqing, 401331, China
| | - Yudong Liu
- Key Laboratory of Plant Hormones and Development Regulation of Chongqing, School of Life Sciences, Chongqing University, Chongqing, 401331, China
- Center of Plant Functional Genomics, Institute of Advanced Interdisciplinary Studies, Chongqing University, Chongqing, 401331, China
| | - Bangqian Song
- Key Laboratory of Plant Hormones and Development Regulation of Chongqing, School of Life Sciences, Chongqing University, Chongqing, 401331, China
- Center of Plant Functional Genomics, Institute of Advanced Interdisciplinary Studies, Chongqing University, Chongqing, 401331, China
| | - Yanqiang Gao
- Key Laboratory of Plant Hormones and Development Regulation of Chongqing, School of Life Sciences, Chongqing University, Chongqing, 401331, China
- Center of Plant Functional Genomics, Institute of Advanced Interdisciplinary Studies, Chongqing University, Chongqing, 401331, China
| | - Yulin Cheng
- Key Laboratory of Plant Hormones and Development Regulation of Chongqing, School of Life Sciences, Chongqing University, Chongqing, 401331, China
- Center of Plant Functional Genomics, Institute of Advanced Interdisciplinary Studies, Chongqing University, Chongqing, 401331, China
| | - Zhengguo Li
- Key Laboratory of Plant Hormones and Development Regulation of Chongqing, School of Life Sciences, Chongqing University, Chongqing, 401331, China
- Center of Plant Functional Genomics, Institute of Advanced Interdisciplinary Studies, Chongqing University, Chongqing, 401331, China
| |
Collapse
|
41
|
Zhao J, Mejias J, Quentin M, Chen Y, de Almeida-Engler J, Mao Z, Sun Q, Liu Q, Xie B, Abad P, Favery B, Jian H. The root-knot nematode effector MiPDI1 targets a stress-associated protein (SAP) to establish disease in Solanaceae and Arabidopsis. New Phytol 2020; 228:1417-1430. [PMID: 32542658 DOI: 10.1111/nph.16745] [Citation(s) in RCA: 5] [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: 04/09/2020] [Accepted: 06/02/2020] [Indexed: 05/11/2023]
Abstract
Large amounts of effectors are secreted by the oesophageal glands of plant-parasitic nematodes, but their molecular mode of action remains largely unknown. We characterized a Meloidogyne incognita protein disulphide isomerase (PDI)-like effector protein (MiPDI1) that facilitates nematode parasitism. In situ hybridization showed that MiPDI1 was expressed specifically in the subventral glands of M. incognita. It was significantly upregulated during parasitic stages. Immunolocalization demonstrated MiPDI1 secretion in planta during nematode migration and within the feeding cells. Host-induced silencing of the MiPDI1 gene affected the ability of the nematode to infect the host, whereas MiPDI1 expression in Arabidopsis increased susceptibility to M. incognita, providing evidence for a key role of MiPDI1 in M. incognita parasitism. Yeast two-hybrid, bimolecular fluorescence complementation and coimmunoprecipitation assays showed that MiPDI1 interacted with a tomato stress-associated protein (SlSAP12) orthologous to the redox-regulated AtSAP12, which plays an important role in plant responses to abiotic and biotic stresses. SAP12 silencing or knocking out in Nicotiana benthamiana and Arabidopsis increased susceptibility to M. incognita. Our results suggest that MiPDI1 acts as a pathogenicity factor promoting disease by fine-tuning SAP-mediated responses at the interface of redox signalling, defence and stress acclimation in Solanaceae and Arabidopsis.
Collapse
Affiliation(s)
- Jianlong Zhao
- Department of Plant Pathology and Key Laboratory of Pest Monitoring and Green Management of the Ministry of Agriculture, China Agricultural University, Beijing, 100193, China
- Institute of Vegetables and Flowers, Chinese Academy of Agricultural Science, Beijing, 100081, China
- INRAE, CNRS, ISA, Université Côte d'Azur, Sophia Antipolis, F-06903, France
| | - Joffrey Mejias
- INRAE, CNRS, ISA, Université Côte d'Azur, Sophia Antipolis, F-06903, France
| | - Michaël Quentin
- INRAE, CNRS, ISA, Université Côte d'Azur, Sophia Antipolis, F-06903, France
| | - Yongpan Chen
- Department of Plant Pathology and Key Laboratory of Pest Monitoring and Green Management of the Ministry of Agriculture, China Agricultural University, Beijing, 100193, China
- INRAE, CNRS, ISA, Université Côte d'Azur, Sophia Antipolis, F-06903, France
| | | | - Zhenchuan Mao
- Institute of Vegetables and Flowers, Chinese Academy of Agricultural Science, Beijing, 100081, China
| | - Qinghua Sun
- Institute of Vegetables and Flowers, Chinese Academy of Agricultural Science, Beijing, 100081, China
| | - Qian Liu
- Department of Plant Pathology and Key Laboratory of Pest Monitoring and Green Management of the Ministry of Agriculture, China Agricultural University, Beijing, 100193, China
| | - Bingyan Xie
- Institute of Vegetables and Flowers, Chinese Academy of Agricultural Science, Beijing, 100081, China
| | - Pierre Abad
- INRAE, CNRS, ISA, Université Côte d'Azur, Sophia Antipolis, F-06903, France
| | - Bruno Favery
- INRAE, CNRS, ISA, Université Côte d'Azur, Sophia Antipolis, F-06903, France
| | - Heng Jian
- Department of Plant Pathology and Key Laboratory of Pest Monitoring and Green Management of the Ministry of Agriculture, China Agricultural University, Beijing, 100193, China
| |
Collapse
|
42
|
Hooper CM, Castleden IR, Aryamanesh N, Black K, Grasso SV, Millar AH. CropPAL for discovering divergence in protein subcellular location in crops to support strategies for molecular crop breeding. Plant J 2020; 104:812-827. [PMID: 32780488 DOI: 10.1111/tpj.14961] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.0] [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: 06/16/2020] [Revised: 06/16/2020] [Accepted: 07/06/2020] [Indexed: 06/11/2023]
Abstract
Agriculture faces increasing demand for yield, higher plant-derived protein content and diversity while facing pressure to achieve sustainability. Although the genomes of many of the important crops have been sequenced, the subcellular locations of most of the encoded proteins remain unknown or are only predicted. Protein subcellular location is crucial in determining protein function and accumulation patterns in plants, and is critical for targeted improvements in yield and resilience. Integrating location data from over 800 studies for 12 major crop species into the cropPAL2020 data collection showed that while >80% of proteins in most species are not localised by experimental data, combining species data or integrating predictions can help bridge gaps at similar accuracy. The collation and integration of over 61 505 experimental localisations and more than 6 million predictions showed that the relative sizes of the protein catalogues located in different subcellular compartments are comparable between crops and Arabidopsis. A comprehensive cross-species comparison showed that between 50% and 80% of the subcellulomes are conserved across species and that conservation only depends to some degree on the phylogenetic relationship of the species. Protein subcellular locations in major biosynthesis pathways are more often conserved than in metabolic pathways. Underlying this conservation is a clear potential for subcellular diversity in protein location between species by means of gene duplication and alternative splicing. Our cropPAL data set and search platform (https://crop-pal.org) provide a comprehensive subcellular proteomics resource to drive compartmentation-based approaches for improving yield, protein composition and resilience in future crop varieties.
Collapse
Affiliation(s)
- Cornelia M Hooper
- ARC Centre of Excellence in Plant Energy Biology, The University of Western Australia, Crawley, WA, 6009, Australia
| | - Ian R Castleden
- ARC Centre of Excellence in Plant Energy Biology, The University of Western Australia, Crawley, WA, 6009, Australia
| | - Nader Aryamanesh
- Precision Medicine Theme, South Australian Health and Medical Research Institute, Adelaide, SA, 5000, Australia
- Robinson Research Institute and Adelaide Health and Medical Sciences, University of Adelaide, Adelaide, SA, 5000, Australia
| | - Kylie Black
- University Library, The University of Western Australia, Crawley, WA, 6009, Australia
| | - Sally V Grasso
- ARC Centre of Excellence in Plant Energy Biology, The University of Western Australia, Crawley, WA, 6009, Australia
| | - A Harvey Millar
- ARC Centre of Excellence in Plant Energy Biology, The University of Western Australia, Crawley, WA, 6009, Australia
| |
Collapse
|
43
|
Du F, Mo Y, Israeli A, Wang Q, Yifhar T, Ori N, Jiao Y. Leaflet initiation and blade expansion are separable in compound leaf development. Plant J 2020; 104:1073-1087. [PMID: 32889762 DOI: 10.1111/tpj.14982] [Citation(s) in RCA: 15] [Impact Index Per Article: 3.8] [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: 01/15/2020] [Revised: 08/12/2020] [Accepted: 08/17/2020] [Indexed: 06/11/2023]
Abstract
Compound leaves are composed of multiple separate blade units termed leaflets. In tomato (Solanum lycopersicum) compound leaves, auxin promotes both leaflet initiation and blade expansion. However, it is unclear how these two developmental processes interact. With highly variable complexity, tomato compound leaves provide an ideal system to address this question. In this study, we obtained and analyzed mutants of the WUSCHEL-RELATED HOMEOBOX (WOX) family gene SlLAM1 from tomato, whose orthologs in tobacco (Nicotiana sylvestris) and other species are indispensable for blade expansion. We show that SlLAM1 is expressed in the middle and marginal domains of leaves, and is required for blade expansion in leaflets. We demonstrate that sllam1 mutants cause a delay of leaflet initiation and slightly alter the arrangement of first-order leaflets, whereas the overall leaflet number is comparable to that of wild-type leaves. Analysis of the genetic interactions between SlLAM1 and key auxin signaling components revealed an epistatic effect of SlLAM1 in determining the final leaf form. Finally, we show that SlLAM1 is also required for floral organ growth and affects the fertility of gametophytes. Our data suggest that SlLAM1 promotes blade expansion in multiple leaf types, and leaflet initiation can be largely uncoupled from blade expansion during compound leaf morphogenesis.
Collapse
Affiliation(s)
- Fei Du
- State Key Laboratory of Plant Genomics and National Center for Plant Gene Research (Beijing), Institute of Genetics and Developmental Biology, The Innovative Academy of Seed Design, Chinese Academy of Sciences, Beijing, 100101, China
| | - Yajin Mo
- State Key Laboratory of Plant Genomics and National Center for Plant Gene Research (Beijing), Institute of Genetics and Developmental Biology, The Innovative Academy of Seed Design, Chinese Academy of Sciences, Beijing, 100101, China
- University of Chinese Academy of Sciences, Beijing, 100049, China
| | - Alon Israeli
- The Robert H. Smith Institute of Plant Sciences and Genetics in Agriculture, Hebrew University, PO Box 12, Rehovot, 76100, Israel
| | - Qingqing Wang
- State Key Laboratory of Plant Genomics and National Center for Plant Gene Research (Beijing), Institute of Genetics and Developmental Biology, The Innovative Academy of Seed Design, Chinese Academy of Sciences, Beijing, 100101, China
- University of Chinese Academy of Sciences, Beijing, 100049, China
| | - Tamar Yifhar
- Department of Plant and Environmental Sciences, Weizmann Institute of Science, Rehovot, 7610001, Israel
| | - Naomi Ori
- The Robert H. Smith Institute of Plant Sciences and Genetics in Agriculture, Hebrew University, PO Box 12, Rehovot, 76100, Israel
| | - Yuling Jiao
- State Key Laboratory of Plant Genomics and National Center for Plant Gene Research (Beijing), Institute of Genetics and Developmental Biology, The Innovative Academy of Seed Design, Chinese Academy of Sciences, Beijing, 100101, China
- University of Chinese Academy of Sciences, Beijing, 100049, China
| |
Collapse
|
44
|
Butcher CL, Rubin BY, Anderson SL, Lewis JD. Pollen dispersal patterns differ among sites for a wind-pollinated species and an insect-pollinated species. Am J Bot 2020; 107:1504-1517. [PMID: 33108685 DOI: 10.1002/ajb2.1554] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [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: 02/10/2020] [Accepted: 07/23/2020] [Indexed: 06/11/2023]
Abstract
PREMISE Pollen dispersal, the main component of overall plant gene flow, generally decreases with increasing distance from the pollen source, but the pattern of this relationship may differ among sites. Although site-based differences in pollen dispersal may lead to over- or underestimation of gene flow, no studies have investigated pollen dispersal patterns among differing urban site types, despite the incongruent range of habitats in urban areas. METHODS We used paternity assignment to assess pollen dispersal patterns in a wind-pollinated species (waterhemp; Amaranthus tuberculatus) and in an insect-pollinated species (tomato; Solanum lycopersicum) in experimental arrays at four disparate sites (two roof-level sites, two ground-level sites) in the New York (New York, USA) metropolitan area. RESULTS The number of seeds or fruits, a proxy for the number of flowers pollinated, decreased with increasing distance from the pollen donors at all sites for both species. However, the mean number of Amaranthus tuberculatusseeds produced at a given distance differed two-fold among sites, while the slope of the relationship between Solanum lycopersicumfruit production and distance differed by a factor of four among sites. CONCLUSIONS Pollen dispersal patterns may differ substantially among sites, both in the amount of pollen dispersed at a given distance and in the proportional decrease in pollen dispersal with increasing distance, and these effects may act independently. Accordingly, the capacity of plant species to adapt to climate change and other selection pressures may be different from predictions based on pollen dispersal patterns at a single location.
Collapse
Affiliation(s)
- Chelsea L Butcher
- Louis Calder Center - Biological Field Station, Fordham University, 31 Whippoorwill Road, Armonk, New York, 10504, USA
- Center for Urban Ecology, Fordham University, 441 East Fordham Road, Bronx, New York, 10458, USA
- Department of Biological Sciences, Fordham University, 441 East Fordham Road, Bronx, New York, 10458, USA
- Department of Mathematics and Natural Sciences, Northwood University, 4000 Whiting Drive, Midland, Michigan, 48640, USA
| | - Berish Y Rubin
- Department of Biological Sciences, Fordham University, 441 East Fordham Road, Bronx, New York, 10458, USA
| | - Sylvia L Anderson
- Department of Biological Sciences, Fordham University, 441 East Fordham Road, Bronx, New York, 10458, USA
| | - James D Lewis
- Louis Calder Center - Biological Field Station, Fordham University, 31 Whippoorwill Road, Armonk, New York, 10504, USA
- Center for Urban Ecology, Fordham University, 441 East Fordham Road, Bronx, New York, 10458, USA
- Department of Biological Sciences, Fordham University, 441 East Fordham Road, Bronx, New York, 10458, USA
| |
Collapse
|
45
|
Li X, Tieman D, Liu Z, Chen K, Klee HJ. Identification of a lipase gene with a role in tomato fruit short-chain fatty acid-derived flavor volatiles by genome-wide association. Plant J 2020; 104:631-644. [PMID: 32786123 DOI: 10.1111/tpj.14951] [Citation(s) in RCA: 29] [Impact Index Per Article: 7.3] [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: 04/23/2020] [Revised: 07/14/2020] [Accepted: 07/21/2020] [Indexed: 05/16/2023]
Abstract
Fatty acid-derived volatile organic compounds (FA-VOCs) make significant contributions to tomato (Solanum lycopersicum) fruit flavor and human preferences. Short-chain FA-VOCs (C5 and C6) are among the most abundant and important volatile compounds in tomato fruits. The precursors of these volatiles, linoleic acid (18:2) and linolenic acid (18:3), are derived from cleavage of glycerolipids. However, the initial step in synthesis of these FA-VOCs has not been established. A metabolite-based genome-wide association study combined with genetic mapping and functional analysis identified a gene encoding a novel class III lipase family member, Sl-LIP8, that is associated with accumulation of short-chain FA-VOCs in tomato fruit. In vitro assays indicated that Sl-LIP8 can cleave 18:2 and 18:3 acyl groups from glycerolipids. A CRISPR/Cas9 gene edited Sl-LIP8 mutant had much lower content of multiple fruit short-chain FA-VOCs, validating an important role for this enzyme in the pathway. Sl-LIP8 RNA abundance was correlated with FA-VOC content, consistent with transcriptional regulation of the first step in the pathway. Taken together, our work indicates that glycerolipid turnover by Sl-LIP8 is an important early step in the synthesis of multiple short-chain FA-VOCs.
Collapse
Affiliation(s)
- Xiang Li
- Horticultural Sciences, Genetics Institute, University of Florida, Gainesville, FL, 32611, USA
- Laboratory of Fruit Quality Biology/Zhejiang Provincial Key Laboratory of Horticultural Plant Integrative Biology, Zhejiang University, Zijingang Campus, Hangzhou, 310058, PR China
| | - Denise Tieman
- Horticultural Sciences, Genetics Institute, University of Florida, Gainesville, FL, 32611, USA
| | - Zimeng Liu
- Horticultural Sciences, Genetics Institute, University of Florida, Gainesville, FL, 32611, USA
- Laboratory of Fruit Quality Biology/Zhejiang Provincial Key Laboratory of Horticultural Plant Integrative Biology, Zhejiang University, Zijingang Campus, Hangzhou, 310058, PR China
| | - Kunsong Chen
- Laboratory of Fruit Quality Biology/Zhejiang Provincial Key Laboratory of Horticultural Plant Integrative Biology, Zhejiang University, Zijingang Campus, Hangzhou, 310058, PR China
| | - Harry J Klee
- Horticultural Sciences, Genetics Institute, University of Florida, Gainesville, FL, 32611, USA
- Laboratory of Fruit Quality Biology/Zhejiang Provincial Key Laboratory of Horticultural Plant Integrative Biology, Zhejiang University, Zijingang Campus, Hangzhou, 310058, PR China
| |
Collapse
|
46
|
McQuinn RP, Gapper NE, Gray AG, Zhong S, Tohge T, Fei Z, Fernie AR, Giovannoni JJ. Manipulation of ZDS in tomato exposes carotenoid- and ABA-specific effects on fruit development and ripening. Plant Biotechnol J 2020; 18:2210-2224. [PMID: 32171044 PMCID: PMC7589306 DOI: 10.1111/pbi.13377] [Citation(s) in RCA: 33] [Impact Index Per Article: 8.3] [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: 11/26/2019] [Revised: 02/12/2020] [Accepted: 02/21/2020] [Indexed: 05/20/2023]
Abstract
Spontaneous mutations in fruit-specific carotenoid biosynthetic genes of tomato (Solanum lycopersicum) have led to improved understanding of ripening-associated carotenogenesis. Here, we confirm that ZDS is encoded by a single gene in tomato transcriptionally regulated by ripening transcription factors RIN, NOR and ethylene. Manipulation of ZDS was achieved through transgenic repression and heterologous over-expression in tomato. CaMV 35S-driven RNAi repression inhibited carotenoid biosynthesis in all aerial tissues examined resulting in elevated levels of ζ-carotene isomers and upstream carotenoids, while downstream all trans-lycopene and subsequent photoprotective carotenes and xanthophylls were diminished. Consequently, immature fruit displayed photo-bleaching consistent with reduced levels of the photoprotective carotenes and developmental phenotypes related to a reduction in the carotenoid-derived phytohormone abscisic acid (ABA). ZDS-repressed ripe fruit was devoid of the characteristic red carotenoid, all trans-lycopene and displayed brilliant yellow pigmentation due to elevated 9,9' di-cis-ζ-carotene. Over-expression of the Arabidopsis thaliana ZDS (AtZDS) gene bypassed endogenous co-suppression and revealed ZDS as an additional bottleneck in ripening-associated carotenogenesis of tomato. Quantitation of carotenoids in addition to multiple ripening parameters in ZDS-altered lines and ABA-deficient fruit-specific carotenoid mutants was used to separate phenotypic consequences of ABA from other effects of ZDS manipulation and reveal a unique and dynamic ζ-carotene isomer profile in ripe fruit.
Collapse
Affiliation(s)
- Ryan P. McQuinn
- Department of Plant BiologyCornell UniversityIthacaNYUSA
- Boyce Thompson Institute for Plant ResearchCornell UniversityIthacaNYUSA
- Present address:
Australian Research Council Centre of Excellence in Plant Energy BiologyResearch School of BiologyThe Australian National UniversityCanberraACT2601Australia
| | - Nigel E. Gapper
- Boyce Thompson Institute for Plant ResearchCornell UniversityIthacaNYUSA
| | - Amanda G. Gray
- Boyce Thompson Institute for Plant ResearchCornell UniversityIthacaNYUSA
| | - Silin Zhong
- Boyce Thompson Institute for Plant ResearchCornell UniversityIthacaNYUSA
| | - Takayuki Tohge
- Max‐Planck‐Institut fur Molekulare PflanzenphysiologiePotsdam‐GolmGermany
| | - Zhangjun Fei
- Boyce Thompson Institute for Plant ResearchCornell UniversityIthacaNYUSA
| | - Alisdair R. Fernie
- Max‐Planck‐Institut fur Molekulare PflanzenphysiologiePotsdam‐GolmGermany
| | - James J. Giovannoni
- Department of Plant BiologyCornell UniversityIthacaNYUSA
- Boyce Thompson Institute for Plant ResearchCornell UniversityIthacaNYUSA
- Robert W. Holley Center for Agriculture and HealthUSDA‐ARSCornell UniversityIthacaNYUSA
| |
Collapse
|
47
|
Alves FRR, Lira BS, Pikart FC, Monteiro SS, Furlan CM, Purgatto E, Pascoal GB, Andrade SCDS, Demarco D, Rossi M, Freschi L. Beyond the limits of photoperception: constitutively active PHYTOCHROME B2 overexpression as a means of improving fruit nutritional quality in tomato. Plant Biotechnol J 2020; 18:2027-2041. [PMID: 32068963 PMCID: PMC7540714 DOI: 10.1111/pbi.13362] [Citation(s) in RCA: 17] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/28/2019] [Revised: 01/28/2020] [Accepted: 02/10/2020] [Indexed: 05/30/2023]
Abstract
Photoreceptor engineering has recently emerged as a means for improving agronomically beneficial traits in crop species. Despite the central role played by the red/far-red photoreceptor phytochromes (PHYs) in controlling fruit physiology, the applicability of PHY engineering for increasing fleshy fruit nutritional content remains poorly exploited. In this study, we demonstrated that the fruit-specific overexpression of a constitutively active GAF domain Tyr252 -to-His PHYB2 mutant version (PHYB2Y252H ) significantly enhances the accumulation of multiple health-promoting antioxidants in tomato fruits, without negative collateral consequences on vegetative development. Compared with the native PHYB2 overexpression, PHYB2Y252H -overexpressing lines exhibited more extensive increments in transcript abundance of genes associated with fruit plastid development, chlorophyll biosynthesis and metabolic pathways responsible for the accumulation of antioxidant compounds. Accordingly, PHYB2Y252H -overexpressing fruits developed more chloroplasts containing voluminous grana at the green stage and overaccumulated carotenoids, tocopherols, flavonoids and ascorbate in ripe fruits compared with both wild-type and PHYB2-overexpressing lines. The impacts of PHYB2 or PHYB2Y252H overexpression on fruit primary metabolism were limited to a slight promotion in lipid biosynthesis and reduction in sugar accumulation. Altogether, these findings indicate that mutation-based adjustments in PHY properties represent a valuable photobiotechnological tool for tomato biofortification, highlighting the potential of photoreceptor engineering for improving quality traits in fleshy fruits.
Collapse
Affiliation(s)
- Frederico Rocha Rodrigues Alves
- Departamento de BotânicaUniversidade de São PauloSão PauloSPBrazil
- Departamento de BotânicaUniversidade Federal de GoiásGoiásGOBrazil
| | | | | | | | | | - Eduardo Purgatto
- Departamento de Alimentos e Nutrição ExperimentalUniversidade de São PauloSão PauloSPBrazil
| | - Grazieli Benedetti Pascoal
- Departamento de Alimentos e Nutrição ExperimentalUniversidade de São PauloSão PauloSPBrazil
- Curso de Graduação em NutriçãoUniversidade Federal de UberlândiaMinas GeraisMGBrazil
| | | | - Diego Demarco
- Departamento de BotânicaUniversidade de São PauloSão PauloSPBrazil
| | - Magdalena Rossi
- Departamento de BotânicaUniversidade de São PauloSão PauloSPBrazil
| | - Luciano Freschi
- Departamento de BotânicaUniversidade de São PauloSão PauloSPBrazil
| |
Collapse
|
48
|
Wang R, Shi C, Wang X, Li R, Meng Y, Cheng L, Qi M, Xu T, Li T. Tomato SlIDA has a critical role in tomato fertilization by modifying reactive oxygen species homeostasis. Plant J 2020; 103:2100-2118. [PMID: 32573872 DOI: 10.1111/tpj.14886] [Citation(s) in RCA: 5] [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: 12/19/2019] [Revised: 05/30/2020] [Accepted: 06/05/2020] [Indexed: 05/25/2023]
Abstract
Anther development and pollen tube elongation are key steps for pollination and fertilization. The timing and spatial distribution of reactive oxygen species (ROS) and programmed cell death are central to these processes, but the regulatory mechanism of ROS production is not well understood. Inflorescence deficient in abscission (IDA) is implicated in many plant development and responses to environmental stimuli. However, their role in reproductive development is still unknown. We generated tomato knockout lines (CR-slida) of an IDA homolog (SlIDA), which is expressed in the tapetum, septum and pollen tube, and observed a severe defect in male gametes. Further analysis indicated that there was a programmed cell death defect in the tapetum and septum and a failure of anther dehiscence in the CR-slida lines, likely related to insufficient ROS signal. Liquid chromatography-tandem mass spectrometry identified mature SlIDA as a 14-mer EPIP peptide, which was shown to be secreted, and a complementation experiment showed that application of a synthetic 14-mer EPIP peptide rescued the CR-slida defect and enhanced the ROS signal. Moreover, the application of the ROS scavengers diphenyleneiodonium or Mn-TMPP suppressed peptide function. Collectively, our results revealed that SlIDA plays an essential role in pollen development and pollen tube elongation by modulating ROS homeostasis.
Collapse
Affiliation(s)
- Rong Wang
- College of Horticulture, Shenyang Agricultural University, Shenyang, Liaoning, 110866, People's Republic of China
- Key Laboratory of Protected Horticulture of Ministry of Education, Shenyang, Liaoning Province, China
| | - ChunLin Shi
- Department of Biosciences, University of Oslo, Blindern, Oslo, 0316, Norway
| | - Xiaoyang Wang
- College of Horticulture, Shenyang Agricultural University, Shenyang, Liaoning, 110866, People's Republic of China
- Key Laboratory of Protected Horticulture of Ministry of Education, Shenyang, Liaoning Province, China
| | - Ruizhen Li
- College of Horticulture, Shenyang Agricultural University, Shenyang, Liaoning, 110866, People's Republic of China
- Key Laboratory of Protected Horticulture of Ministry of Education, Shenyang, Liaoning Province, China
| | - Yan Meng
- College of Horticulture, Shenyang Agricultural University, Shenyang, Liaoning, 110866, People's Republic of China
- Key Laboratory of Protected Horticulture of Ministry of Education, Shenyang, Liaoning Province, China
| | - Lina Cheng
- College of Horticulture, Shenyang Agricultural University, Shenyang, Liaoning, 110866, People's Republic of China
- Key Laboratory of Protected Horticulture of Ministry of Education, Shenyang, Liaoning Province, China
| | - Mingfang Qi
- College of Horticulture, Shenyang Agricultural University, Shenyang, Liaoning, 110866, People's Republic of China
- Key Laboratory of Protected Horticulture of Ministry of Education, Shenyang, Liaoning Province, China
| | - Tao Xu
- College of Horticulture, Shenyang Agricultural University, Shenyang, Liaoning, 110866, People's Republic of China
- Key Laboratory of Protected Horticulture of Ministry of Education, Shenyang, Liaoning Province, China
| | - Tianlai Li
- College of Horticulture, Shenyang Agricultural University, Shenyang, Liaoning, 110866, People's Republic of China
- Key Laboratory of Protected Horticulture of Ministry of Education, Shenyang, Liaoning Province, China
| |
Collapse
|
49
|
Tikunov YM, Roohanitaziani R, Meijer‐Dekens F, Molthoff J, Paulo J, Finkers R, Capel I, Carvajal Moreno F, Maliepaard C, Nijenhuis‐de Vries M, Labrie CW, Verkerke W, van Heusden AW, van Eeuwijk F, Visser RGF, Bovy AG. The genetic and functional analysis of flavor in commercial tomato: the FLORAL4 gene underlies a QTL for floral aroma volatiles in tomato fruit. Plant J 2020; 103:1189-1204. [PMID: 32369642 PMCID: PMC7496274 DOI: 10.1111/tpj.14795] [Citation(s) in RCA: 26] [Impact Index Per Article: 6.5] [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: 12/12/2019] [Revised: 04/15/2020] [Accepted: 04/22/2020] [Indexed: 05/21/2023]
Abstract
Tomato (Solanum lycopersicum L.) has become a popular model for genetic studies of fruit flavor in the last two decades. In this article we present a study of tomato fruit flavor, including an analysis of the genetic, metabolic and sensorial variation of a collection of contemporary commercial glasshouse tomato cultivars, followed by a validation of the associations found by quantitative trait locus (QTL) analysis of representative biparental segregating populations. This led to the identification of the major sensorial and chemical components determining fruit flavor variation and detection of the underlying QTLs. The high representation of QTL haplotypes in the breeders' germplasm suggests that there is great potential for applying these QTLs in current breeding programs aimed at improving tomato flavor. A QTL on chromosome 4 was found to affect the levels of the phenylalanine-derived volatiles (PHEVs) 2-phenylethanol, phenylacetaldehyde and 1-nitro-2-phenylethane. Fruits of near-isogenic lines contrasting for this locus and in the composition of PHEVs significantly differed in the perception of fruity and rose-hip-like aroma. The PHEV locus was fine mapped, which allowed for the identification of FLORAL4 as a candidate gene for PHEV regulation. Using a gene-editing-based (CRISPR-CAS9) reverse-genetics approach, FLORAL4 was demonstrated to be the key factor in this QTL affecting PHEV accumulation in tomato fruit.
Collapse
Affiliation(s)
- Yury M. Tikunov
- Plant BreedingWageningen University and ResearchDroevendaalsesteeg 1Wageningen6708PBthe Netherlands
| | - Raana Roohanitaziani
- Plant BreedingWageningen University and ResearchDroevendaalsesteeg 1Wageningen6708PBthe Netherlands
| | - Fien Meijer‐Dekens
- Plant BreedingWageningen University and ResearchDroevendaalsesteeg 1Wageningen6708PBthe Netherlands
| | - Jos Molthoff
- Plant BreedingWageningen University and ResearchDroevendaalsesteeg 1Wageningen6708PBthe Netherlands
| | - Joao Paulo
- BiometrisWageningen University and ResearchDroevendaalsesteeg 1Wageningen6708PBthe Netherlands
| | - Richard Finkers
- Plant BreedingWageningen University and ResearchDroevendaalsesteeg 1Wageningen6708PBthe Netherlands
| | - Iris Capel
- Plant BreedingWageningen University and ResearchDroevendaalsesteeg 1Wageningen6708PBthe Netherlands
| | - Fatima Carvajal Moreno
- Plant BreedingWageningen University and ResearchDroevendaalsesteeg 1Wageningen6708PBthe Netherlands
| | - Chris Maliepaard
- Plant BreedingWageningen University and ResearchDroevendaalsesteeg 1Wageningen6708PBthe Netherlands
| | - Mariska Nijenhuis‐de Vries
- Food & Biobased ResearchWageningen University and ResearchBornse Weilanden 9Wageningen6708WGthe Netherlands
| | - Caroline W. Labrie
- Greenhouse HorticultureWageningen University and ResearchViolierenweg 1Bleiswijk2665MVthe Netherlands
| | - Wouter Verkerke
- Greenhouse HorticultureWageningen University and ResearchViolierenweg 1Bleiswijk2665MVthe Netherlands
| | - Adriaan W. van Heusden
- Plant BreedingWageningen University and ResearchDroevendaalsesteeg 1Wageningen6708PBthe Netherlands
| | - Fred van Eeuwijk
- BiometrisWageningen University and ResearchDroevendaalsesteeg 1Wageningen6708PBthe Netherlands
| | - Richard G. F. Visser
- Plant BreedingWageningen University and ResearchDroevendaalsesteeg 1Wageningen6708PBthe Netherlands
| | - Arnaud G. Bovy
- Plant BreedingWageningen University and ResearchDroevendaalsesteeg 1Wageningen6708PBthe Netherlands
| |
Collapse
|
50
|
Shameer S, Vallarino JG, Fernie AR, Ratcliffe RG, Sweetlove LJ. Flux balance analysis of metabolism during growth by osmotic cell expansion and its application to tomato fruits. Plant J 2020; 103:68-82. [PMID: 31985867 DOI: 10.1111/tpj.14707] [Citation(s) in RCA: 20] [Impact Index Per Article: 5.0] [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: 08/15/2019] [Revised: 11/24/2019] [Accepted: 12/20/2019] [Indexed: 05/27/2023]
Abstract
Cell expansion is a significant contributor to organ growth and is driven by the accumulation of osmolytes to increase cell turgor pressure. Metabolic modelling has the potential to provide insights into the processes that underpin osmolyte synthesis and transport, but the main computational approach for predicting metabolic network fluxes, flux balance analysis, often uses biomass composition as the main output constraint and ignores potential changes in cell volume. Here we present growth-by-osmotic-expansion flux balance analysis (GrOE-FBA), a framework that accounts for both the metabolic and ionic contributions to the osmotica that drive cell expansion, as well as the synthesis of protein, cell wall and cell membrane components required for cell enlargement. Using GrOE-FBA, the metabolic fluxes in dividing and expanding cells were analysed, and the energetic costs for metabolite biosynthesis and accumulation in the two scenarios were found to be surprisingly similar. The expansion phase of tomato fruit growth was also modelled using a multiphase single-optimization GrOE-FBA model and this approach gave accurate predictions of the major metabolite levels throughout fruit development, as well as revealing a role for transitory starch accumulation in ensuring optimal fruit development.
Collapse
Affiliation(s)
- Sanu Shameer
- Department of Plant Sciences, University of Oxford, Oxford, UK
| | - José G Vallarino
- Max Planck Institute for Molecular Plant Physiology, Potsdam-Golm, Germany
| | - Alisdair R Fernie
- Max Planck Institute for Molecular Plant Physiology, Potsdam-Golm, Germany
| | | | - Lee J Sweetlove
- Department of Plant Sciences, University of Oxford, Oxford, UK
| |
Collapse
|