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Denancé N, Szurek B, Doyle EL, Lauber E, Fontaine-Bodin L, Carrère S, Guy E, Hajri A, Cerutti A, Boureau T, Poussier S, Arlat M, Bogdanove AJ, Noël LD. Two ancestral genes shaped the Xanthomonas campestris TAL effector gene repertoire. THE NEW PHYTOLOGIST 2018; 219:391-407. [PMID: 29677397 DOI: 10.1111/nph.15148] [Citation(s) in RCA: 13] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/01/2017] [Accepted: 03/06/2018] [Indexed: 06/08/2023]
Abstract
Xanthomonas transcription activator-like effectors (TALEs) are injected inside plant cells to promote host susceptibility by enhancing transcription of host susceptibility genes. TALE-encoding (tal) genes were thought to be absent from Brassicaceae-infecting Xanthomonas campestris (Xc) genomes based on four reference genomic sequences. We discovered tal genes in 26 of 49 Xc strains isolated worldwide and used a combination of single molecule real time (SMRT) and tal amplicon sequencing to yield a near-complete description of the TALEs found in Xc (Xc TALome). The 53 sequenced tal genes encode 21 distinct DNA binding domains that sort into seven major DNA binding specificities. In silico analysis of the Brassica rapa promoterome identified a repertoire of predicted TALE targets, five of which were experimentally validated using quantitative reverse transcription polymerase chain reaction. The Xc TALome shows multiple signs of DNA rearrangements that probably drove its evolution from two ancestral tal genes. We discovered that Tal12a and Tal15a of Xcc strain Xca5 contribute together in the development of disease symptoms on susceptible B. oleracea var. botrytis cv Clovis. This large and polymorphic repertoire of TALEs opens novel perspectives for elucidating TALE-mediated susceptibility of Brassicaceae to black rot disease and for understanding the molecular processes underlying TALE evolution.
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Affiliation(s)
- Nicolas Denancé
- LIPM, Université de Toulouse, INRA, CNRS, UPS, F-31326, Castanet-Tolosan Cedex, France
| | - Boris Szurek
- IRD, Cirad, Univ. Montpellier, IPME, Montpellier, France
| | - Erin L Doyle
- Department of Plant Pathology and Microbiology, Iowa State University, Ames, IA, 50011, USA
- Department of Biology, Doane University, Crete, NE, 68333, USA
| | - Emmanuelle Lauber
- LIPM, Université de Toulouse, INRA, CNRS, UPS, F-31326, Castanet-Tolosan Cedex, France
| | | | - Sébastien Carrère
- LIPM, Université de Toulouse, INRA, CNRS, UPS, F-31326, Castanet-Tolosan Cedex, France
| | - Endrick Guy
- LIPM, Université de Toulouse, INRA, CNRS, UPS, F-31326, Castanet-Tolosan Cedex, France
| | - Ahmed Hajri
- IRHS, INRA, AGROCAMPUS-Ouest, Université d'Angers, SFR 4207 QUASAV, 49071, Beaucouzé Cedex, France
| | - Aude Cerutti
- LIPM, Université de Toulouse, INRA, CNRS, UPS, F-31326, Castanet-Tolosan Cedex, France
| | - Tristan Boureau
- IRHS, INRA, AGROCAMPUS-Ouest, Université d'Angers, SFR 4207 QUASAV, 49071, Beaucouzé Cedex, France
| | - Stéphane Poussier
- IRHS, INRA, AGROCAMPUS-Ouest, Université d'Angers, SFR 4207 QUASAV, 49071, Beaucouzé Cedex, France
| | - Matthieu Arlat
- LIPM, Université de Toulouse, INRA, CNRS, UPS, F-31326, Castanet-Tolosan Cedex, France
| | - Adam J Bogdanove
- Department of Plant Pathology and Microbiology, Iowa State University, Ames, IA, 50011, USA
- Plant Pathology and Plant-Microbe Biology Section, School of Integrative Plant Science, Cornell University, Ithaca, NY, 14853, USA
| | - Laurent D Noël
- LIPM, Université de Toulouse, INRA, CNRS, UPS, F-31326, Castanet-Tolosan Cedex, France
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102
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Deb D, Mackey D, Opiyo SO, McDowell JM. Application of alignment-free bioinformatics methods to identify an oomycete protein with structural and functional similarity to the bacterial AvrE effector protein. PLoS One 2018; 13:e0195559. [PMID: 29641586 PMCID: PMC5895030 DOI: 10.1371/journal.pone.0195559] [Citation(s) in RCA: 13] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/30/2017] [Accepted: 03/23/2018] [Indexed: 11/23/2022] Open
Abstract
Diverse plant pathogens export effector proteins to reprogram host cells. One of the most challenging goals in the molecular plant-microbe field is to functionally characterize the complex repertoires of effectors secreted by these pathogens. For bacterial pathogens, the predominant class of effectors is delivered to host cells by Type III secretion. For oomycetes, the predominant class of effectors is defined by a signal peptide that mediates secretion from the oomycete and a conserved RxLR motif. Downy mildew pathogens and Phytophthora species maintain hundreds of candidate RxLR effector genes in their genomes. Although no primary sequence similarity is evident between bacterial Type III effectors (T3Es) and oomycete RXLR effectors, some bacterial and oomycete effectors have convergently evolved to target the same host proteins. Such effectors might have evolved domains that are functionally similar but sequence-unrelated. We reasoned that alignment-free bioinformatics approaches could be useful to identify structural similarities between bacterial and oomycete effectors. To test this approach, we used partial least squares regression, alignment-free bioinformatics methods to identify effector proteins from the genome of the oomycete Hyaloperonospora arabidopsidis that are similar to the well-studied AvrE1 effector from Pseudomonas syringae. This approach identified five RxLR proteins with putative structural similarity to AvrE1. We focused on one, HaRxL23, because it is an experimentally validated effector and it is conserved between distantly related oomycetes. Several experiments indicate that HaRxL23 is functionally similar to AvrE1, including the ability to partially rescue an AvrE1 loss-of-function mutant. This study provides an example of how an alignment-free bioinformatics approach can identify functionally similar effector proteins in the absence of primary sequence similarity. This approach could be useful to identify effectors that have convergently evolved regardless of whether the shared host target is known.
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Affiliation(s)
- Devdutta Deb
- Department of Plant Pathology, Physiology and Weed Science, Virginia Tech, Blacksburg, Virginia, United States of America
| | - David Mackey
- Departments of Horticulture and Crop Science and Molecular Genetics, Ohio State University, Columbus, Ohio, United States of America
| | - Stephen O. Opiyo
- Molecular and Cellular Imaging Center-Columbus, Ohio Agricultural Research and Development Center, Ohio State University, Columbus, Ohio, United States of America
- * E-mail: (SOO); (JMM)
| | - John M. McDowell
- Department of Plant Pathology, Physiology and Weed Science, Virginia Tech, Blacksburg, Virginia, United States of America
- * E-mail: (SOO); (JMM)
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103
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Pérez-Quintero AL, Lamy L, Zarate CA, Cunnac S, Doyle E, Bogdanove A, Szurek B, Dereeper A. daTALbase: A Database for Genomic and Transcriptomic Data Related to TAL Effectors. MOLECULAR PLANT-MICROBE INTERACTIONS : MPMI 2018; 31:471-480. [PMID: 29143556 DOI: 10.1094/mpmi-06-17-0153-fi] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/26/2023]
Abstract
Transcription activator-like effectors (TALEs) are proteins found in the genus Xanthomonas of phytopathogenic bacteria. These proteins enter the nucleus of cells in the host plant and can induce the expression of susceptibility genes (S genes), triggering disease. TALEs bind the promoter region of S genes following a specific code, which allows the prediction of binding sites based on TALEs amino acid sequences. New candidate S genes can then be discovered by finding the intersection between genes induced in the presence of TALEs and genes containing predicted effector binding elements. By contrasting differential expression data and binding site predictions across different datasets, patterns of TALE diversification or convergence may be unveiled, but this requires the seamless integration of different genomic and transcriptomic data. With this in mind, we present daTALbase, a curated relational database that integrates TALE-related data including bacterial TALE sequences, plant promoter sequences, predicted TALE binding sites, transcriptomic data of host plants in response to TALE-harboring bacteria, and other associated data. The database can be explored to uncover new candidate S genes as well as to study variation in TALE repertories and their corresponding targets. The first version of the database here presented includes data for Oryza sp.-Xanthomonas pv. oryzae interactions. Future versions of the database will incorporate information for other pathosystems involving TALEs.
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Affiliation(s)
- Alvaro L Pérez-Quintero
- 1 IRD, Cirad, Université Montpellier, IPME, Montpellier (34000), France
- 2 Institut de Biologie de l'Ecole Normale Supérieure, Ecole Normale Supérieure, CNRS, INSERM, PSL Research University, 75005 Paris, France
| | - Léo Lamy
- 1 IRD, Cirad, Université Montpellier, IPME, Montpellier (34000), France
| | - Carlos A Zarate
- 1 IRD, Cirad, Université Montpellier, IPME, Montpellier (34000), France
| | - Sébastien Cunnac
- 1 IRD, Cirad, Université Montpellier, IPME, Montpellier (34000), France
| | - Erin Doyle
- 3 Department of Biology, Doane University, 1014 Boswell Avenue, Crete, NE 68333, U.S.A.; and
| | - Adam Bogdanove
- 3 Department of Biology, Doane University, 1014 Boswell Avenue, Crete, NE 68333, U.S.A.; and
- 4 Plant Pathology and Plant-Microbe Biology Section, School of Integrative Plant Science, Cornell University, 334 Plant Science Building, Ithaca, NY 14853, U.S.A
| | - Boris Szurek
- 1 IRD, Cirad, Université Montpellier, IPME, Montpellier (34000), France
| | - Alexis Dereeper
- 1 IRD, Cirad, Université Montpellier, IPME, Montpellier (34000), France
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104
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Bezrutczyk M, Hartwig T, Horschman M, Char SN, Yang J, Yang B, Frommer WB, Sosso D. Impaired phloem loading in zmsweet13a,b,c sucrose transporter triple knock-out mutants in Zea mays. THE NEW PHYTOLOGIST 2018; 218:594-603. [PMID: 29451311 DOI: 10.1111/nph.15021] [Citation(s) in RCA: 104] [Impact Index Per Article: 17.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/03/2017] [Accepted: 12/28/2017] [Indexed: 05/02/2023]
Abstract
Crop yield depends on efficient allocation of sucrose from leaves to seeds. In Arabidopsis, phloem loading is mediated by a combination of SWEET sucrose effluxers and subsequent uptake by SUT1/SUC2 sucrose/H+ symporters. ZmSUT1 is essential for carbon allocation in maize, but the relative contribution to apoplasmic phloem loading and retrieval of sucrose leaking from the translocation path is not known. Here we analysed the contribution of SWEETs to phloem loading in maize. We identified three leaf-expressed SWEET sucrose transporters as key components of apoplasmic phloem loading in Zea mays L. ZmSWEET13 paralogues (a, b, c) are among the most highly expressed genes in the leaf vasculature. Genome-edited triple knock-out mutants were severely stunted. Photosynthesis of mutants was impaired and leaves accumulated high levels of soluble sugars and starch. RNA-seq revealed profound transcriptional deregulation of genes associated with photosynthesis and carbohydrate metabolism. Genome-wide association study (GWAS) analyses may indicate that variability in ZmSWEET13s correlates with agronomical traits, especifically flowering time and leaf angle. This work provides support for cooperation of three ZmSWEET13s with ZmSUT1 in phloem loading in Z. mays.
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Affiliation(s)
- Margaret Bezrutczyk
- Institute for Molecular Physiology, Heinrich Heine University Düsseldorf, Düsseldorf, 40225, Germany
- Max Planck Institute for Plant Breeding Research, Cologne, 50829, Germany
- Department of Plant Biology, Carnegie Science, 260 Panama St, Stanford, CA, 94305, USA
| | - Thomas Hartwig
- Institute for Molecular Physiology, Heinrich Heine University Düsseldorf, Düsseldorf, 40225, Germany
- Max Planck Institute for Plant Breeding Research, Cologne, 50829, Germany
- Department of Plant Biology, Carnegie Science, 260 Panama St, Stanford, CA, 94305, USA
| | - Marc Horschman
- Department of Plant Biology, Carnegie Science, 260 Panama St, Stanford, CA, 94305, USA
| | - Si Nian Char
- Department of Genetics, Development, and Cell Biology, Iowa State University, Ames, IA, 50011, USA
| | - Jinliang Yang
- Department of Agronomy and Horticulture, University of Nebraska-Lincoln, Lincoln, NE, 68588, USA
| | - Bing Yang
- Department of Genetics, Development, and Cell Biology, Iowa State University, Ames, IA, 50011, USA
| | - Wolf B Frommer
- Institute for Molecular Physiology, Heinrich Heine University Düsseldorf, Düsseldorf, 40225, Germany
- Max Planck Institute for Plant Breeding Research, Cologne, 50829, Germany
- Department of Plant Biology, Carnegie Science, 260 Panama St, Stanford, CA, 94305, USA
| | - Davide Sosso
- Department of Plant Biology, Carnegie Science, 260 Panama St, Stanford, CA, 94305, USA
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105
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Islam W, Qasim M, Noman A, Adnan M, Tayyab M, Farooq TH, Wei H, Wang L. Plant microRNAs: Front line players against invading pathogens. Microb Pathog 2018. [PMID: 29524548 DOI: 10.1016/j.micpath.2018.03.008] [Citation(s) in RCA: 35] [Impact Index Per Article: 5.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/19/2022]
Abstract
Plants are attacked by a large number of pathogens. To defend against these pathogens, plants activate or repress a vast array of genes. For genetic expression and reprogramming, host endogenous small RNAs (sRNAs) are the key factors. Among these sRNAs, microRNAs (miRNAs) mediate gene regulation through RNA silencing at the post-transcriptional level and play an essential role in the defense responses to biotic and abiotic stress. In the recent years, high-throughput sequencing has enabled the researchers to uncover the role of plant miRNAs during pathogen invasion. So here we have reviewed the recent research findings illustrating the plant miRNAs active involvement in various defense processes during fungal, bacterial, viral and nematode infections. However, rapid validation of direct targets of miRNAs is the dire need of time, which can be very helpful in improving the plant resistance against various pathogenic diseases.
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Affiliation(s)
- Waqar Islam
- College of Plant Protection, Fujian Agriculture and Forestry University, Fuzhou, 350002, China; Govt. of Punjab, Agriculture Department, Lahore, Pakistan.
| | - Muhammad Qasim
- College of Plant Protection, Fujian Agriculture and Forestry University, Fuzhou, 350002, China; State Key Laboratory of Ecological Pest Control for Fujian and Taiwan Crops, Fujian Agriculture and Forestry University, Fuzhou, 350002, China; Key Laboratory of Integrated Pest Management for Fujian-Taiwan Crops, Ministry of Agriculture, Fuzhou, 350002, China
| | - Ali Noman
- College of Crop Sciences, Fujian Agriculture and Forestry University, Fuzhou, 350002, China; Department of Botany, Govt. College University, Faisalabad, Pakistan
| | - Muhammad Adnan
- College of Plant Protection, Fujian Agriculture and Forestry University, Fuzhou, 350002, China; State Key Laboratory of Ecological Pest Control for Fujian and Taiwan Crops, Fujian Agriculture and Forestry University, Fuzhou, 350002, China
| | - Muhammad Tayyab
- College of Crop Sciences, Fujian Agriculture and Forestry University, Fuzhou, 350002, China
| | - Taimoor Hassan Farooq
- College of Forestry, Fujian Agriculture and Forestry University, Fuzhou, 350002, China
| | - Huang Wei
- College of Plant Protection, Fujian Agriculture and Forestry University, Fuzhou, 350002, China
| | - Liande Wang
- College of Plant Protection, Fujian Agriculture and Forestry University, Fuzhou, 350002, China; State Key Laboratory of Ecological Pest Control for Fujian and Taiwan Crops, Fujian Agriculture and Forestry University, Fuzhou, 350002, China; Key Laboratory of Integrated Pest Management for Fujian-Taiwan Crops, Ministry of Agriculture, Fuzhou, 350002, China.
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106
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Medina CA, Reyes PA, Trujillo CA, Gonzalez JL, Bejarano DA, Montenegro NA, Jacobs JM, Joe A, Restrepo S, Alfano JR, Bernal A. The role of type III effectors from Xanthomonas axonopodis pv. manihotis in virulence and suppression of plant immunity. MOLECULAR PLANT PATHOLOGY 2018; 19:593-606. [PMID: 28218447 PMCID: PMC6638086 DOI: 10.1111/mpp.12545] [Citation(s) in RCA: 16] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/20/2016] [Revised: 01/25/2017] [Accepted: 02/15/2017] [Indexed: 05/29/2023]
Abstract
Xanthomonas axonopodis pv. manihotis (Xam) causes cassava bacterial blight, the most important bacterial disease of cassava. Xam, like other Xanthomonas species, requires type III effectors (T3Es) for maximal virulence. Xam strain CIO151 possesses 17 predicted T3Es belonging to the Xanthomonas outer protein (Xop) class. This work aimed to characterize nine Xop effectors present in Xam CIO151 for their role in virulence and modulation of plant immunity. Our findings demonstrate the importance of XopZ, XopX, XopAO1 and AvrBs2 for full virulence, as well as a redundant function in virulence between XopN and XopQ in susceptible cassava plants. We tested their role in pathogen-associated molecular pattern (PAMP)-triggered immunity (PTI) and effector-triggered immunity (ETI) using heterologous systems. AvrBs2, XopR and XopAO1 are capable of suppressing PTI. ETI suppression activity was only detected for XopE4 and XopAO1. These results demonstrate the overall importance and diversity in functions of major virulence effectors AvrBs2 and XopAO1 in Xam during cassava infection.
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Affiliation(s)
- Cesar Augusto Medina
- Universidad de los Andes, Laboratorio de Micología y Fitopatología de la Universidad de los Andes111711 BogotáColombia
| | - Paola Andrea Reyes
- Universidad de los Andes, Laboratorio de Micología y Fitopatología de la Universidad de los Andes111711 BogotáColombia
| | - Cesar Augusto Trujillo
- Universidad de los Andes, Laboratorio de Micología y Fitopatología de la Universidad de los Andes111711 BogotáColombia
| | - Juan Luis Gonzalez
- Universidad de los Andes, Laboratorio de Micología y Fitopatología de la Universidad de los Andes111711 BogotáColombia
| | - David Alejandro Bejarano
- Universidad de los Andes, Laboratorio de Micología y Fitopatología de la Universidad de los Andes111711 BogotáColombia
| | - Nathaly Andrea Montenegro
- Universidad de los Andes, Laboratorio de Micología y Fitopatología de la Universidad de los Andes111711 BogotáColombia
| | - Jonathan M. Jacobs
- Institut de Recherche pour le De´veloppement (IRD), CiradUniversite´ Montpellier, Interactions Plantes Microorganismes Environnement (IPME), 34394MontpellierFrance
| | - Anna Joe
- Center for Plant Science InnovationUniversity of NebraskaLincolnNE68588‐0660USA
- Department of Plant PathologyUniversity of NebraskaLincolnNE68588‐0722USA
- Present address:
Department of Plant Pathology and the Genome CenterUniversity of California, Davis, CA 95616, USA, and Joint BioEnergy Institute and Physical Biosciences Division, Lawrence Berkeley National LaboratoryBerkeleyCA94720USA
| | - Silvia Restrepo
- Universidad de los Andes, Laboratorio de Micología y Fitopatología de la Universidad de los Andes111711 BogotáColombia
| | - James R. Alfano
- Center for Plant Science InnovationUniversity of NebraskaLincolnNE68588‐0660USA
- Department of Plant PathologyUniversity of NebraskaLincolnNE68588‐0722USA
| | - Adriana Bernal
- Universidad de los Andes, Laboratorio de Micología y Fitopatología de la Universidad de los Andes111711 BogotáColombia
- Present address:
Novozymes, Inc., DavisCA95618USA
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107
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Abstract
Pseudomonas syringae is one of the best-studied plant pathogens and serves as a model for understanding host-microorganism interactions, bacterial virulence mechanisms and host adaptation of pathogens as well as microbial evolution, ecology and epidemiology. Comparative genomic studies have identified key genomic features that contribute to P. syringae virulence. P. syringae has evolved two main virulence strategies: suppression of host immunity and creation of an aqueous apoplast to form its niche in the phyllosphere. In addition, external environmental conditions such as humidity profoundly influence infection. P. syringae may serve as an excellent model to understand virulence and also of how pathogenic microorganisms integrate environmental conditions and plant microbiota to become ecologically robust and diverse pathogens of the plant kingdom.
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108
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Aung K, Jiang Y, He SY. The role of water in plant-microbe interactions. THE PLANT JOURNAL : FOR CELL AND MOLECULAR BIOLOGY 2018; 93:771-780. [PMID: 29205604 PMCID: PMC5849256 DOI: 10.1111/tpj.13795] [Citation(s) in RCA: 66] [Impact Index Per Article: 11.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/18/2017] [Revised: 11/21/2017] [Accepted: 11/29/2017] [Indexed: 05/20/2023]
Abstract
Throughout their life plants are associated with various microorganisms, including commensal, symbiotic and pathogenic microorganisms. Pathogens are genetically adapted to aggressively colonize and proliferate in host plants to cause disease. However, disease outbreaks occur only under permissive environmental conditions. The interplay between host, pathogen and environment is famously known as the 'disease triangle'. Among the environmental factors, rainfall events, which often create a period of high atmospheric humidity, have repeatedly been shown to promote disease outbreaks in plants, suggesting that the availability of water is crucial for pathogenesis. During pathogen infection, water-soaking spots are frequently observed on infected leaves as an early symptom of disease. Recent studies have shown that pathogenic bacteria dedicate specialized virulence proteins to create an aqueous habitat inside the leaf apoplast under high humidity. Water availability in the apoplastic environment, and probably other associated changes, can determine the success of potentially pathogenic microbes. These new findings reinforce the notion that the fight over water may be a major battleground between plants and pathogens. In this article, we will discuss the role of water availability in host-microbe interactions, with a focus on plant-bacterial interactions.
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Affiliation(s)
- Kyaw Aung
- Department of Energy, Plant Research Laboratory, Michigan State University, East Lansing, Michigan 48824, USA
- For correspondence (; )
| | - Yanjuan Jiang
- Department of Energy, Plant Research Laboratory, Michigan State University, East Lansing, Michigan 48824, USA
- Key Laboratory of Tropical Plant Resources and Sustainable Use, Xishuangbanna Tropical Botanical Garden, Chinese Academy of Sciences, Kunming, Yunnan 650223, China
| | - Sheng Yang He
- Department of Energy, Plant Research Laboratory, Michigan State University, East Lansing, Michigan 48824, USA
- Howard Hughes Medical Institute, Michigan State University, East Lansing, Michigan 48824, USA
- Department of Plant Biology, Michigan State University, East Lansing, Michigan 48824, USA
- Plant Resilience Institute, Michigan State University, East Lansing, Michigan 48824, USA
- For correspondence (; )
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109
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Bezrutczyk M, Yang J, Eom JS, Prior M, Sosso D, Hartwig T, Szurek B, Oliva R, Vera-Cruz C, White FF, Yang B, Frommer WB. Sugar flux and signaling in plant-microbe interactions. THE PLANT JOURNAL : FOR CELL AND MOLECULAR BIOLOGY 2018; 93:675-685. [PMID: 29160592 DOI: 10.1111/tpj.13775] [Citation(s) in RCA: 123] [Impact Index Per Article: 20.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/15/2017] [Revised: 10/29/2017] [Accepted: 11/01/2017] [Indexed: 05/04/2023]
Abstract
Plant breeders have developed crop plants that are resistant to pests, but the continual evolution of pathogens creates the need to iteratively develop new control strategies. Molecular tools have allowed us to gain deep insights into disease responses, allowing for more efficient, rational engineering of crops that are more robust or resistant to a greater number of pathogen variants. Here we describe the roles of SWEET and STP transporters, membrane proteins that mediate transport of sugars across the plasma membrane. We discuss how these transporters may enhance or restrict disease through controlling the level of nutrients provided to pathogens and whether the transporters play a role in sugar signaling for disease resistance. This review indicates open questions that require further research and proposes the use of genome editing technologies for engineering disease resistance.
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Affiliation(s)
- Margaret Bezrutczyk
- Institute for Molecular Physiology, Heinrich Heine Universität Düsseldorf, Universiätsstr. 1, 40225, Düsseldorf, Germany
- Max Planck Institute for Plant Breeding Research, Carl von Linné Weg 10, 50829, Köln, Germany
| | - Jungil Yang
- Institute for Molecular Physiology, Heinrich Heine Universität Düsseldorf, Universiätsstr. 1, 40225, Düsseldorf, Germany
- Max Planck Institute for Plant Breeding Research, Carl von Linné Weg 10, 50829, Köln, Germany
| | - Joon-Seob Eom
- Institute for Molecular Physiology, Heinrich Heine Universität Düsseldorf, Universiätsstr. 1, 40225, Düsseldorf, Germany
- Max Planck Institute for Plant Breeding Research, Carl von Linné Weg 10, 50829, Köln, Germany
| | - Matthew Prior
- Center for Plant Cell Biology and Department of Botany and Plant Sciences, University of California, 900 University Ave., Riverside, CA, 92521, USA
| | - Davide Sosso
- Inari Agriculture Inc., 200 Sidney Street, Cambridge, MA, 02139, USA
| | - Thomas Hartwig
- Institute for Molecular Physiology, Heinrich Heine Universität Düsseldorf, Universiätsstr. 1, 40225, Düsseldorf, Germany
- Max Planck Institute for Plant Breeding Research, Carl von Linné Weg 10, 50829, Köln, Germany
| | - Boris Szurek
- IRD, Cirad, University of Montpellier, BP 64501, 911 Avenue Agropolis, 34394, Montpellier Cedex 5, France
| | - Ricardo Oliva
- International Rice Research Institute, DAPO Box 7777, Metro Manila, Philippines
| | - Casiana Vera-Cruz
- International Rice Research Institute, DAPO Box 7777, Metro Manila, Philippines
| | - Frank F White
- Department of Plant Pathology, University of Florida, 1449 Fifield Hall, 2550 Hull Road, PO Box 110680, Gainesville, FL, 32611, USA
| | - Bing Yang
- Department of Genetics, Development, and Cell Biology, Iowa State University, Ames, IA, 50011, USA
| | - Wolf B Frommer
- Institute for Molecular Physiology, Heinrich Heine Universität Düsseldorf, Universiätsstr. 1, 40225, Düsseldorf, Germany
- Max Planck Institute for Plant Breeding Research, Carl von Linné Weg 10, 50829, Köln, Germany
- Institute for Transformative Biomolecules (ITbM), Nagoya University, JapanITbM Building 6F, Furo, Chikusa, Nagoya, 464-8602, Japan
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110
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Mishra R, Joshi RK, Zhao K. Genome Editing in Rice: Recent Advances, Challenges, and Future Implications. FRONTIERS IN PLANT SCIENCE 2018; 9:1361. [PMID: 30283477 PMCID: PMC6156261 DOI: 10.3389/fpls.2018.01361] [Citation(s) in RCA: 56] [Impact Index Per Article: 9.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/25/2018] [Accepted: 08/28/2018] [Indexed: 05/03/2023]
Abstract
Rice (Oryza sativa L.) is the major food source for more than three billion people of the world. In the last few decades, the classical, mutational, and molecular breeding approaches have brought about tremendous increase in rice productivity with the development of novel rice varieties. However, stagnation in rice yield has been reported in recent decade owing to several factors including the emergence of pests and phyto pathogens, climate change, and other environmental issues posing great threat to global food security. There is an urgent need to produce more rice and associated cereals to satisfy the mammoth task of feeding a still growing population expected to reach 9.7 billion by 2050. Advances in genomics and emergence of multiple genome-editing technologies through use of engineered site-specific nucleases (SSNs) have revolutionized the field of plant science and agriculture. Among them, the CRISPR/Cas9 system is the most advanced and widely accepted because of its simplicity, robustness, and high efficiency. The availability of huge genomic resources together with a small genome size makes rice more suitable and feasible for genetic manipulation. As such, rice has been increasingly used to test the efficiency of different types of genome editing technologies to study the functions of various genes and demonstrate their potential in genetic improvement. Recently developed approaches including CRISPR/Cpf1 system and base editors have evolved as more efficient and accurate genome editing tools which might accelerate the pace of crop improvement. In the present review, we focus on the genome editing strategies for rice improvement, thereby highlighting the applications and advancements of CRISPR/Cas9 system. This review also sheds light on the role of CRISPR/Cpf1 and base editors in the field of genome editing highlighting major challenges and future implications of these tools in rice improvement.
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Affiliation(s)
- Rukmini Mishra
- National Key Facility for Crop Gene Resources and Genetic Improvement, Institute of Crop Science, Chinese Academy of Agricultural Sciences, Beijing, China
| | - Raj Kumar Joshi
- Department of Biotechnology, Rama Devi Women’s University, Bhubaneswar, India
| | - Kaijun Zhao
- National Key Facility for Crop Gene Resources and Genetic Improvement, Institute of Crop Science, Chinese Academy of Agricultural Sciences, Beijing, China
- *Correspondence: Kaijun Zhao,
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Mishra R, Joshi RK, Zhao K. Genome Editing in Rice: Recent Advances, Challenges, and Future Implications. FRONTIERS IN PLANT SCIENCE 2018; 9:1361. [PMID: 30283477 DOI: 10.33389/fpls.2018.01361] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Key Words] [Subscribe] [Scholar Register] [Received: 06/25/2018] [Accepted: 08/28/2018] [Indexed: 05/18/2023]
Abstract
Rice (Oryza sativa L.) is the major food source for more than three billion people of the world. In the last few decades, the classical, mutational, and molecular breeding approaches have brought about tremendous increase in rice productivity with the development of novel rice varieties. However, stagnation in rice yield has been reported in recent decade owing to several factors including the emergence of pests and phyto pathogens, climate change, and other environmental issues posing great threat to global food security. There is an urgent need to produce more rice and associated cereals to satisfy the mammoth task of feeding a still growing population expected to reach 9.7 billion by 2050. Advances in genomics and emergence of multiple genome-editing technologies through use of engineered site-specific nucleases (SSNs) have revolutionized the field of plant science and agriculture. Among them, the CRISPR/Cas9 system is the most advanced and widely accepted because of its simplicity, robustness, and high efficiency. The availability of huge genomic resources together with a small genome size makes rice more suitable and feasible for genetic manipulation. As such, rice has been increasingly used to test the efficiency of different types of genome editing technologies to study the functions of various genes and demonstrate their potential in genetic improvement. Recently developed approaches including CRISPR/Cpf1 system and base editors have evolved as more efficient and accurate genome editing tools which might accelerate the pace of crop improvement. In the present review, we focus on the genome editing strategies for rice improvement, thereby highlighting the applications and advancements of CRISPR/Cas9 system. This review also sheds light on the role of CRISPR/Cpf1 and base editors in the field of genome editing highlighting major challenges and future implications of these tools in rice improvement.
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Affiliation(s)
- Rukmini Mishra
- National Key Facility for Crop Gene Resources and Genetic Improvement, Institute of Crop Science, Chinese Academy of Agricultural Sciences, Beijing, China
| | - Raj Kumar Joshi
- Department of Biotechnology, Rama Devi Women's University, Bhubaneswar, India
| | - Kaijun Zhao
- National Key Facility for Crop Gene Resources and Genetic Improvement, Institute of Crop Science, Chinese Academy of Agricultural Sciences, Beijing, China
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112
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Yamada K, Osakabe Y. Sugar compartmentation as an environmental stress adaptation strategy in plants. Semin Cell Dev Biol 2017; 83:106-114. [PMID: 29287835 DOI: 10.1016/j.semcdb.2017.12.015] [Citation(s) in RCA: 23] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/08/2017] [Revised: 12/15/2017] [Accepted: 12/21/2017] [Indexed: 10/18/2022]
Abstract
The sessile nature of plants has driven their evolution to cope flexibly with ever-changing surrounding environments. The development of stress tolerance traits is complex, and a broad range of cellular processes are involved. Recent studies have revealed that sugar transporters contribute to environmental stress tolerance in plants, suggesting that sugar flow is dynamically fluctuated towards optimization of cellular conditions in adverse environments. Here, we highlight sugar compartmentation mediated by sugar transporters as an adaptation strategy against biotic and abiotic stresses. Competition for sugars between host plants and pathogens shapes their evolutionary arms race. Pathogens, which rely on host-derived carbon, manipulate plant sugar transporters to access sugars easily, while plants sequester sugars from pathogens by enhancing sugar uptake activity. Furthermore, we discuss pathogen tactics to circumvent sugar competition with host plants. Sugar transporters also play a role in abiotic stress tolerance. Exposure to abiotic stresses such as cold or drought stress induces sugar accumulation in various plants. We also discuss how plants allocate sugars under such conditions. Collectively, these findings are relevant to basic plant biology as well as potential applications in agriculture, and provide opportunities to improve crop yield for a growing population.
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Affiliation(s)
- Kohji Yamada
- Graduate School of Technology, Industrial and Social Sciences, Tokushima University, Tokushima, Japan; PRESTO, Japan Science and Technology Agency, Japan.
| | - Yuriko Osakabe
- Graduate School of Technology, Industrial and Social Sciences, Tokushima University, Tokushima, Japan.
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113
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Veillet F, Gaillard C, Lemonnier P, Coutos-Thévenot P, La Camera S. The molecular dialogue between Arabidopsis thaliana and the necrotrophic fungus Botrytis cinerea leads to major changes in host carbon metabolism. Sci Rep 2017; 7:17121. [PMID: 29215097 PMCID: PMC5719352 DOI: 10.1038/s41598-017-17413-y] [Citation(s) in RCA: 21] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/31/2017] [Accepted: 11/22/2017] [Indexed: 12/26/2022] Open
Abstract
Photoassimilates play crucial roles during plant-pathogen interactions, as colonizing pathogens rely on the supply of sugars from hosts. The competition for sugar acquisition at the plant-pathogen interface involves different strategies from both partners which are critical for the outcome of the interaction. Here, we dissect individual mechanisms of sugar uptake during the interaction of Arabidopsis thaliana with the necrotrophic fungus Botrytis cinerea using millicell culture insert, that enables molecular communication without physical contact. We demonstrate that B. cinerea is able to actively absorb glucose and fructose with equal capacities. Challenged Arabidopsis cells compete for extracellular monosaccharides through transcriptional reprogramming of host sugar transporter genes and activation of a complex sugar uptake system which displays differential specificity and affinity for hexoses. We provide evidence that the molecular dialogue between Arabidopsis cells and B. cinerea triggers major changes in host metabolism, including apoplastic sucrose degradation and consumption of carbohydrates and oxygen, suggesting an enhanced activity of the glycolysis and the cellular respiration. We conclude that beside a role in sugar deprivation of the pathogen by competing for sugar availability in the apoplast, the enhanced uptake of hexoses also contributes to sustain the increased activity of respiratory metabolism to fuel plant defences.
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Affiliation(s)
- Florian Veillet
- Laboratoire Ecologie et Biologie des Interactions, Equipe "SEVE-Sucres et Echanges Végétaux-Environnement", Université de Poitiers, UMR CNRS 7267, F-86073, Poitiers, France
| | - Cécile Gaillard
- Laboratoire Ecologie et Biologie des Interactions, Equipe "SEVE-Sucres et Echanges Végétaux-Environnement", Université de Poitiers, UMR CNRS 7267, F-86073, Poitiers, France
| | - Pauline Lemonnier
- Laboratoire Ecologie et Biologie des Interactions, Equipe "SEVE-Sucres et Echanges Végétaux-Environnement", Université de Poitiers, UMR CNRS 7267, F-86073, Poitiers, France
- Department of Plant Biology and Institute for Genomic Biology, University of Illinois at Urbana-Champaign, Urbana, Illinois, 61801, USA
| | - Pierre Coutos-Thévenot
- Laboratoire Ecologie et Biologie des Interactions, Equipe "SEVE-Sucres et Echanges Végétaux-Environnement", Université de Poitiers, UMR CNRS 7267, F-86073, Poitiers, France
| | - Sylvain La Camera
- Laboratoire Ecologie et Biologie des Interactions, Equipe "SEVE-Sucres et Echanges Végétaux-Environnement", Université de Poitiers, UMR CNRS 7267, F-86073, Poitiers, France.
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114
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Gao Y, Wang ZY, Kumar V, Xu XF, Yuan DP, Zhu XF, Li TY, Jia B, Xuan YH. Genome-wide identification of the SWEET gene family in wheat. Gene 2017; 642:284-292. [PMID: 29155326 DOI: 10.1016/j.gene.2017.11.044] [Citation(s) in RCA: 36] [Impact Index Per Article: 5.1] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/08/2017] [Revised: 11/02/2017] [Accepted: 11/15/2017] [Indexed: 11/17/2022]
Abstract
The SWEET (sugars will eventually be exported transporter) family is a newly characterized group of sugar transporters. In plants, the key roles of SWEETs in phloem transport, nectar secretion, pollen nutrition, stress tolerance, and plant-pathogen interactions have been identified. SWEET family genes have been characterized in many plant species, but a comprehensive analysis of SWEET members has not yet been performed in wheat. Here, 59 wheat SWEETs (hereafter TaSWEETs) were identified through homology searches. Analyses of phylogenetic relationships, numbers of transmembrane helices (TMHs), gene structures, and motifs showed that TaSWEETs carrying 3-7 TMHs could be classified into four clades with 10 different types of motifs. Examination of the expression patterns of 18 SWEET genes revealed that a few are tissue-specific while most are ubiquitously expressed. In addition, the stem rust-mediated expression patterns of SWEET genes were monitored using a stem rust-susceptible cultivar, 'Little Club' (LC). The resulting data showed that the expression of five out of the 18 SWEETs tested was induced following inoculation. In conclusion, we provide the first comprehensive analysis of the wheat SWEET gene family. Information regarding the phylogenetic relationships, gene structures, and expression profiles of SWEET genes in different tissues and following stem rust disease inoculation will be useful in identifying the potential roles of SWEETs in specific developmental and pathogenic processes.
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Affiliation(s)
- Yue Gao
- College of Plant Protection, Shenyang Agricultural University, Dongling Road 120, Shenyang 110866, China
| | - Zi Yuan Wang
- College of Plant Protection, Shenyang Agricultural University, Dongling Road 120, Shenyang 110866, China
| | - Vikranth Kumar
- Division of Applied Life Science (BK21 Plus Program), Plant Molecular Biology & Biotechnology Research Center (PMBBRC), Gyeongsang National University, Jinju 52828, Republic of Korea
| | - Xiao Feng Xu
- College of Plant Protection, Shenyang Agricultural University, Dongling Road 120, Shenyang 110866, China
| | - De Peng Yuan
- College of Plant Protection, Shenyang Agricultural University, Dongling Road 120, Shenyang 110866, China
| | - Xiao Feng Zhu
- College of Plant Protection, Shenyang Agricultural University, Dongling Road 120, Shenyang 110866, China
| | - Tian Ya Li
- College of Plant Protection, Shenyang Agricultural University, Dongling Road 120, Shenyang 110866, China
| | - Baolei Jia
- School of Bioengineering, Qilu University of Technology, Jinan 250353, China.
| | - Yuan Hu Xuan
- College of Plant Protection, Shenyang Agricultural University, Dongling Road 120, Shenyang 110866, China.
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115
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Phillips AZ, Berry JC, Wilson MC, Vijayaraghavan A, Burke J, Bunn JI, Allen TW, Wheeler T, Bart RS. Genomics-enabled analysis of the emergent disease cotton bacterial blight. PLoS Genet 2017; 13:e1007003. [PMID: 28910288 PMCID: PMC5614658 DOI: 10.1371/journal.pgen.1007003] [Citation(s) in RCA: 29] [Impact Index Per Article: 4.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/14/2017] [Revised: 09/26/2017] [Accepted: 08/31/2017] [Indexed: 01/09/2023] Open
Abstract
Cotton bacterial blight (CBB), an important disease of (Gossypium hirsutum) in the early 20th century, had been controlled by resistant germplasm for over half a century. Recently, CBB re-emerged as an agronomic problem in the United States. Here, we report analysis of cotton variety planting statistics that indicate a steady increase in the percentage of susceptible cotton varieties grown each year since 2009. Phylogenetic analysis revealed that strains from the current outbreak cluster with race 18 Xanthomonas citri pv. malvacearum (Xcm) strains. Illumina based draft genomes were generated for thirteen Xcm isolates and analyzed along with 4 previously published Xcm genomes. These genomes encode 24 conserved and nine variable type three effectors. Strains in the race 18 clade contain 3 to 5 more effectors than other Xcm strains. SMRT sequencing of two geographically and temporally diverse strains of Xcm yielded circular chromosomes and accompanying plasmids. These genomes encode eight and thirteen distinct transcription activator-like effector genes. RNA-sequencing revealed 52 genes induced within two cotton cultivars by both tested Xcm strains. This gene list includes a homeologous pair of genes, with homology to the known susceptibility gene, MLO. In contrast, the two strains of Xcm induce different clade III SWEET sugar transporters. Subsequent genome wide analysis revealed patterns in the overall expression of homeologous gene pairs in cotton after inoculation by Xcm. These data reveal important insights into the Xcm-G. hirsutum disease complex and strategies for future development of resistant cultivars. Cotton bacterial blight (CBB), caused by Xanthomonas citri pv. malvacearum (Xcm), significantly limited cotton yields in the early 20th century but has been controlled by classical resistance genes for more than 50 years. In 2011, the pathogen re-emerged with a vengeance. In this study, we compare diverse pathogen isolates and cotton varieties to further understand the virulence mechanisms employed by Xcm and to identify promising resistance strategies. We generate fully contiguous genome assemblies for two diverse Xcm strains and identify pathogen proteins used to modulate host transcription and promote susceptibility. RNA-Sequencing of infected cotton reveals novel putative gene targets for the development of durable Xcm resistance. Together, the data presented reveal contributing factors for CBB re-emergence in the U.S. and highlight several promising routes towards the development of durable resistance including classical resistance genes and potential manipulation of susceptibility targets.
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Affiliation(s)
- Anne Z. Phillips
- Donald Danforth Plant Science Center, St. Louis, MO, United States of America
- Department of Biology, Washington University in Saint Louis, St. Louis, MO, United States of America
| | - Jeffrey C. Berry
- Donald Danforth Plant Science Center, St. Louis, MO, United States of America
| | - Mark C. Wilson
- Donald Danforth Plant Science Center, St. Louis, MO, United States of America
| | | | - Jillian Burke
- Donald Danforth Plant Science Center, St. Louis, MO, United States of America
| | - J. Imani Bunn
- Donald Danforth Plant Science Center, St. Louis, MO, United States of America
| | - Tom W. Allen
- Delta Research and Extension Center, Mississippi State University, Stoneville, MS, United States of America
| | - Terry Wheeler
- Texas AgriLife Research, Texas AgriLife Extension Service, Lubbock, TX, United States of America
| | - Rebecca S. Bart
- Donald Danforth Plant Science Center, St. Louis, MO, United States of America
- * E-mail:
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116
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Julius BT, Leach KA, Tran TM, Mertz RA, Braun DM. Sugar Transporters in Plants: New Insights and Discoveries. PLANT & CELL PHYSIOLOGY 2017; 58:1442-1460. [PMID: 28922744 DOI: 10.1093/pcp/pcx090] [Citation(s) in RCA: 187] [Impact Index Per Article: 26.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/25/2017] [Accepted: 06/19/2017] [Indexed: 05/24/2023]
Abstract
Carbohydrate partitioning is the process of carbon assimilation and distribution from source tissues, such as leaves, to sink tissues, such as stems, roots and seeds. Sucrose, the primary carbohydrate transported long distance in many plant species, is loaded into the phloem and unloaded into distal sink tissues. However, many factors, both genetic and environmental, influence sucrose metabolism and transport. Therefore, understanding the function and regulation of sugar transporters and sucrose metabolic enzymes is key to improving agriculture. In this review, we highlight recent findings that (i) address the path of phloem loading of sucrose in rice and maize leaves; (ii) discuss the phloem unloading pathways in stems and roots and the sugar transporters putatively involved; (iii) describe how heat and drought stress impact carbohydrate partitioning and phloem transport; (iv) shed light on how plant pathogens hijack sugar transporters to obtain carbohydrates for pathogen survival, and how the plant employs sugar transporters to defend against pathogens; and (v) discuss novel roles for sugar transporters in plant biology. These exciting discoveries and insights provide valuable knowledge that will ultimately help mitigate the impending societal challenges due to global climate change and a growing population by improving crop yield and enhancing renewable energy production.
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Affiliation(s)
- Benjamin T Julius
- Division of Biological Sciences, Interdisciplinary Plant Group, and Missouri Maize Center, University of Missouri, 116 Tucker Hall, Columbia, MO 65211, USA
| | - Kristen A Leach
- Division of Biological Sciences, Interdisciplinary Plant Group, and Missouri Maize Center, University of Missouri, 116 Tucker Hall, Columbia, MO 65211, USA
| | - Thu M Tran
- Division of Biological Sciences, Interdisciplinary Plant Group, and Missouri Maize Center, University of Missouri, 116 Tucker Hall, Columbia, MO 65211, USA
- Plant Imaging Consortium, USA
| | - Rachel A Mertz
- Division of Biological Sciences, Interdisciplinary Plant Group, and Missouri Maize Center, University of Missouri, 116 Tucker Hall, Columbia, MO 65211, USA
| | - David M Braun
- Division of Biological Sciences, Interdisciplinary Plant Group, and Missouri Maize Center, University of Missouri, 116 Tucker Hall, Columbia, MO 65211, USA
- Plant Imaging Consortium, USA
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117
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Ruh M, Briand M, Bonneau S, Jacques MA, Chen NWG. Xanthomonas adaptation to common bean is associated with horizontal transfers of genes encoding TAL effectors. BMC Genomics 2017; 18:670. [PMID: 28854875 PMCID: PMC5577687 DOI: 10.1186/s12864-017-4087-6] [Citation(s) in RCA: 26] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/03/2017] [Accepted: 08/24/2017] [Indexed: 12/25/2022] Open
Abstract
Background Common bacterial blight is a devastating bacterial disease of common bean (Phaseolus vulgaris) caused by Xanthomonas citri pv. fuscans and Xanthomonas phaseoli pv. phaseoli. These phylogenetically distant strains are able to cause similar symptoms on common bean, suggesting that they have acquired common genetic determinants of adaptation to common bean. Transcription Activator-Like (TAL) effectors are bacterial type III effectors that are able to induce the expression of host genes to promote infection or resistance. Their capacity to bind to a specific host DNA sequence suggests that they are potential candidates for host adaption. Results To study the diversity of tal genes from Xanthomonas strains responsible for common bacterial blight of bean, whole genome sequences of 17 strains representing the diversity of X. citri pv. fuscans and X. phaseoli pv. phaseoli were obtained by single molecule real time sequencing. Analysis of these genomes revealed the existence of four tal genes named tal23A, tal20F, tal18G and tal18H, respectively. While tal20F and tal18G were chromosomic, tal23A and tal18H were carried on plasmids and shared between phylogenetically distant strains, therefore suggesting recent horizontal transfers of these genes between X. citri pv. fuscans and X. phaseoli pv. phaseoli strains. Strikingly, tal23A was present in all strains studied, suggesting that it played an important role in adaptation to common bean. In silico predictions of TAL effectors targets in the common bean genome suggested that TAL effectors shared by X. citri pv. fuscans and X. phaseoli pv. phaseoli strains target the promoters of genes of similar functions. This could be a trace of convergent evolution among TAL effectors from different phylogenetic groups, and comforts the hypothesis that TAL effectors have been implied in the adaptation to common bean. Conclusions Altogether, our results favour a model where plasmidic TAL effectors are able to contribute to host adaptation by being horizontally transferred between distant lineages. Electronic supplementary material The online version of this article (10.1186/s12864-017-4087-6) contains supplementary material, which is available to authorized users.
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Affiliation(s)
- Mylène Ruh
- IRHS, INRA, AGROCAMPUS OUEST, Université d'Angers, SFR4207 QUASAV, 42, rue Georges Morel, 49071, Beaucouzé, France
| | - Martial Briand
- IRHS, INRA, AGROCAMPUS OUEST, Université d'Angers, SFR4207 QUASAV, 42, rue Georges Morel, 49071, Beaucouzé, France
| | - Sophie Bonneau
- IRHS, INRA, AGROCAMPUS OUEST, Université d'Angers, SFR4207 QUASAV, 42, rue Georges Morel, 49071, Beaucouzé, France
| | - Marie-Agnès Jacques
- IRHS, INRA, AGROCAMPUS OUEST, Université d'Angers, SFR4207 QUASAV, 42, rue Georges Morel, 49071, Beaucouzé, France
| | - Nicolas W G Chen
- IRHS, INRA, AGROCAMPUS OUEST, Université d'Angers, SFR4207 QUASAV, 42, rue Georges Morel, 49071, Beaucouzé, France.
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118
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Falahi Charkhabi N, Booher NJ, Peng Z, Wang L, Rahimian H, Shams-Bakhsh M, Liu Z, Liu S, White FF, Bogdanove AJ. Complete Genome Sequencing and Targeted Mutagenesis Reveal Virulence Contributions of Tal2 and Tal4b of Xanthomonas translucens pv. undulosa ICMP11055 in Bacterial Leaf Streak of Wheat. Front Microbiol 2017; 8:1488. [PMID: 28848509 PMCID: PMC5554336 DOI: 10.3389/fmicb.2017.01488] [Citation(s) in RCA: 27] [Impact Index Per Article: 3.9] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/09/2017] [Accepted: 07/24/2017] [Indexed: 12/31/2022] Open
Abstract
Bacterial leaf streak caused by Xanthomonas translucens pv. undulosa (Xtu) is an important disease of wheat (Triticum aestivum) and barley (Hordeum vulgare) worldwide. Transcription activator-like effectors (TALEs) play determinative roles in many of the plant diseases caused by the different species and pathovars of Xanthomonas, but their role in this disease has not been characterized. ICMP11055 is a highly virulent Xtu strain from Iran. The aim of this study was to better understand genetic diversity of Xtu and to assess the role of TALEs in bacterial leaf streak of wheat by comparing the genome of this strain to the recently completely sequenced genome of a U.S. Xtu strain, and to several other draft X. translucens genomes, and by carrying out mutational analyses of the TALE (tal) genes the Iranian strain might harbor. The ICMP11055 genome, including its repeat-rich tal genes, was completely sequenced using single molecule, real-time technology (Pacific Biosciences). It consists of a single circular chromosome of 4,561,583 bp, containing 3,953 genes. Whole genome alignment with the genome of the United States Xtu strain XT4699 showed two major re-arrangements, nine genomic regions unique to ICMP11055, and one region unique to XT4699. ICMP110055 harbors 26 non-TALE type III effector genes and seven tal genes, compared to 25 and eight for XT4699. The tal genes occur singly or in pairs across five scattered loci. Four are identical to tal genes in XT4699. In addition to common repeat-variable diresidues (RVDs), the tal genes of ICMP11055, like those of XT4699, encode several RVDs rarely observed in Xanthomonas, including KG, NF, Y∗, YD, and YK. Insertion and deletion mutagenesis of ICMP11055 tal genes followed by genetic complementation analysis in wheat cv. Chinese Spring revealed that Tal2 and Tal4b of ICMP11055 each contribute individually to the extent of disease caused by this strain. A largely conserved ortholog of tal2 is present in XT4699, but for tal4b, only a gene with partial, fragmented RVD sequence similarity can be found. Our results lay the foundation for identification of important host genes activated by Xtu TALEs as targets for the development of disease resistant varieties.
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Affiliation(s)
- Nargues Falahi Charkhabi
- Plant Pathology and Plant-Microbe Biology Section, School of Integrative Plant Science, Cornell University, IthacaNY, United States.,Department of Plant Pathology, Tarbiat Modares UniversityTehran, Iran
| | - Nicholas J Booher
- Plant Pathology and Plant-Microbe Biology Section, School of Integrative Plant Science, Cornell University, IthacaNY, United States
| | - Zhao Peng
- Department of Plant Pathology, Kansas State University, ManhattanKS, United States.,Department of Plant Pathology, University of Florida, GainesvilleFL, United States
| | - Li Wang
- Plant Pathology and Plant-Microbe Biology Section, School of Integrative Plant Science, Cornell University, IthacaNY, United States
| | - Heshmat Rahimian
- Department of Plant Protection, Sari Agricultural Science and Natural Resources UniversitySari, Iran
| | | | - Zhaohui Liu
- Department of Plant Pathology, North Dakota State University, FargoND, United States
| | - Sanzhen Liu
- Department of Plant Pathology, Kansas State University, ManhattanKS, United States
| | - Frank F White
- Department of Plant Pathology, Kansas State University, ManhattanKS, United States.,Department of Plant Pathology, University of Florida, GainesvilleFL, United States
| | - Adam J Bogdanove
- Plant Pathology and Plant-Microbe Biology Section, School of Integrative Plant Science, Cornell University, IthacaNY, United States
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Gebauer P, Korn M, Engelsdorf T, Sonnewald U, Koch C, Voll LM. Sugar Accumulation in Leaves of Arabidopsis sweet11/sweet12 Double Mutants Enhances Priming of the Salicylic Acid-Mediated Defense Response. FRONTIERS IN PLANT SCIENCE 2017; 8:1378. [PMID: 28848581 PMCID: PMC5550771 DOI: 10.3389/fpls.2017.01378] [Citation(s) in RCA: 57] [Impact Index Per Article: 8.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/02/2017] [Accepted: 07/24/2017] [Indexed: 05/21/2023]
Abstract
In compatible interactions, biotrophic microbial phytopathogens rely on the supply of assimilates by the colonized host tissue. It has been found in rice that phloem localized SWEET sucrose transporters can be reprogrammed by bacterial effectors to establish compatibility. We observed that sweet11/sweet12 double mutants, but not single mutants, exhibited increased resistance toward the fungal hemibiotroph Colletotrichum higginsianum (Ch), both in the biotrophic and the necrotrophic colonization phase. We therefore investigated if the phloem localized transporters AtSWEET11 and AtSWEET12 represent additive susceptibility factors in the interaction of Arabidopsis with Ch. AtSWEET12-YFP fusion protein driven by the endogenous promoter strongly accumulated at Ch infection sites and in the vasculature upon challenge with Ch. However, susceptibility of sweet12 single mutants to Ch was comparable to wild type, indicating that the accumulation of AtSWEET12 at Ch infection sites does not play a major role for compatibility. AtSWEET12-YFP reporter protein was not detectable at the plant-pathogen interface, suggesting that AtSWEET12 is not targeted by Ch effectors. AtSWEET11-YFP accumulation in pAtSWEET11:AtSWEET11-YFP plants were similar in Ch infected and mock control leaves. A close inspection of major carbohydrate metabolism in non-infected control plants revealed that soluble sugar and starch content were substantially elevated in sweet11/sweet12 double mutants during the entire diurnal cycle, that diurnal soluble sugar turnover was increased more than twofold in sweet11/sweet12, and that accumulation of free hexoses and sucrose was strongly expedited in double mutant leaves compared to wild type and both single mutants during the course of Ch infection. After 2 days of treatment, free and conjugated SA levels were significantly increased in infected and mock control leaves of sweet11/sweet12 relative to all other genotypes, respectively. Induced genes in mock treated sweet11/sweet12 leaves were highly significantly enriched for several GO terms associated with SA signaling and response compared to mock treated wild-type leaves, indicating sugar-mediated priming of the SA pathway in the double mutant. Infection assays with salicylic acid deficient sweet11/sweet12/sid2 triple mutants demonstrated that reduced susceptibility observed in sweet11/sweet12 was entirely dependent on the SA pathway. We suggest a model how defects in phloem loading of sucrose can influence SA priming and hence, compatibility.
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Affiliation(s)
| | | | | | | | | | - Lars M. Voll
- Division of Biochemistry, Friedrich-Alexander-Universität Erlangen-NürnbergErlangen, Germany
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120
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Oliva R, Quibod IL. Immunity and starvation: new opportunities to elevate disease resistance in crops. CURRENT OPINION IN PLANT BIOLOGY 2017; 38:84-91. [PMID: 28505583 DOI: 10.1016/j.pbi.2017.04.020] [Citation(s) in RCA: 15] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/19/2017] [Revised: 04/27/2017] [Accepted: 04/30/2017] [Indexed: 05/18/2023]
Abstract
Plants use multiple mechanisms to defend themselves against invading microbes. Besides using their immune system to surveil and eliminate pathogens, plants actively block the pathogens' access to nutrients as an alternative way to prevent colonization. In this review, we focus on immunity and starvation as major obstacles for pathogens' adaptation. We summarize the key mechanisms employed by pathogens to modulate host immunity and to guarantee sugar uptake. In contrast to genes that deal with the immune system and show high levels of plasticity, pathogen genes involved in sugar acquisition are highly conserved, and may not have adapted to co-evolving interactions with the host. We propose a model to assess the durability of different control strategies based on the ability of pathogens to deal with host immunity or starvation. This analysis opens new opportunities to elevate disease resistance in crops by reducing the likelihood of pathogen adaptation.
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Affiliation(s)
- Ricardo Oliva
- Genetics and Biotechnology Division, International Rice Research Institute, Los Baños, Philippines.
| | - Ian Lorenzo Quibod
- Genetics and Biotechnology Division, International Rice Research Institute, Los Baños, Philippines
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121
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McCallum EJ, Anjanappa RB, Gruissem W. Tackling agriculturally relevant diseases in the staple crop cassava (Manihot esculenta). CURRENT OPINION IN PLANT BIOLOGY 2017; 38:50-58. [PMID: 28477536 DOI: 10.1016/j.pbi.2017.04.008] [Citation(s) in RCA: 32] [Impact Index Per Article: 4.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/28/2017] [Revised: 04/02/2017] [Accepted: 04/10/2017] [Indexed: 06/07/2023]
Abstract
Cassava is an important staple food crop for millions of people in tropical regions across Africa, South America and Asia. Viral, bacterial and fungal diseases impact cassava yield in all three regions. The viruses causing cassava mosaic disease and cassava brown streak disease have been particularly devastating to cassava production in Africa. Improved farming practices and disease monitoring can reduce the impact of cassava diseases in the field. The availability of disease resistant cassava varieties developed through breeding or genetic engineering is key to tackling disease incidence and severity.
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Affiliation(s)
- Emily J McCallum
- Department of Biology, Plant Biotechnology, ETH Zurich, CH-8092 Zurich, Switzerland
| | - Ravi B Anjanappa
- Department of Biology, Plant Biotechnology, ETH Zurich, CH-8092 Zurich, Switzerland
| | - Wilhelm Gruissem
- Department of Biology, Plant Biotechnology, ETH Zurich, CH-8092 Zurich, Switzerland.
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122
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Zhang J, Huguet ‐Tapia JC, Hu Y, Jones J, Wang N, Liu S, White FF. Homologues of CsLOB1 in citrus function as disease susceptibility genes in citrus canker. MOLECULAR PLANT PATHOLOGY 2017; 18:798-810. [PMID: 27276658 PMCID: PMC6638217 DOI: 10.1111/mpp.12441] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/21/2015] [Revised: 05/01/2016] [Accepted: 06/05/2016] [Indexed: 05/06/2023]
Abstract
The lateral organ boundary domain (LBD) genes encode a group of plant-specific proteins that function as transcription factors in the regulation of plant growth and development. Citrus sinensis lateral organ boundary 1 (CsLOB1) is a member of the LBD family and functions as a disease susceptibility gene in citrus bacterial canker (CBC). Thirty-four LBD members have been identified from the Citrus sinensis genome. We assessed the potential for additional members of LBD genes in citrus to function as surrogates for CsLOB1 in CBC, and compared host gene expression on induction of different LBD genes. Using custom-designed transcription activator-like (TAL) effectors, two members of the same clade as CsLOB1, named CsLOB2 and CsLOB3, were found to be capable of functioning similarly to CsLOB1 in CBC. RNA sequencing and quantitative reverse transcription-polymerase chain reaction analyses revealed a set of cell wall metabolic genes that are associated with CsLOB1, CsLOB2 and CsLOB3 expression and may represent downstream genes involved in CBC.
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Affiliation(s)
- Junli Zhang
- Department of Plant PathologyUniversity of FloridaGainesvilleFLUSA 32611
| | | | - Yang Hu
- Department of Plant PathologyUniversity of FloridaGainesvilleFLUSA 32611
- Present address:
Institute of Genetics and Developmental BiologyChinese Academy of SciencesBeijingChina 100101
| | - Jeffrey Jones
- Department of Plant PathologyUniversity of FloridaGainesvilleFLUSA 32611
| | - Nian Wang
- Citrus Research and Education Center/Department of Microbiology and Cell ScienceUniversity of FloridaLake AlfredFLUSA 33850
| | - Sanzhen Liu
- Department of Plant PathologyKansas State UniversityManhattanKSUSA 66506
| | - Frank F. White
- Department of Plant PathologyUniversity of FloridaGainesvilleFLUSA 32611
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123
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Schatschneider S, Schneider J, Blom J, Létisse F, Niehaus K, Goesmann A, Vorhölter FJ. Systems and synthetic biology perspective of the versatile plant-pathogenic and polysaccharide-producing bacterium Xanthomonas campestris. Microbiology (Reading) 2017; 163:1117-1144. [DOI: 10.1099/mic.0.000473] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/15/2022] Open
Affiliation(s)
- Sarah Schatschneider
- Abteilung für Proteom und Metabolomforschung, Centrum für Biotechnologie (CeBiTec), Universität Bielefeld, Bielefeld, Germany
- Present address: Evonik Nutrition and Care GmbH, Kantstr. 2, 33790 Halle-Künsebeck, Germany
| | - Jessica Schneider
- Bioinformatics Resource Facility, Centrum für Biotechnologie, Universität Bielefeld, Germany
- Present address: Evonik Nutrition and Care GmbH, Kantstr. 2, 33790 Halle-Künsebeck, Germany
| | - Jochen Blom
- Bioinformatics and Systems Biology, Justus-Liebig-University Gießen, Germany
| | - Fabien Létisse
- LISBP, Université de Toulouse, CNRS, INRA, INSA, Toulouse, France
| | - Karsten Niehaus
- Abteilung für Proteom und Metabolomforschung, Centrum für Biotechnologie (CeBiTec), Universität Bielefeld, Bielefeld, Germany
| | - Alexander Goesmann
- Bioinformatics and Systems Biology, Justus-Liebig-University Gießen, Germany
| | - Frank-Jörg Vorhölter
- Institut für Genomforschung und Systembiologie, Centrum für Biotechnology (CeBiTec), Universität Bielefeld, Bielefeld, Germany
- Present address: MVZ Dr. Eberhard & Partner Dortmund, Dortmund, Germany
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124
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Generation of dTALEs and Libraries of Synthetic TALE-Activated Promoters for Engineering of Gene Regulatory Networks in Plants. Methods Mol Biol 2017. [PMID: 28623587 DOI: 10.1007/978-1-4939-7125-1_13] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 04/28/2023]
Abstract
Transcription factors with programmable DNA-binding specificity constitute valuable tools for the design of orthogonal gene regulatory networks for synthetic biology. Transcription activator-like effectors (TALEs), as natural transcription regulators, were used to design, build, and test libraries of synthetic TALE-activated promoters (STAPs) that show a broad range of expression levels in plants. In this chapter, we present protocols for the construction of artificial TALEs and corresponding STAPs.
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125
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Genome-wide analyses of SWEET family proteins reveal involvement in fruit development and abiotic/biotic stress responses in banana. Sci Rep 2017; 7:3536. [PMID: 28615718 PMCID: PMC5471243 DOI: 10.1038/s41598-017-03872-w] [Citation(s) in RCA: 51] [Impact Index Per Article: 7.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/24/2016] [Accepted: 05/08/2017] [Indexed: 12/15/2022] Open
Abstract
Sugars Will Eventually be Exported Transporters (SWEET) are a novel type of sugar transporter that plays crucial roles in multiple biological processes. From banana, for the first time, 25 SWEET genes which could be classified into four subfamilies were identified. Majority of MaSWEETs in each subfamily shared similar gene structures and conserved motifs. Comprehensive transcriptomic analysis of two banana genotypes revealed differential expression patterns of MaSWEETs in different tissues, at various stages of fruit development and ripening, and in response to abiotic and biotic stresses. More than 80% MaSWEETs were highly expressed in BaXi Jiao (BX, Musa acuminata AAA group, cv. Cavendish), in sharp contrast to Fen Jiao (FJ, M. acuminata AAB group) when pseudostem was first emerged. However, MaSWEETs in FJ showed elevated expression under cold, drought, salt, and fungal disease stresses, but not in BX. Interaction networks and co-expression assays further revealed that MaSWEET-mediated networks participate in fruit development signaling and abiotic/biotic stresses, which was strongly activated during early stage of fruit development in BX. This study provides new insights into the complex transcriptional regulation of SWEETs, as well as numerous candidate genes that promote early sugar transport to improve fruit quality and enhance stress resistance in banana.
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126
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Cox KL, Meng F, Wilkins KE, Li F, Wang P, Booher NJ, Carpenter SCD, Chen LQ, Zheng H, Gao X, Zheng Y, Fei Z, Yu JZ, Isakeit T, Wheeler T, Frommer WB, He P, Bogdanove AJ, Shan L. TAL effector driven induction of a SWEET gene confers susceptibility to bacterial blight of cotton. Nat Commun 2017; 8:15588. [PMID: 28537271 PMCID: PMC5458083 DOI: 10.1038/ncomms15588] [Citation(s) in RCA: 109] [Impact Index Per Article: 15.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/16/2016] [Accepted: 04/11/2017] [Indexed: 12/22/2022] Open
Abstract
Transcription activator-like (TAL) effectors from Xanthomonas citri subsp. malvacearum (Xcm) are essential for bacterial blight of cotton (BBC). Here, by combining transcriptome profiling with TAL effector-binding element (EBE) prediction, we show that GhSWEET10, encoding a functional sucrose transporter, is induced by Avrb6, a TAL effector determining Xcm pathogenicity. Activation of GhSWEET10 by designer TAL effectors (dTALEs) restores virulence of Xcm avrb6 deletion strains, whereas silencing of GhSWEET10 compromises cotton susceptibility to infections. A BBC-resistant line carrying an unknown recessive b6 gene bears the same EBE as the susceptible line, but Avrb6-mediated induction of GhSWEET10 is reduced, suggesting a unique mechanism underlying b6-mediated resistance. We show via an extensive survey of GhSWEET transcriptional responsiveness to different Xcm field isolates that additional GhSWEETs may also be involved in BBC. These findings advance our understanding of the disease and resistance in cotton and may facilitate the development cotton with improved resistance to BBC. Transcription activator-like effectors contribute to virulence of the Xanthomonas strain responsible for bacterial blight in cotton. Here Cox et al. show that the Xanthomonas Avrb6 effector induces expression of the cotton SWEET10 sugar transporter and that this induction promotes disease.
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Affiliation(s)
- Kevin L Cox
- Department of Plant Pathology and Microbiology, Texas A&M University, College Station, Texas 77843, USA.,Institute for Plant Genomics and Biotechnology, Texas A&M University, College Station, Texas 77843, USA
| | - Fanhong Meng
- Department of Plant Pathology and Microbiology, Texas A&M University, College Station, Texas 77843, USA.,Institute for Plant Genomics and Biotechnology, Texas A&M University, College Station, Texas 77843, USA
| | - Katherine E Wilkins
- Plant Pathology and Plant-Microbe Biology Section, School of Integrative Plant Science, Cornell University, Ithaca, New York 14853, USA
| | - Fangjun Li
- Department of Plant Pathology and Microbiology, Texas A&M University, College Station, Texas 77843, USA.,Institute for Plant Genomics and Biotechnology, Texas A&M University, College Station, Texas 77843, USA
| | - Ping Wang
- Department of Plant Pathology and Microbiology, Texas A&M University, College Station, Texas 77843, USA.,Institute for Plant Genomics and Biotechnology, Texas A&M University, College Station, Texas 77843, USA
| | - Nicholas J Booher
- Plant Pathology and Plant-Microbe Biology Section, School of Integrative Plant Science, Cornell University, Ithaca, New York 14853, USA
| | - Sara C D Carpenter
- Plant Pathology and Plant-Microbe Biology Section, School of Integrative Plant Science, Cornell University, Ithaca, New York 14853, USA
| | - Li-Qing Chen
- Department of Plant Biology, School of Integrative Biology, University of Illinois at Urbana-Champaign, Champaign, Illinois 61801, USA
| | - Hui Zheng
- Plant Pathology and Plant-Microbe Biology Section, School of Integrative Plant Science, Cornell University, Ithaca, New York 14853, USA
| | - Xiquan Gao
- Institute for Plant Genomics and Biotechnology, Texas A&M University, College Station, Texas 77843, USA.,Department of Biochemistry and Biophysics, Texas A&M University, College Station, Texas 77843, USA.,State Key Laboratory of Crop Genetics and Germplasm Enhancement, College of Agriculture, Nanjing Agricultural University, Nanjing 210095, China
| | - Yi Zheng
- Boyce Thompson Institute, Cornell University, Ithaca, New York 14853, USA
| | - Zhangjun Fei
- Boyce Thompson Institute, Cornell University, Ithaca, New York 14853, USA
| | - John Z Yu
- USDA-ARS, Southern Plains Agricultural Research Center, College Station, Texas 77845, USA
| | - Thomas Isakeit
- Department of Plant Pathology and Microbiology, Texas A&M University, College Station, Texas 77843, USA
| | - Terry Wheeler
- Department of Plant Pathology and Microbiology, Texas A&M University, College Station, Texas 77843, USA.,Texas Agricultural Experiment Station, Lubbock, Texas 79403, USA
| | - Wolf B Frommer
- Carnegie Science, Department of Plant Biology, 260 Panama Street, Stanford, California 94305, USA
| | - Ping He
- Institute for Plant Genomics and Biotechnology, Texas A&M University, College Station, Texas 77843, USA.,Department of Biochemistry and Biophysics, Texas A&M University, College Station, Texas 77843, USA
| | - Adam J Bogdanove
- Plant Pathology and Plant-Microbe Biology Section, School of Integrative Plant Science, Cornell University, Ithaca, New York 14853, USA
| | - Libo Shan
- Department of Plant Pathology and Microbiology, Texas A&M University, College Station, Texas 77843, USA.,Institute for Plant Genomics and Biotechnology, Texas A&M University, College Station, Texas 77843, USA
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127
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Bart RS, Taylor NJ. New opportunities and challenges to engineer disease resistance in cassava, a staple food of African small-holder farmers. PLoS Pathog 2017; 13:e1006287. [PMID: 28493983 PMCID: PMC5426740 DOI: 10.1371/journal.ppat.1006287] [Citation(s) in RCA: 25] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/01/2023] Open
Affiliation(s)
- Rebecca S. Bart
- Donald Danforth Plant Science Center, St. Louis, Missouri, United States of America
| | - Nigel J. Taylor
- Donald Danforth Plant Science Center, St. Louis, Missouri, United States of America
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128
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Cao Y, Halane MK, Gassmann W, Stacey G. The Role of Plant Innate Immunity in the Legume-Rhizobium Symbiosis. ANNUAL REVIEW OF PLANT BIOLOGY 2017; 68:535-561. [PMID: 28142283 DOI: 10.1146/annurev-arplant-042916-041030] [Citation(s) in RCA: 93] [Impact Index Per Article: 13.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/06/2023]
Abstract
A classic view of the evolution of mutualism is that it derives from a pathogenic relationship that attenuated over time to a situation in which both partners can benefit. If this is the case for rhizobia, then one might uncover features of the symbiosis that reflect this earlier pathogenic state. For example, as with plant pathogens, it is now generally assumed that rhizobia actively suppress the host immune response to allow infection and symbiosis establishment. Likewise, the host has retained mechanisms to control the nutrient supply to the symbionts and the number of nodules so that they do not become too burdensome. The open question is whether such events are strictly ancillary to the central symbiotic nodulation factor signaling pathway or are essential for rhizobial host infection. Subsequent to these early infection events, plant immune responses can also be induced inside nodules and likely play a role in, for example, nodule senescence. Thus, a balanced regulation of innate immunity is likely required throughout rhizobial infection, symbiotic establishment, and maintenance. In this review, we discuss the significance of plant immune responses in the regulation of symbiotic associations with rhizobia, as well as rhizobial evasion of the host immune system.
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Affiliation(s)
- Yangrong Cao
- State Key Laboratory of Agricultural Microbiology, College of Life Science and Technology, Huazhong Agricultural University, Wuhan 430070, China
| | - Morgan K Halane
- Division of Plant Sciences, C.S. Bond Life Sciences Center, and Interdisciplinary Plant Group, University of Missouri, Columbia, Missouri 65211
| | - Walter Gassmann
- Division of Plant Sciences, C.S. Bond Life Sciences Center, and Interdisciplinary Plant Group, University of Missouri, Columbia, Missouri 65211
| | - Gary Stacey
- Division of Plant Sciences, C.S. Bond Life Sciences Center, and Interdisciplinary Plant Group, University of Missouri, Columbia, Missouri 65211
- Division of Biochemistry, University of Missouri, Columbia, Missouri 65211;
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129
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Streubel J, Baum H, Grau J, Stuttman J, Boch J. Dissection of TALE-dependent gene activation reveals that they induce transcription cooperatively and in both orientations. PLoS One 2017; 12:e0173580. [PMID: 28301511 PMCID: PMC5354296 DOI: 10.1371/journal.pone.0173580] [Citation(s) in RCA: 15] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/04/2016] [Accepted: 02/22/2017] [Indexed: 11/19/2022] Open
Abstract
Plant-pathogenic Xanthomonas bacteria inject transcription activator-like effector proteins (TALEs) into host cells to specifically induce transcription of plant genes and enhance susceptibility. Although the DNA-binding mode is well-understood it is still ambiguous how TALEs initiate transcription and whether additional promoter elements are needed to support this. To systematically dissect prerequisites for transcriptional initiation the activity of one TALE was compared on different synthetic Bs4 promoter fragments. In addition, a large collection of artificial TALEs spanning the OsSWEET14 promoter was compared. We show that the presence of a TALE alone is not sufficient to initiate transcription suggesting the requirement of additional supporting promoter elements. At the OsSWEET14 promoter TALEs can initiate transcription from various positions, in a synergistic manner of multiple TALEs binding in parallel to the promoter, and even by binding in reverse orientation. TALEs are known to shift the transcriptional start site, but our data show that this shift depends on the individual position of a TALE within a promoter context. Our results implicate that TALEs function like classical enhancer-binding proteins and initiate transcription in both orientations which has consequences for in planta target gene prediction and design of artificial activators.
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Affiliation(s)
- Jana Streubel
- Institute of Plant Genetics, Leibniz Universität Hannover, Hannover, Germany
- Department of Plant Genetics, Martin-Luther-Universität Halle-Wittenberg, Halle (Saale), Germany
| | - Heidi Baum
- Department of Plant Genetics, Martin-Luther-Universität Halle-Wittenberg, Halle (Saale), Germany
| | - Jan Grau
- Institute of Computer Science, Martin-Luther-Universität Halle-Wittenberg, Halle (Saale), Germany
| | - Johannes Stuttman
- Department of Plant Genetics, Martin-Luther-Universität Halle-Wittenberg, Halle (Saale), Germany
| | - Jens Boch
- Institute of Plant Genetics, Leibniz Universität Hannover, Hannover, Germany
- Department of Plant Genetics, Martin-Luther-Universität Halle-Wittenberg, Halle (Saale), Germany
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130
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Blanvillain‐Baufumé S, Reschke M, Solé M, Auguy F, Doucoure H, Szurek B, Meynard D, Portefaix M, Cunnac S, Guiderdoni E, Boch J, Koebnik R. Targeted promoter editing for rice resistance to Xanthomonas oryzae pv. oryzae reveals differential activities for SWEET14-inducing TAL effectors. PLANT BIOTECHNOLOGY JOURNAL 2017; 15:306-317. [PMID: 27539813 PMCID: PMC5316920 DOI: 10.1111/pbi.12613] [Citation(s) in RCA: 104] [Impact Index Per Article: 14.9] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/12/2016] [Revised: 08/12/2016] [Accepted: 08/12/2016] [Indexed: 05/04/2023]
Abstract
As a key virulence strategy to cause bacterial leaf blight, Xanthomonas oryzae pv. oryzae (Xoo) injects into the plant cell DNA-binding proteins called transcription activator-like effectors (TALEs) that bind to effector-binding elements (EBEs) in a sequence-specific manner, resulting in host gene induction. TALEs AvrXa7, PthXo3, TalC and Tal5, found in geographically distant Xoo strains, all target OsSWEET14, thus considered as a pivotal TALE target acting as major susceptibility factor during rice-Xoo interactions. Here, we report the generation of an allele library of the OsSWEET14 promoter through stable expression of TALE-nuclease (TALEN) constructs in rice. The susceptibility level of lines carrying mutations in AvrXa7, Tal5 or TalC EBEs was assessed. Plants edited in AvrXa7 or Tal5 EBEs were resistant to bacterial strains relying on the corresponding TALE. Surprisingly, although indels within TalC EBE prevented OsSWEET14 induction in response to BAI3 wild-type bacteria relying on TalC, loss of TalC responsiveness failed to confer resistance to this strain. The TalC EBE mutant line was, however, resistant to a strain expressing an artificial SWEET14-inducing TALE whose EBE was also edited in this line. This work offers the first set of alleles edited in TalC EBE and uncovers a distinct, broader range of activities for TalC compared to AvrXa7 or Tal5. We propose the existence of additional targets for TalC beyond SWEET14, suggesting that TALE-mediated plant susceptibility may result from induction of several, genetically redundant, host susceptibility genes by a single effector.
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Affiliation(s)
- Servane Blanvillain‐Baufumé
- UMR Interactions Plantes Microorganismes Environnement (IPME)IRD‐CIRAD‐UniversitéMontpellierFrance
- Present address: LabEx CeMEBUniversité de MontpellierMontpellierFrance
| | - Maik Reschke
- Institut für BiologieInstitutsbereich GenetikMartin‐Luther‐Universität Halle‐WittenbergHalle (Saale)Germany
- Present address: Institut für PflanzengenetikLeibniz Universität HannoverHannoverGermany
| | - Montserrat Solé
- Institut für BiologieInstitutsbereich GenetikMartin‐Luther‐Universität Halle‐WittenbergHalle (Saale)Germany
- Present address: Sustainable Agro Solutions S.A.Almacelles (Lleida)Spain
| | - Florence Auguy
- UMR Interactions Plantes Microorganismes Environnement (IPME)IRD‐CIRAD‐UniversitéMontpellierFrance
| | - Hinda Doucoure
- UMR Interactions Plantes Microorganismes Environnement (IPME)IRD‐CIRAD‐UniversitéMontpellierFrance
| | - Boris Szurek
- UMR Interactions Plantes Microorganismes Environnement (IPME)IRD‐CIRAD‐UniversitéMontpellierFrance
| | - Donaldo Meynard
- CIRADUMR AGAP (Amélioration génétique et Adaptation des Plantes)MontpellierFrance
| | - Murielle Portefaix
- CIRADUMR AGAP (Amélioration génétique et Adaptation des Plantes)MontpellierFrance
| | - Sébastien Cunnac
- UMR Interactions Plantes Microorganismes Environnement (IPME)IRD‐CIRAD‐UniversitéMontpellierFrance
| | - Emmanuel Guiderdoni
- CIRADUMR AGAP (Amélioration génétique et Adaptation des Plantes)MontpellierFrance
| | - Jens Boch
- Institut für BiologieInstitutsbereich GenetikMartin‐Luther‐Universität Halle‐WittenbergHalle (Saale)Germany
- Present address: Institut für PflanzengenetikLeibniz Universität HannoverHannoverGermany
| | - Ralf Koebnik
- UMR Interactions Plantes Microorganismes Environnement (IPME)IRD‐CIRAD‐UniversitéMontpellierFrance
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131
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Wang L, Rinaldi FC, Singh P, Doyle EL, Dubrow ZE, Tran TT, Pérez-Quintero AL, Szurek B, Bogdanove AJ. TAL Effectors Drive Transcription Bidirectionally in Plants. MOLECULAR PLANT 2017; 10:285-296. [PMID: 27965000 DOI: 10.1016/j.molp.2016.12.002] [Citation(s) in RCA: 18] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/27/2016] [Revised: 11/29/2016] [Accepted: 12/01/2016] [Indexed: 06/06/2023]
Abstract
TAL effectors delivered by phytopathogenic Xanthomonas species are DNA-sequence-specific transcriptional activators of host susceptibility genes and sometimes resistance genes. The modularity of DNA recognition by TAL effectors makes them important also as tools for gene targeting and genome editing. Effector binding elements (EBEs) recognized by native TAL effectors in plants have been identified only on the forward strand of target promoters. Here, we demonstrate that TAL effectors can drive plant transcription from EBEs on either strand and in both directions. Furthermore, we show that a native TAL effector from Xanthomonas oryzae pv. oryzicola drives expression of a target with an EBE on each strand of its promoter. By inserting that promoter and derivatives between two reporter genes oriented head to head, we show that the TAL effector drives expression from either EBE in the respective orientations, and that activity at the reverse-strand EBE also potentiates forward transcription driven by activity at the forward-strand EBE. Our results reveal new modes of action for TAL effectors, suggesting the possibility of yet unrecognized targets important in plant disease, expanding the search space for off-targets of custom TAL effectors, and highlighting the potential of TAL effectors for probing fundamental aspects of plant transcription.
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Affiliation(s)
- Li Wang
- Plant Pathology and Plant-Microbe Biology Section, School of Integrative Plant Science, Cornell University, 334 Plant Science Building, Ithaca, NY 14853, USA
| | - Fabio C Rinaldi
- Plant Pathology and Plant-Microbe Biology Section, School of Integrative Plant Science, Cornell University, 334 Plant Science Building, Ithaca, NY 14853, USA
| | - Pallavi Singh
- Plant Pathology and Plant-Microbe Biology Section, School of Integrative Plant Science, Cornell University, 334 Plant Science Building, Ithaca, NY 14853, USA
| | - Erin L Doyle
- Department of Biology, Doane University, 1014 Boswell Avenue, Crete, NE 68333, USA
| | - Zoe E Dubrow
- Plant Pathology and Plant-Microbe Biology Section, School of Integrative Plant Science, Cornell University, 334 Plant Science Building, Ithaca, NY 14853, USA
| | - Tuan Tu Tran
- UMR Interactions-Plantes-Microorganismes-Environnement, IRD-Cirad-Université Montpellier, Montpellier, France
| | - Alvaro L Pérez-Quintero
- UMR Interactions-Plantes-Microorganismes-Environnement, IRD-Cirad-Université Montpellier, Montpellier, France
| | - Boris Szurek
- UMR Interactions-Plantes-Microorganismes-Environnement, IRD-Cirad-Université Montpellier, Montpellier, France
| | - Adam J Bogdanove
- Plant Pathology and Plant-Microbe Biology Section, School of Integrative Plant Science, Cornell University, 334 Plant Science Building, Ithaca, NY 14853, USA.
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132
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Sugiyama A, Saida Y, Yoshimizu M, Takanashi K, Sosso D, Frommer WB, Yazaki K. Molecular Characterization of LjSWEET3, a Sugar Transporter in Nodules of Lotus japonicus. PLANT & CELL PHYSIOLOGY 2017; 58:298-306. [PMID: 28007966 DOI: 10.1093/pcp/pcw190] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/15/2016] [Accepted: 10/31/2016] [Indexed: 06/06/2023]
Abstract
Symbiotic nitrogen fixation in legumes contributes greatly to the global nitrogen cycle on the earth. In nodules, resident rhizobia supply nitrogen nutrient fixed from atmospheric N2 to the host plant; in turn, the plant provides photosynthetic metabolites to bacteroids as a carbon source. In this process, various transporters are involved at different membrane systems; however, little is known at the molecular level about the flow of carbon from the host cells to the symbiotic bacteria. We have been studying transporters functioning in nodules of Lotus japonicus, and found that out of 13 SWEET genes in the L. japonicus genome LjSWEET3, a member of the SWEET transporter family, is highly expressed in nodules. The SWEET family was first identified in Arabidopsis, where members of the family are involved in phloem loading, nectar secretion, pollen nutrition and seed filling. The expression of LjSWEET3 strongly increased during nodule development and reached the highest level in mature nodules. Histochemical analysis using L. japonicus plants transformed with LjSWEET3 promoter:GUS (β-glucuronidase) showed strong expression in the vascular systems of nodules. Analysis of an LjSWEET3-green fluorescent protein (GFP) fusion expressed in Nicotiana banthamiana and Coptis japonica indicates that LjSWEET3 localizes to the plasma membrane. Together these data are consistent with a role for LjSWEET3 in sugar translocation towards nodules and also suggest the possible existence of multiple routes of carbon supply into nodules.
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Affiliation(s)
- Akifumi Sugiyama
- Laboratory of Plant Gene Expression, Research Institute for Sustainable Humanosphere, Kyoto University, Gokasho, Uji, Japan
| | - Yuka Saida
- Laboratory of Plant Gene Expression, Research Institute for Sustainable Humanosphere, Kyoto University, Gokasho, Uji, Japan
| | - Mayuko Yoshimizu
- Laboratory of Plant Gene Expression, Research Institute for Sustainable Humanosphere, Kyoto University, Gokasho, Uji, Japan
| | - Kojiro Takanashi
- Laboratory of Plant Gene Expression, Research Institute for Sustainable Humanosphere, Kyoto University, Gokasho, Uji, Japan
- Institute of Mountain Science, Shinshu University, Matsumoto, Japan
| | - Davide Sosso
- Department of Plant Biology, Carnegie Institution of Science, Stanford, CA , USA
| | - Wolf B Frommer
- Department of Plant Biology, Carnegie Institution of Science, Stanford, CA , USA
| | - Kazufumi Yazaki
- Laboratory of Plant Gene Expression, Research Institute for Sustainable Humanosphere, Kyoto University, Gokasho, Uji, Japan
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Schwartz AR, Morbitzer R, Lahaye T, Staskawicz BJ. TALE-induced bHLH transcription factors that activate a pectate lyase contribute to water soaking in bacterial spot of tomato. Proc Natl Acad Sci U S A 2017; 114:E897-E903. [PMID: 28100489 PMCID: PMC5293091 DOI: 10.1073/pnas.1620407114] [Citation(s) in RCA: 78] [Impact Index Per Article: 11.1] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
AvrHah1 [avirulence (avr) gene homologous to avrBs3 and hax2, no. 1] is a transcription activator-like (TAL) effector (TALE) in Xanthomonas gardneri that induces water-soaked disease lesions on fruits and leaves during bacterial spot of tomato. We observe that water from outside the leaf is drawn into the apoplast in X. gardneri-infected, but not X. gardneriΔavrHah1 (XgΔavrHah1)-infected, plants, conferring a dark, water-soaked appearance. The pull of water can facilitate entry of additional bacterial cells into the apoplast. Comparing the transcriptomes of tomato infected with X. gardneri vs. XgΔavrHah1 revealed the differential up-regulation of two basic helix-loop-helix (bHLH) transcription factors with predicted effector binding elements (EBEs) for AvrHah1. We mined our RNA-sequencing data for differentially up-regulated genes that could be direct targets of the bHLH transcription factors and therefore indirect targets of AvrHah1. We show that two pectin modification genes, a pectate lyase and pectinesterase, are targets of both bHLH transcription factors. Designer TALEs (dTALEs) for the bHLH transcription factors and the pectate lyase, but not for the pectinesterase, complement water soaking when delivered by XgΔavrHah1 By perturbing transcriptional networks and/or modifying the plant cell wall, AvrHah1 may promote water uptake to enhance tissue damage and eventual bacterial egression from the apoplast to the leaf surface. Understanding how disease symptoms develop may be a useful tool for improving the tolerance of crops from damaging disease lesions.
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Affiliation(s)
- Allison R Schwartz
- Department of Plant and Microbial Biology, University of California, Berkeley, CA 94720-3120
| | - Robert Morbitzer
- Department of General Genetics, Center of Plant Molecular Biology, University of Tübingen, D-72076 Tubingen, Germany
| | - Thomas Lahaye
- Department of General Genetics, Center of Plant Molecular Biology, University of Tübingen, D-72076 Tubingen, Germany
| | - Brian J Staskawicz
- Department of Plant and Microbial Biology, University of California, Berkeley, CA 94720-3120;
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Hummel AW, Wilkins KE, Wang L, Cernadas RA, Bogdanove AJ. A transcription activator-like effector from Xanthomonas oryzae pv. oryzicola elicits dose-dependent resistance in rice. MOLECULAR PLANT PATHOLOGY 2017; 18:55-66. [PMID: 26821568 PMCID: PMC6638286 DOI: 10.1111/mpp.12377] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/15/2015] [Revised: 01/24/2016] [Accepted: 01/27/2016] [Indexed: 05/15/2023]
Abstract
Xanthomonas spp. reduce crop yields and quality worldwide. During infection of their plant hosts, many strains secrete transcription activator-like (TAL) effectors, which enter the host cell nucleus and activate specific corresponding host genes at effector binding elements (EBEs) in the promoter. TAL effectors may contribute to disease by activating the expression of susceptibility genes or trigger resistance associated with the hypersensitive reaction (HR) by activating an executor resistance (R) gene. The rice bacterial leaf streak pathogen X. oryzae pv. oryzicola (Xoc) is known to suppress host resistance, and no host R gene has been identified against it, despite considerable effort. To further investigate Xoc suppression of host resistance, we conducted a screen of effectors from BLS256 and identified Tal2a as an HR elicitor in rice when delivered heterologously by a strain of the closely related rice bacterial blight pathogen X. oryzae pv. oryzae (Xoo) or by the soybean pathogen X. axonopodis pv. glycines. The HR required the Tal2a activation domain, suggesting an executor R gene. Tal2a activity was differentially distributed among geographically diverse Xoc isolates, being largely conserved among Asian isolates. We identified four genes induced by Tal2a in next-generation RNA sequencing experiments and confirmed them using quantitative real-time reverse transcription-polymerase chain reaction (qPCR). However, neither individual nor collective activation of these genes by designer TAL effectors resulted in HR. A tal2a knockout mutant of BLS256 showed virulence comparable with the wild-type, but plasmid-based overexpression of tal2a at different levels in the wild-type reduced virulence in a directly corresponding way. Overall, the results reveal that host resistance suppression by Xoc plays a critical role in pathogenesis. Further, the dose-dependent avirulence activity of Tal2a and the apparent lack of a single canonical target that accounts for HR point to a novel, activation domain-dependent mode of action, which might involve, for example, a non-coding gene or a specific pattern of activation across multiple targets.
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Affiliation(s)
- Aaron W. Hummel
- Department of Plant Pathology and MicrobiologyIowa State University 351 Bessey HallAmesIA50011USA
- Present address:
KWS SAAT SE, Gateway Research Center1005 N. Warson Rd.St. LouisMO63132USA
| | - Katherine E. Wilkins
- Plant Pathology and Plant–Microbe Biology Section, School of Integrative Plant Science, Cornell UniversityIthacaNY14853USA
- Graduate Field of Computational Biology, Cornell UniversityIthacaNY14853USA
| | - Li Wang
- Plant Pathology and Plant–Microbe Biology Section, School of Integrative Plant Science, Cornell UniversityIthacaNY14853USA
| | - R. Andres Cernadas
- Plant Pathology and Plant–Microbe Biology Section, School of Integrative Plant Science, Cornell UniversityIthacaNY14853USA
- Present address:
Facultad de Agronomía, Universidad de Buenos Aires, Av. San Martín 4453 – C1417DSEBuenos AiresArgentina
| | - Adam J. Bogdanove
- Department of Plant Pathology and MicrobiologyIowa State University 351 Bessey HallAmesIA50011USA
- Plant Pathology and Plant–Microbe Biology Section, School of Integrative Plant Science, Cornell UniversityIthacaNY14853USA
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135
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Yamada K, Saijo Y, Nakagami H, Takano Y. Regulation of sugar transporter activity for antibacterial defense in
Arabidopsis. Science 2016; 354:1427-1430. [DOI: 10.1126/science.aah5692] [Citation(s) in RCA: 160] [Impact Index Per Article: 20.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/15/2016] [Accepted: 11/11/2016] [Indexed: 12/26/2022]
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136
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Cohn M, Morbitzer R, Lahaye T, Staskawicz BJ. Comparison of gene activation by two TAL effectors from Xanthomonas axonopodis pv. manihotis reveals candidate host susceptibility genes in cassava. MOLECULAR PLANT PATHOLOGY 2016; 17:875-89. [PMID: 26575863 PMCID: PMC6638523 DOI: 10.1111/mpp.12337] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/12/2015] [Revised: 09/23/2015] [Accepted: 10/13/2015] [Indexed: 05/10/2023]
Abstract
Xanthomonas axonopodis pv. manihotis (Xam) employs transcription activator-like (TAL) effectors to promote bacterial growth and symptom formation during infection of cassava. TAL effectors are secreted via the bacterial type III secretion system into plant cells, where they are directed to the nucleus, bind DNA in plant promoters and activate the expression of downstream genes. The DNA-binding activity of TAL effectors is carried out by a central domain which contains a series of repeat variable diresidues (RVDs) that dictate the sequence of bound nucleotides. TAL14Xam668 promotes virulence in Xam strain Xam668 and has been shown to activate multiple cassava genes. In this study, we used RNA sequencing to identify the full target repertoire of TAL14Xam668 in cassava, which includes over 50 genes. A subset of highly up-regulated genes was tested for activation by TAL14CIO151 from Xam strain CIO151. Although TAL14CIO151 and TAL14Xam668 differ by only a single RVD, they display differential activation of gene targets. TAL14CIO151 complements the TAL14Xam668 mutant defect, implying that shared target genes are important for TAL14Xam668 -mediated disease susceptibility. Complementation with closely related TAL effectors is a novel approach to the narrowing down of biologically relevant susceptibility genes of TAL effectors with multiple targets. This study provides an example of how TAL effector target activation by two strains within a single species of Xanthomonas can be dramatically affected by a small change in RVD-nucleotide affinity at a single site, and reflects the parameters of RVD-nucleotide interaction determined using designer TAL effectors in transient systems.
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Affiliation(s)
- Megan Cohn
- Department of Plant and Microbial Biology, University of California, Berkeley, CA, 94720-3120, USA
| | - Robert Morbitzer
- Department of General Genetics, Center of Plant Molecular Biology (ZMBP) University of Tübingen, D-72076, Tübingen, Germany
| | - Thomas Lahaye
- Department of General Genetics, Center of Plant Molecular Biology (ZMBP) University of Tübingen, D-72076, Tübingen, Germany
| | - Brian J Staskawicz
- Department of Plant and Microbial Biology, University of California, Berkeley, CA, 94720-3120, USA
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Díaz Tatis P, Zárate CA, Bernal Giraldo A, López Carrascal C. Infección de callo embriogénico friable de yuca con Xanthomonas axonopodis pv. manihotis (Xam). REVISTA COLOMBIANA DE BIOTECNOLOGÍA 2016. [DOI: 10.15446/rev.colomb.biote.v18n2.61523] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/09/2022] Open
Abstract
Las nuevas tecnologías para la edición de genomas, como los TALEN y el sistema CRISPR/Cas9, representan una gran oportunidad para mejorar características deseables en diferentes organismos. Los TALEN son el resultado del acoplamiento de nucleasas a los TALE (Transcription Activator-Like Effectors), los cuales son efectores naturales de gran importancia en la patogénesis de las especies de Xanthomonas. Xanthomonas axonopodis pv. manihotis (Xam) es el agente causal del añublo bacteriano de la yuca, quien durante el proceso patogénico es capaz de translocar sus efectores a la célula vegetal mediante el sistema de secreción tipo tres (SSTT). Actualmente no hay protocolos estándar para la edición de genomas en yuca. En este estudio se exploró la posibilidad de translocar efectores sobre callo embriogénico friable (CEF) a través de la inoculación con Xam, con el fin de determinar el potencial de este patógeno como sistema de entrega de TALEN. El CEF de dos variedades de yuca susceptibles (COL2215 y cv. 60444) se cocultivaron con la cepa Xam668 a diferentes tiempos. Posteriormente, se evaluó la expresión de marcadores correspondientes a los genes blanco conocidos para los TALE presentes en esta cepa bacteriana. Aunque no se logró demostrar la translocación de los mismos en el tejido embriogénico, sí se lograron establecer condiciones adecuadas de cocultivo con Xam y el efecto que la infección bacteriana tiene sobre la regeneración de embriones a partir de este tejido. Palabras clave: cultivo de tejidos vegetales, edición de genomas, sistema de secreción tipo tres, efectores TALE, transformación.
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138
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Graziosi I, Minato N, Alvarez E, Ngo DT, Hoat TX, Aye TM, Pardo JM, Wongtiem P, Wyckhuys KA. Emerging pests and diseases of South-east Asian cassava: a comprehensive evaluation of geographic priorities, management options and research needs. PEST MANAGEMENT SCIENCE 2016; 72:1071-89. [PMID: 26853194 DOI: 10.1002/ps.4250] [Citation(s) in RCA: 20] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/10/2015] [Revised: 12/01/2015] [Accepted: 02/02/2016] [Indexed: 05/12/2023]
Abstract
Cassava is a major staple, bio-energy and industrial crop in many parts of the developing world. In Southeast Asia, cassava is grown on >4 million ha by nearly 8 million (small-scale) farming households, under (climatic, biophysical) conditions that often prove unsuitable for many other crops. While SE Asian cassava has been virtually free of phytosanitary constraints for most of its history, a complex of invasive arthropod pests and plant diseases has recently come to affect local crops. We describe results from a region-wide monitoring effort in the 2014 dry season, covering 429 fields across five countries. We present geographic distribution and field-level incidence of the most prominent pest and disease invaders, introduce readily-available management options and research needs. Monitoring work reveals that several exotic mealybug and (red) mite species have effectively colonised SE Asia's main cassava-growing areas, occurring in respectively 70% and 54% of fields, at average field-level incidence of 27 ± 2% and 16 ± 2%. Cassava witches broom (CWB), a systemic phytoplasma disease, was reported from 64% of plots, at incidence levels of 32 ± 2%. Although all main pests and diseases are non-natives, we hypothesise that accelerating intensification of cropping systems, increased climate change and variability, and deficient crop husbandry are aggravating both organism activity and crop susceptibility. Future efforts need to consolidate local capacity to tackle current (and future) pest invaders, boost detection capacity, devise locally-appropriate integrated pest management (IPM) tactics, and transfer key concepts and technologies to SE Asia's cassava growers. Urgent action is needed to mobilise regional as well as international scientific support, to effectively tackle this phytosanitary emergency and thus safeguard the sustainability and profitability of one of Asia's key agricultural commodities. © 2016 Society of Chemical Industry.
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Affiliation(s)
- Ignazio Graziosi
- International Centre for Tropical Agriculture (CIAT), Asia Regional Office, Hanoi, Vietnam
| | - Nami Minato
- International Centre for Tropical Agriculture (CIAT), Asia Regional Office, Hanoi, Vietnam
| | - Elizabeth Alvarez
- International Centre for Tropical Agriculture (CIAT), Headquarters, Cali, Valle del Cauca, Colombia
| | - Dung Tien Ngo
- Plant Protection Department (PPD), Ministry of Agriculture, Hanoi, Vietnam
| | - Trinh Xuan Hoat
- Plant Protection Research Institute (PPRI), Vietnam Academy of Agricultural Sciences, Hanoi, Vietnam
| | - Tin Maung Aye
- International Centre for Tropical Agriculture (CIAT), Asia Regional Office, Hanoi, Vietnam
| | - Juan Manuel Pardo
- International Centre for Tropical Agriculture (CIAT), Headquarters, Cali, Valle del Cauca, Colombia
| | - Prapit Wongtiem
- Rayong Field Crops Research Centre, Department of Agriculture, Rayong, Thailand
| | - Kris Ag Wyckhuys
- International Centre for Tropical Agriculture (CIAT), Asia Regional Office, Hanoi, Vietnam
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139
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Manck-Götzenberger J, Requena N. Arbuscular mycorrhiza Symbiosis Induces a Major Transcriptional Reprogramming of the Potato SWEET Sugar Transporter Family. FRONTIERS IN PLANT SCIENCE 2016; 7:487. [PMID: 27148312 PMCID: PMC4830831 DOI: 10.3389/fpls.2016.00487] [Citation(s) in RCA: 96] [Impact Index Per Article: 12.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/12/2016] [Accepted: 03/25/2016] [Indexed: 05/18/2023]
Abstract
Biotrophic microbes feeding on plants must obtain carbon from their hosts without killing the cells. The symbiotic Arbuscular mycorrhizal (AM) fungi colonizing plant roots do so by inducing major transcriptional changes in the host that ultimately also reprogram the whole carbon partitioning of the plant. AM fungi obtain carbohydrates from the root cortex apoplast, in particular from the periarbuscular space that surrounds arbuscules. However, the mechanisms by which cortical cells export sugars into the apoplast for fungal nutrition are unknown. Recently a novel type of sugar transporter, the SWEET, able to perform not only uptake but also efflux from cells was identified. Plant SWEETs have been shown to be involved in the feeding of pathogenic microbes and are, therefore, good candidates to play a similar role in symbiotic associations. Here we have carried out the first phylogenetic and expression analyses of the potato SWEET family and investigated its role during mycorrhiza symbiosis. The potato genome contains 35 SWEETs that cluster into the same four clades defined in Arabidopsis. Colonization of potato roots by the AM fungus Rhizophagus irregularis imposes major transcriptional rewiring of the SWEET family involving, only in roots, changes in 22 of the 35 members. None of the SWEETs showed mycorrhiza-exclusive induction and most of the 12 induced genes belong to the putative hexose transporters of clade I and II, while only two are putative sucrose transporters from clade III. In contrast, most of the repressed transcripts (10) corresponded to clade III SWEETs. Promoter-reporter assays for three of the induced genes, each from one cluster, showed re-localization of expression to arbuscule-containing cells, supporting a role for SWEETs in the supply of sugars at biotrophic interfaces. The complex transcriptional regulation of SWEETs in roots in response to AM fungal colonization supports a model in which symplastic sucrose in cortical cells could be cleaved in the cytoplasm by sucrose synthases or cytoplasmic invertases and effluxed as glucose, but also directly exported as sucrose and then converted into glucose and fructose by cell wall-bound invertases. Precise biochemical, physiological and molecular analyses are now required to profile the role of each potato SWEET in the arbuscular mycorrhizal symbiosis.
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Affiliation(s)
| | - Natalia Requena
- Molecular Phytopathology, Botanical Institute, Karlsruhe Institute of TechnologyKarlsruhe, Germany
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140
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Peng Z, Hu Y, Xie J, Potnis N, Akhunova A, Jones J, Liu Z, White FF, Liu S. Long read and single molecule DNA sequencing simplifies genome assembly and TAL effector gene analysis of Xanthomonas translucens. BMC Genomics 2016; 17:21. [PMID: 26729225 PMCID: PMC4700564 DOI: 10.1186/s12864-015-2348-9] [Citation(s) in RCA: 49] [Impact Index Per Article: 6.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/08/2015] [Accepted: 12/21/2015] [Indexed: 12/26/2022] Open
Abstract
Background The species Xanthomonas translucens encompasses a complex of bacterial strains that cause diseases and yield loss on grass species including important cereal crops. Three pathovars, X. translucens pv. undulosa, X. translucens pv. translucens and X. translucens pv.cerealis, have been described as pathogens of wheat, barley, and oats. However, no complete genome sequence for a strain of this complex is currently available. Results A complete genome sequence of X. translucens pv. undulosa strain XT4699 was obtained by using PacBio long read, single molecule, real time (SMRT) DNA sequences and Illumina sequences. Draft genome sequences of nineteen additional X. translucens strains, which were collected from wheat or barley in different regions and at different times, were generated by Illumina sequencing. Phylogenetic relationships among different Xanthomonas strains indicates that X. translucens are members of a distinct clade from so-called group 2 xanthomonads and three pathovars of this species, undulosa, translucens and cerealis, represent distinct subclades in the group 1 clade. Knockout mutation of type III secretion system of XT4699 eliminated the ability to cause water-soaking symptoms on wheat and barley and resulted in a reduction in populations on wheat in comparison to the wild type strain. Sequence comparison of X. translucens strains revealed the genetic variation on type III effector repertories among different pathovars or within one pathovar. The full genome sequence of XT4699 reveals the presence of eight members of the Transcription-Activator Like (TAL) effector genes, which are phylogenetically distant from previous known TAL effector genes of group 2 xanthomonads. Microarray and qRT-PCR analyses revealed TAL effector-specific wheat gene expression modulation. Conclusions PacBio long read sequencing facilitates the assembly of Xanthomonas genomes and the multiple TAL effector genes, which are difficult to assemble from short read platforms. The complete genome sequence of X. translucens pv. undulosa strain XT4699 and draft genome sequences of nineteen additional X. translucens strains provides a resource for further genetic analyses of pathogenic diversity and host range of the X. translucens species complex. TAL effectors of XT4699 strain play roles in modulating wheat host gene expressions. Electronic supplementary material The online version of this article (doi:10.1186/s12864-015-2348-9) contains supplementary material, which is available to authorized users.
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Affiliation(s)
- Zhao Peng
- Department of Plant Pathology, Kansas State University, Manhattan, KS, USA.
| | - Ying Hu
- Department of Horticulture, Forestry and Recreation resources, Kansas State University, Manhattan, KS, USA.
| | - Jingzhong Xie
- Department of Plant Pathology, Kansas State University, Manhattan, KS, USA.
| | - Neha Potnis
- Department of Plant Pathology, University of Florida, Gainesville, FL, USA.
| | - Alina Akhunova
- Department of Plant Pathology, Kansas State University, Manhattan, KS, USA.
| | - Jeffrey Jones
- Department of Plant Pathology, University of Florida, Gainesville, FL, USA.
| | - Zhaohui Liu
- Department of Plant Pathology, North Dakota State University, Fargo, ND, USA.
| | - Frank F White
- Department of Plant Pathology, Kansas State University, Manhattan, KS, USA. .,Department of Plant Pathology, University of Florida, Gainesville, FL, USA.
| | - Sanzhen Liu
- Department of Plant Pathology, Kansas State University, Manhattan, KS, USA.
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141
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Tao Y, Cheung LS, Li S, Eom JS, Chen LQ, Xu Y, Perry K, Frommer WB, Feng L. Structure of a eukaryotic SWEET transporter in a homotrimeric complex. Nature 2015; 527:259-263. [PMID: 26479032 DOI: 10.1038/nature15391] [Citation(s) in RCA: 125] [Impact Index Per Article: 13.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/06/2015] [Accepted: 08/10/2015] [Indexed: 12/18/2022]
Abstract
Eukaryotes rely on efficient distribution of energy and carbon skeletons between organs in the form of sugars. Glucose in animals and sucrose in plants serve as the dominant distribution forms. Cellular sugar uptake and release require vesicular and/or plasma membrane transport proteins. Humans and plants use proteins from three superfamilies for sugar translocation: the major facilitator superfamily (MFS), the sodium solute symporter family (SSF; only in the animal kingdom), and SWEETs. SWEETs carry mono- and disaccharides across vacuolar or plasma membranes. Plant SWEETs play key roles in sugar translocation between compartments, cells, and organs, notably in nectar secretion, phloem loading for long distance translocation, pollen nutrition, and seed filling. Plant SWEETs cause pathogen susceptibility possibly by sugar leakage from infected cells. The vacuolar Arabidopsis thaliana AtSWEET2 sequesters sugars in root vacuoles; loss-of-function mutants show increased susceptibility to Pythium infection. Here we show that its orthologue, the vacuolar glucose transporter OsSWEET2b from rice (Oryza sativa), consists of an asymmetrical pair of triple-helix bundles, connected by an inversion linker transmembrane helix (TM4) to create the translocation pathway. Structural and biochemical analyses show OsSWEET2b in an apparent inward (cytosolic) open state forming homomeric trimers. TM4 tightly interacts with the first triple-helix bundle within a protomer and mediates key contacts among protomers. Structure-guided mutagenesis of the close paralogue SWEET1 from Arabidopsis identified key residues in substrate translocation and protomer crosstalk. Insights into the structure-function relationship of SWEETs are valuable for understanding the transport mechanism of eukaryotic SWEETs and may be useful for engineering sugar flux.
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Affiliation(s)
- Yuyong Tao
- Department of Molecular and Cellular Physiology, 279 Campus Drive, Stanford University School of Medicine, Stanford, CA 94305, USA
| | - Lily S Cheung
- Carnegie Institution for Science, Department of Plant Biology, 260 Panama St., Stanford, CA 94305, USA
| | - Shuo Li
- Department of Molecular and Cellular Physiology, 279 Campus Drive, Stanford University School of Medicine, Stanford, CA 94305, USA.,Center of Growth, Metabolism and Aging, Key Laboratory of Bio-Resource and Eco-Environment of Ministry of Education, College of Life Sciences, Sichuan University, Chengdu, 610014, China
| | - Joon-Seob Eom
- Carnegie Institution for Science, Department of Plant Biology, 260 Panama St., Stanford, CA 94305, USA
| | - Li-Qing Chen
- Carnegie Institution for Science, Department of Plant Biology, 260 Panama St., Stanford, CA 94305, USA
| | - Yan Xu
- Department of Molecular and Cellular Physiology, 279 Campus Drive, Stanford University School of Medicine, Stanford, CA 94305, USA
| | - Kay Perry
- NE-CAT and Dep. of Chemistry and Chemical Biology, Cornell University, Building 436E, Argonne National Laboratory, 9700 S. Cass Avenue, Argonne, IL 60439, USA
| | - Wolf B Frommer
- Carnegie Institution for Science, Department of Plant Biology, 260 Panama St., Stanford, CA 94305, USA
| | - Liang Feng
- Department of Molecular and Cellular Physiology, 279 Campus Drive, Stanford University School of Medicine, Stanford, CA 94305, USA
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Hutin M, Pérez-Quintero AL, Lopez C, Szurek B. Corrigendum: MorTALKombat: the story of defense against TAL effectors through loss-of-susceptibility. FRONTIERS IN PLANT SCIENCE 2015; 6:647. [PMID: 26347764 PMCID: PMC4543819 DOI: 10.3389/fpls.2015.00647] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/31/2015] [Accepted: 08/04/2015] [Indexed: 06/05/2023]
Abstract
[This corrects the article on p. 535 in vol. 6, PMID: 26236326.].
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Affiliation(s)
- Mathilde Hutin
- UMR IPME, Institut de Recherche Pour le Développement, IRD-CIRAD-Université Montpellier 2Montpellier, France
| | - Alvaro L. Pérez-Quintero
- UMR IPME, Institut de Recherche Pour le Développement, IRD-CIRAD-Université Montpellier 2Montpellier, France
| | - Camilo Lopez
- UMR IPME, Institut de Recherche Pour le Développement, IRD-CIRAD-Université Montpellier 2Montpellier, France
- Biology Department, Universidad Nacional de ColombiaBogota, Colombia
| | - Boris Szurek
- UMR IPME, Institut de Recherche Pour le Développement, IRD-CIRAD-Université Montpellier 2Montpellier, France
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Chandran D. Co-option of developmentally regulated plant SWEET transporters for pathogen nutrition and abiotic stress tolerance. IUBMB Life 2015; 67:461-71. [PMID: 26179993 DOI: 10.1002/iub.1394] [Citation(s) in RCA: 71] [Impact Index Per Article: 7.9] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/15/2015] [Accepted: 06/15/2015] [Indexed: 11/07/2022]
Abstract
Plant sugar will eventually be exported transporter (SWEET) sugar transporters have been implicated in various developmental processes where sugar efflux is essential, including sucrose loading of phloem for long-distance sugar transport, nectar secretion, embryo and pollen nutrition, and maintenance of sugar homeostasis in plant organs. Notably, these transporters are selectively targeted by pathogens to gain access to host sugars. In most cases, when SWEET function is blocked, the growth and virulence of the pathogen is also reduced. There is growing evidence to suggest that the lifestyle of the pathogen may dictate which SWEET or set of SWEET genes are recruited for pathogen growth and proliferation. Furthermore, SWEET transporters may also play a role in abiotic stress tolerance by enabling plant growth under unfavorable environmental conditions. This review provides an overview of the diverse functions of SWEET proteins in plant development, pathogen nutrition, and abiotic stress tolerance. In addition, utility of the model legume Medicago truncatula as a tool to elucidate SWEET function in diverse host-microbe interactions is discussed.
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Affiliation(s)
- Divya Chandran
- Regional Center for Biotechnology, NCR Biotech Science Cluster, Faridabad, Haryana, India
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144
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Keller R, Ziegler C, Schneider D. When two turn into one: evolution of membrane transporters from half modules. Biol Chem 2015; 395:1379-88. [PMID: 25296672 DOI: 10.1515/hsz-2014-0224] [Citation(s) in RCA: 31] [Impact Index Per Article: 3.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/02/2014] [Accepted: 10/05/2014] [Indexed: 11/15/2022]
Abstract
The recently increasing number of atomic structures for active transporters has not only revealed strong conservation in the architecture of sequence-unrelated transporter families, but also identified a unifying element called the 'inverted repeat topology,' which is found in nearly all transporter folds to date. Indeed, most membrane transporters consist of two or more domains with similar structure, so-called repeats. It is tempting to speculate that transporters have evolved by duplication of one repeat followed by gene fusion and modification events. An intriguing question is, whether recent genes encoding such a 'half-transporter' still exist as independent folding units. Although it seems likely that the evolution of membrane transport proteins, which harbor internal repeats, is linked to these minimal structural building blocks, their identification in the absence of structural data represents a major challenge, as sequence homology is not an issue. In this review we discuss two protein families, the DedA family and the SWEET family, being potential half-transporters and putative ancestors for two of the most abundant secondary transporter families, the MFS family and the LeuT-fold family.
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145
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Feng L, Frommer WB. Structure and function of SemiSWEET and SWEET sugar transporters. Trends Biochem Sci 2015; 40:480-6. [PMID: 26071195 DOI: 10.1016/j.tibs.2015.05.005] [Citation(s) in RCA: 91] [Impact Index Per Article: 10.1] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/23/2015] [Revised: 05/12/2015] [Accepted: 05/18/2015] [Indexed: 11/20/2022]
Abstract
SemiSWEETs and SWEETs have emerged as unique sugar transporters. First discovered in plants with the help of fluorescent biosensors, homologs exist in all kingdoms of life. Bacterial and plant homologs transport hexoses and sucrose, whereas animal SWEETs transport glucose. Prokaryotic SemiSWEETs are small and comprise a parallel homodimer of an approximately 100 amino acid-long triple helix bundle (THB). Duplicated THBs are fused to create eukaryotic SWEETs in a parallel orientation via an inversion linker helix, producing a similar configuration to that of SemiSWEET dimers. Structures of four SemiSWEETs have been resolved in three states: open outside, occluded, and open inside, indicating alternating access. As we discuss here, these atomic structures provide a basis for exploring the evolution of structure-function relations in this new class of transporters.
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Affiliation(s)
- Liang Feng
- Department of Molecular and Cellular Physiology, 279 Campus Drive, Stanford University School of Medicine, Stanford, CA 94305, USA.
| | - Wolf B Frommer
- Carnegie Institution for Science, Department of Plant Biology, 260 Panama St, Stanford, CA 94305, USA.
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146
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Eom JS, Chen LQ, Sosso D, Julius BT, Lin IW, Qu XQ, Braun DM, Frommer WB. SWEETs, transporters for intracellular and intercellular sugar translocation. CURRENT OPINION IN PLANT BIOLOGY 2015; 25:53-62. [PMID: 25988582 DOI: 10.1016/j.pbi.2015.04.005] [Citation(s) in RCA: 290] [Impact Index Per Article: 32.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/11/2015] [Revised: 04/07/2015] [Accepted: 04/09/2015] [Indexed: 05/21/2023]
Abstract
Three families of transporters have been identified as key players in intercellular transport of sugars: MSTs (monosaccharide transporters), SUTs (sucrose transporters) and SWEETs (hexose and sucrose transporters). MSTs and SUTs fall into the major facilitator superfamily; SWEETs constitute a structurally different class of transporters with only seven transmembrane spanning domains. The predicted topology of SWEETs is supported by crystal structures of bacterial homologs (SemiSWEETs). On average, angiosperm genomes contain ∼20 paralogs, most of which serve distinct physiological roles. In Arabidopsis, AtSWEET8 and 13 feed the pollen; SWEET11 and 12 provide sucrose to the SUTs for phloem loading; AtSWEET11, 12 and 15 have distinct roles in seed filling; AtSWEET16 and 17 are vacuolar hexose transporters; and SWEET9 is essential for nectar secretion. The remaining family members await characterization, and could play roles in the gametophyte as well as other important roles in sugar transport in the plant. In rice and cassava, and possibly other systems, sucrose transporting SWEETs play central roles in pathogen resistance. Notably, the human genome also contains a glucose transporting isoform. Further analysis promises new insights into mechanism and regulation of assimilate allocation and a new potential for increasing crop yield.
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Affiliation(s)
- Joon-Seob Eom
- Carnegie Science, Department of Plant Biology, 260 Panama St., Stanford, CA 94305, USA
| | - Li-Qing Chen
- Carnegie Science, Department of Plant Biology, 260 Panama St., Stanford, CA 94305, USA
| | - Davide Sosso
- Carnegie Science, Department of Plant Biology, 260 Panama St., Stanford, CA 94305, USA
| | - Benjamin T Julius
- Division of Biological Sciences, Interdisciplinary Plant Group, and the Missouri Maize Center, University of Missouri, 110 Tucker Hall, Columbia, MO 65211, USA
| | - I W Lin
- Carnegie Science, Department of Plant Biology, 260 Panama St., Stanford, CA 94305, USA; Biology Department, Stanford University, Stanford, CA 94305, USA
| | - Xiao-Qing Qu
- Carnegie Science, Department of Plant Biology, 260 Panama St., Stanford, CA 94305, USA
| | - David M Braun
- Division of Biological Sciences, Interdisciplinary Plant Group, and the Missouri Maize Center, University of Missouri, 110 Tucker Hall, Columbia, MO 65211, USA
| | - Wolf B Frommer
- Carnegie Science, Department of Plant Biology, 260 Panama St., Stanford, CA 94305, USA; Biology Department, Stanford University, Stanford, CA 94305, USA.
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147
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Zhou J, Peng Z, Long J, Sosso D, Liu B, Eom JS, Huang S, Liu S, Vera Cruz C, Frommer WB, White FF, Yang B. Gene targeting by the TAL effector PthXo2 reveals cryptic resistance gene for bacterial blight of rice. THE PLANT JOURNAL : FOR CELL AND MOLECULAR BIOLOGY 2015; 82:632-43. [PMID: 25824104 DOI: 10.1111/tpj.12838] [Citation(s) in RCA: 240] [Impact Index Per Article: 26.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/08/2015] [Revised: 03/22/2015] [Accepted: 03/23/2015] [Indexed: 05/19/2023]
Abstract
Bacterial blight of rice is caused by the γ-proteobacterium Xanthomonas oryzae pv. oryzae, which utilizes a group of type III TAL (transcription activator-like) effectors to induce host gene expression and condition host susceptibility. Five SWEET genes are functionally redundant to support bacterial disease, but only two were experimentally proven targets of natural TAL effectors. Here, we report the identification of the sucrose transporter gene OsSWEET13 as the disease-susceptibility gene for PthXo2 and the existence of cryptic recessive resistance to PthXo2-dependent X. oryzae pv. oryzae due to promoter variations of OsSWEET13 in japonica rice. PthXo2-containing strains induce OsSWEET13 in indica rice IR24 due to the presence of an unpredicted and undescribed effector binding site not present in the alleles in japonica rice Nipponbare and Kitaake. The specificity of effector-associated gene induction and disease susceptibility is attributable to a single nucleotide polymorphism (SNP), which is also found in a polymorphic allele of OsSWEET13 known as the recessive resistance gene xa25 from the rice cultivar Minghui 63. The mutation of OsSWEET13 with CRISPR/Cas9 technology further corroborates the requirement of OsSWEET13 expression for the state of PthXo2-dependent disease susceptibility to X. oryzae pv. oryzae. Gene profiling of a collection of 104 strains revealed OsSWEET13 induction by 42 isolates of X. oryzae pv. oryzae. Heterologous expression of OsSWEET13 in Nicotiana benthamiana leaf cells elevates sucrose concentrations in the apoplasm. The results corroborate a model whereby X. oryzae pv. oryzae enhances the release of sucrose from host cells in order to exploit the host resources.
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Affiliation(s)
- Junhui Zhou
- Department of Genetics, Development and Cell Biology, Iowa State University, Ames, IA, 50011, USA
| | - Zhao Peng
- Department of Plant Pathology, Kansas State University, Manhattan, KS, 66506, USA
| | - Juying Long
- Department of Genetics, Development and Cell Biology, Iowa State University, Ames, IA, 50011, USA
- Key Laboratory of Integrated Pest Management in Crops in Eastern China, Nanjing Agricultural University, Ministry of Agriculture, Nanjing, 210095, China
| | - Davide Sosso
- Carnegie Institute for Science, 260 Panama Street, Stanford, CA, 94305, USA
| | - Bo Liu
- Department of Genetics, Development and Cell Biology, Iowa State University, Ames, IA, 50011, USA
| | - Joon-Seob Eom
- Carnegie Institute for Science, 260 Panama Street, Stanford, CA, 94305, USA
| | - Sheng Huang
- Department of Genetics, Development and Cell Biology, Iowa State University, Ames, IA, 50011, USA
| | - Sanzhen Liu
- Department of Plant Pathology, Kansas State University, Manhattan, KS, 66506, USA
| | - Casiana Vera Cruz
- International Rice Research Institute, DAPO Box 7777, Metro Manila, Philippines
| | - Wolf B Frommer
- Carnegie Institute for Science, 260 Panama Street, Stanford, CA, 94305, USA
| | - Frank F White
- Department of Plant Pathology, Kansas State University, Manhattan, KS, 66506, USA
| | - Bing Yang
- Department of Genetics, Development and Cell Biology, Iowa State University, Ames, IA, 50011, USA
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148
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Abstract
Soluble sugars serve five main purposes in multicellular organisms: as sources of carbon skeletons, osmolytes, signals, and transient energy storage and as transport molecules. Most sugars are derived from photosynthetic organisms, particularly plants. In multicellular organisms, some cells specialize in providing sugars to other cells (e.g., intestinal and liver cells in animals, photosynthetic cells in plants), whereas others depend completely on an external supply (e.g., brain cells, roots and seeds). This cellular exchange of sugars requires transport proteins to mediate uptake or release from cells or subcellular compartments. Thus, not surprisingly, sugar transport is critical for plants, animals, and humans. At present, three classes of eukaryotic sugar transporters have been characterized, namely the glucose transporters (GLUTs), sodium-glucose symporters (SGLTs), and SWEETs. This review presents the history and state of the art of sugar transporter research, covering genetics, biochemistry, and physiology-from their identification and characterization to their structure, function, and physiology. In humans, understanding sugar transport has therapeutic importance (e.g., addressing diabetes or limiting access of cancer cells to sugars), and in plants, these transporters are critical for crop yield and pathogen susceptibility.
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Affiliation(s)
- Li-Qing Chen
- Department of Plant Biology, Carnegie Institution for Science, Stanford, California 94305;
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149
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Wang C, Zhang X, Fan Y, Gao Y, Zhu Q, Zheng C, Qin T, Li Y, Che J, Zhang M, Yang B, Liu Y, Zhao K. XA23 is an executor R protein and confers broad-spectrum disease resistance in rice. MOLECULAR PLANT 2015; 8:290-302. [PMID: 25616388 DOI: 10.1016/j.molp.2014.10.010] [Citation(s) in RCA: 51] [Impact Index Per Article: 5.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/20/2014] [Revised: 10/10/2014] [Accepted: 10/28/2014] [Indexed: 05/03/2023]
Abstract
The majority of plant disease resistance (R) genes encode proteins that share common structural features. However, the transcription activator-like effector (TALE)-associated executor type R genes show no considerable sequence homology to any known R genes. We adopted a map-based cloning approach and TALE-based technology to isolate and characterize Xa23, a new executor R gene derived from wild rice (Oryza rufipogon) that confers an extremely broad spectrum of resistance to bacterial blight caused by Xanthomonas oryzae pv. oryzae (Xoo). Xa23 encodes a 113 amino acid protein that shares 50% identity with the known executor R protein XA10. The predicted transmembrane helices in XA23 also overlap with those of XA10. Unlike Xa10, however, Xa23 transcription is specifically activated by AvrXa23, a TALE present in all examined Xoo field isolates. Moreover, the susceptible xa23 allele has an identical open reading frame of Xa23 but differs in promoter region by lacking the TALE binding element (EBE) for AvrXa23. XA23 can trigger a strong hypersensitive response in rice, tobacco, and tomato. Our results provide the first evidence that plant genomes have an executor R gene family of which members execute their function and spectrum of disease resistance by recognizing the cognate TALEs in the pathogen.
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Affiliation(s)
- Chunlian Wang
- National Key Facility for Crop Gene Resources and Genetic Improvement (NFCRI), Institute of Crop Science, Chinese Academy of Agriculture Sciences (CAAS), Beijing 100081, China
| | - Xiaoping Zhang
- National Key Facility for Crop Gene Resources and Genetic Improvement (NFCRI), Institute of Crop Science, Chinese Academy of Agriculture Sciences (CAAS), Beijing 100081, China
| | - Yinglun Fan
- National Key Facility for Crop Gene Resources and Genetic Improvement (NFCRI), Institute of Crop Science, Chinese Academy of Agriculture Sciences (CAAS), Beijing 100081, China
| | - Ying Gao
- National Key Facility for Crop Gene Resources and Genetic Improvement (NFCRI), Institute of Crop Science, Chinese Academy of Agriculture Sciences (CAAS), Beijing 100081, China
| | - Qinlong Zhu
- State Key Laboratory for Conservation and Utilization of Subtropical Agro-Bioresources, College of Life Sciences, South China Agricultural University, Guangzhou 510642, China
| | - Chongke Zheng
- National Key Facility for Crop Gene Resources and Genetic Improvement (NFCRI), Institute of Crop Science, Chinese Academy of Agriculture Sciences (CAAS), Beijing 100081, China
| | - Tengfei Qin
- National Key Facility for Crop Gene Resources and Genetic Improvement (NFCRI), Institute of Crop Science, Chinese Academy of Agriculture Sciences (CAAS), Beijing 100081, China
| | - Yanqiang Li
- National Key Facility for Crop Gene Resources and Genetic Improvement (NFCRI), Institute of Crop Science, Chinese Academy of Agriculture Sciences (CAAS), Beijing 100081, China
| | - Jinying Che
- National Key Facility for Crop Gene Resources and Genetic Improvement (NFCRI), Institute of Crop Science, Chinese Academy of Agriculture Sciences (CAAS), Beijing 100081, China
| | - Mingwei Zhang
- National Key Facility for Crop Gene Resources and Genetic Improvement (NFCRI), Institute of Crop Science, Chinese Academy of Agriculture Sciences (CAAS), Beijing 100081, China
| | - Bing Yang
- Department of Genetics, Development and Cell Biology, Iowa State University, Ames, IA 50011, USA
| | - Yaoguang Liu
- State Key Laboratory for Conservation and Utilization of Subtropical Agro-Bioresources, College of Life Sciences, South China Agricultural University, Guangzhou 510642, China
| | - Kaijun Zhao
- National Key Facility for Crop Gene Resources and Genetic Improvement (NFCRI), Institute of Crop Science, Chinese Academy of Agriculture Sciences (CAAS), Beijing 100081, China.
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150
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Zhang J, Yin Z, White F. TAL effectors and the executor R genes. FRONTIERS IN PLANT SCIENCE 2015; 6:641. [PMID: 26347759 PMCID: PMC4542534 DOI: 10.3389/fpls.2015.00641] [Citation(s) in RCA: 48] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/07/2015] [Accepted: 08/02/2015] [Indexed: 05/19/2023]
Abstract
Transcription activator-like (TAL) effectors are bacterial type III secretion proteins that function as transcription factors in plants during Xanthomonas/plant interactions, conditioning either host susceptibility and/or host resistance. Three types of TAL effector associated resistance (R) genes have been characterized-recessive, dominant non-transcriptional, and dominant TAL effector-dependent transcriptional based resistance. Here, we discuss the last type of R genes, whose functions are dependent on direct TAL effector binding to discrete effector binding elements in the promoters. Only five of the so-called executor R genes have been cloned, and commonalities are not clear. We have placed the protein products in two groups for conceptual purposes. Group 1 consists solely of the protein from pepper, BS3, which is predicted to have catalytic function on the basis of homology to a large conserved protein family. Group 2 consists of BS4C-R, XA27, XA10, and XA23, all of which are relatively short proteins from pepper or rice with multiple potential transmembrane domains. Group 2 members have low sequence similarity to proteins of unknown function in closely related species. Firm predictions await further experimentation on these interesting new members to the R gene repertoire, which have potential broad application in new strategies for disease resistance.
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Affiliation(s)
- Junli Zhang
- Department of Plant Pathology, Kansas State University, Manhattan, KS, USA
- *Correspondence: Junli Zhang, Department of Plant Pathology, Kansas State University, 4024 Throckmorton Plant Sciences Center, Manhattan, KS 66506, USA,
| | - Zhongchao Yin
- Temasek Life Sciences Laboratory, National University of Singapore, Singapore, Singapore
| | - Frank White
- Department of Plant Pathology, University of Florida, Gainesville, FL, USA
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