1
|
Bassetti N, Caarls L, Bouwmeester K, Verbaarschot P, van Eijden E, Zwaan BJ, Bonnema G, Schranz ME, Fatouros NE. A butterfly egg-killing hypersensitive response in Brassica nigra is controlled by a single locus, PEK, containing a cluster of TIR-NBS-LRR receptor genes. PLANT, CELL & ENVIRONMENT 2024; 47:1009-1022. [PMID: 37961842 DOI: 10.1111/pce.14765] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/14/2023] [Revised: 10/26/2023] [Accepted: 11/01/2023] [Indexed: 11/15/2023]
Abstract
Knowledge of plant recognition of insects is largely limited to a few resistance (R) genes against sap-sucking insects. Hypersensitive response (HR) characterizes monogenic plant traits relying on R genes in several pathosystems. HR-like cell death can be triggered by eggs of cabbage white butterflies (Pieris spp.), pests of cabbage crops (Brassica spp.), reducing egg survival and representing an effective plant resistance trait before feeding damage occurs. Here, we performed genetic mapping of HR-like cell death induced by Pieris brassicae eggs in the black mustard Brassica nigra (B. nigra). We show that HR-like cell death segregates as a Mendelian trait and identified a single dominant locus on chromosome B3, named PEK (Pieris egg- killing). Eleven genes are located in an approximately 50 kb region, including a cluster of genes encoding intracellular TIR-NBS-LRR (TNL) receptor proteins. The PEK locus is highly polymorphic between the parental accessions of our mapping populations and among B. nigra reference genomes. Our study is the first one to identify a single locus potentially involved in HR-like cell death induced by insect eggs in B. nigra. Further fine-mapping, comparative genomics and validation of the PEK locus will shed light on the role of these TNL receptors in egg-killing HR.
Collapse
Affiliation(s)
- Niccolò Bassetti
- Biosystematics Group, Wageningen University & Research, Wageningen, The Netherlands
| | - Lotte Caarls
- Biosystematics Group, Wageningen University & Research, Wageningen, The Netherlands
- Laboratory of Plant Breeding, Wageningen University & Research, Wageningen, The Netherlands
| | - Klaas Bouwmeester
- Biosystematics Group, Wageningen University & Research, Wageningen, The Netherlands
- Laboratory of Entomology, Wageningen University & Research, Wageningen, The Netherlands
| | - Patrick Verbaarschot
- Biosystematics Group, Wageningen University & Research, Wageningen, The Netherlands
| | - Ewan van Eijden
- Biosystematics Group, Wageningen University & Research, Wageningen, The Netherlands
| | - Bas J Zwaan
- Laboratory of Genetics, Wageningen University & Research, Wageningen, The Netherlands
| | - Guusje Bonnema
- Laboratory of Plant Breeding, Wageningen University & Research, Wageningen, The Netherlands
| | - M Eric Schranz
- Biosystematics Group, Wageningen University & Research, Wageningen, The Netherlands
| | - Nina E Fatouros
- Biosystematics Group, Wageningen University & Research, Wageningen, The Netherlands
| |
Collapse
|
2
|
Martina M, De Rosa V, Magon G, Acquadro A, Barchi L, Barcaccia G, De Paoli E, Vannozzi A, Portis E. Revitalizing agriculture: next-generation genotyping and -omics technologies enabling molecular prediction of resilient traits in the Solanaceae family. FRONTIERS IN PLANT SCIENCE 2024; 15:1278760. [PMID: 38375087 PMCID: PMC10875072 DOI: 10.3389/fpls.2024.1278760] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 08/17/2023] [Accepted: 01/22/2024] [Indexed: 02/21/2024]
Abstract
This review highlights -omics research in Solanaceae family, with a particular focus on resilient traits. Extensive research has enriched our understanding of Solanaceae genomics and genetics, with historical varietal development mainly focusing on disease resistance and cultivar improvement but shifting the emphasis towards unveiling resilience mechanisms in genebank-preserved germplasm is nowadays crucial. Collecting such information, might help researchers and breeders developing new experimental design, providing an overview of the state of the art of the most advanced approaches for the identification of the genetic elements laying behind resilience. Building this starting point, we aim at providing a useful tool for tackling the global agricultural resilience goals in these crops.
Collapse
Affiliation(s)
- Matteo Martina
- Department of Agricultural, Forest and Food Sciences (DISAFA), Plant Genetics, University of Torino, Grugliasco, Italy
| | - Valeria De Rosa
- Department of Agricultural, Food, Environmental and Animal Sciences (DI4A), University of Udine, Udine, Italy
| | - Gabriele Magon
- Department of Agronomy, Food, Natural Resources, Animals and Environment (DAFNAE), Laboratory of Plant Genetics and Breeding, University of Padua, Legnaro, Italy
| | - Alberto Acquadro
- Department of Agricultural, Forest and Food Sciences (DISAFA), Plant Genetics, University of Torino, Grugliasco, Italy
| | - Lorenzo Barchi
- Department of Agricultural, Forest and Food Sciences (DISAFA), Plant Genetics, University of Torino, Grugliasco, Italy
| | - Gianni Barcaccia
- Department of Agronomy, Food, Natural Resources, Animals and Environment (DAFNAE), Laboratory of Plant Genetics and Breeding, University of Padua, Legnaro, Italy
| | - Emanuele De Paoli
- Department of Agricultural, Food, Environmental and Animal Sciences (DI4A), University of Udine, Udine, Italy
| | - Alessandro Vannozzi
- Department of Agronomy, Food, Natural Resources, Animals and Environment (DAFNAE), Laboratory of Plant Genetics and Breeding, University of Padua, Legnaro, Italy
| | - Ezio Portis
- Department of Agricultural, Forest and Food Sciences (DISAFA), Plant Genetics, University of Torino, Grugliasco, Italy
| |
Collapse
|
3
|
Zhang Y, Kashkooli AB, Blom S, Zhao T, Bouwmeester HJ, Kappers IF. The Capsicum terpenoid biosynthetic module is affected by spider-mite herbivory. PLANT MOLECULAR BIOLOGY 2023; 113:303-321. [PMID: 37995005 PMCID: PMC10721696 DOI: 10.1007/s11103-023-01390-0] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/23/2023] [Accepted: 10/16/2023] [Indexed: 11/24/2023]
Abstract
In response to herbivory, Capsicum annuum leaves adapt their specialized metabolome that may protect the plant against herbivore feeding either directly or indirectly through volatile metabolites acting as cues for natural enemies of the herbivore. The volatile blend of spider-mite infested leaves differs from non-challenged leaves predominantly by a higher contribution of mono- and sesquiterpenes. In addition to these terpenoids released into the headspace, the terpenoid composition of the leaves alters upon herbivory. All this suggests an important role for terpenoids and their biosynthetic machinery in the defence against herbivory. Here, we show that the C. annuum genome contains a terpene synthase (TPS) gene family of 103 putative members of which structural analysis revealed that 27 encode functional enzymes. Transcriptome analysis showed that several TPS loci were differentially expressed upon herbivory in leaves of two C. annuum genotypes, that differ in susceptibility towards spider mites. The relative expression of upstream biosynthetic genes from the mevalonate and the methylerythritol phosphate pathway also altered upon herbivory, revealing a shift in the metabolic flux through the terpene biosynthetic module. The expression of multiple genes potentially acting downstream of the TPSs, including cytochrome P450 monooxygenases, UDP-glucosyl transferases, and transcription factors strongly correlated with the herbivory-induced TPS genes. A selection of herbivory-induced TPS genes was functionally characterized through heterologous expression and the products that these enzymes catalysed matched with the volatile and non-volatile terpenoids induced in response to herbivory.
Collapse
Affiliation(s)
- Yuanyuan Zhang
- Laboratory of Plant Physiology, Wageningen University, Wageningen, The Netherlands
- College of Forestry and Landscape Architectures, South China Agricultural University, Guangzhou, China
| | - Arman B Kashkooli
- Laboratory of Plant Physiology, Wageningen University, Wageningen, The Netherlands
- Tarbiat Modares University, Tehran, Iran
| | - Suze Blom
- Laboratory of Plant Physiology, Wageningen University, Wageningen, The Netherlands
- Laboratory of Molecular Biology, Wageningen University, Wageningen, The Netherlands
- Bioscience, Wageningen University & Research, Wageningen, The Netherlands
| | - Tao Zhao
- Biosystematics, Wageningen University, Wageningen, The Netherlands
- Northwest Agriculture and Forestry University, Xi'an, China
| | - Harro J Bouwmeester
- Swammerdam Institute for Life Sciences, University of Amsterdam, Amsterdam, The Netherlands
| | - Iris F Kappers
- Laboratory of Plant Physiology, Wageningen University, Wageningen, The Netherlands.
| |
Collapse
|
4
|
Genome wide identification and evolutionary analysis of vat like NBS-LRR genes potentially associated with resistance to aphids in cotton. Genetica 2023; 151:119-131. [PMID: 36717534 DOI: 10.1007/s10709-023-00181-1] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/05/2022] [Accepted: 01/24/2023] [Indexed: 02/01/2023]
Abstract
Nucleotide Binding Site - Leucine Rich Repeat (NBS-LRR) genes play a significant role in plant defense against biotic stresses and are an integral part of signal transduction pathways. Vat gene has been well reported for their role in resistance to Aphis gossypii and viruses transmitted by them. Despite their importance, Vat like NBS-LRR resistance genes have not yet been identified and studied in cotton species. This study report hundreds of orthologous Vat like NBS-LRR genes from the genomes of 18 cotton species through homology searches and the distribution of those identified genes were tend to be clustered on different chromosome. Especially, in a majority of the cases, Vat like genes were located on chromosome number 13 and they all shared two conserved NBS-LRR domains, one disease resistant domain and several repeats of LRR on the investigated cotton Vat like proteins. Gene ontology study on Vat like NBS-LRR genes revealed the molecular functions viz., ADP and protein binding. Phylogenetic analysis also revealed that Vat like sequences of two diploid species, viz., G. arboreum and G. anomalum, were closely related to the sequences of the tetraploids than all other diploids. The Vat like genes of G. aridum and G. schwendimanii were distantly related among diploids and tetraploids species. Various hormones and defense related cis-acting regulatory elements were identified from the 2 kb upstream sequences of the Vat like genes implying their defensive response towards the biotic stresses. Interestingly, G. arboreum and G. trilobum were found to have more regulatory elements than larger genomes of tetraploid cotton species. Thus, the present study provides the evidence for the evolution of Vat like genes in defense mechanisms against aphids infestation in cotton genomes and allows further characterization of candidate genes for developing aphid and aphid transmitted viruses resistant crops through cotton breeding.
Collapse
|
5
|
Zhang Z, Cao Y, Wang Y, Yu H, Wu H, Liu J, An D, Zhu Y, Feng X, Zhang B, Wang L. Development and validation of KASP markers for resistance to Phytophthora capsici in Capsicum annuum L. MOLECULAR BREEDING : NEW STRATEGIES IN PLANT IMPROVEMENT 2023; 43:20. [PMID: 37313294 PMCID: PMC10248700 DOI: 10.1007/s11032-023-01367-3] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/04/2022] [Accepted: 02/25/2023] [Indexed: 06/15/2023]
Abstract
Resistance of Capsicum annuum to Phytophthora blight is dependent on the genetic background of the resistance source and the Phytophthora capsici isolate, which poses challenges for development of generally applicable molecular markers for marker-assisted selection. In this study, the resistance to P. capsici of C. annuum was genetically mapped to chromosome 5 within a 1.68-Mb interval by genome-wide association study analysis of 237 accessions. In this candidate region, 30 KASP markers were developed using genome resequencing data for a P. capsici-resistant line (0601 M) and a susceptible line (77,013). Seven of these KASP markers, located in the coding region of a probable leucine-rich repeats receptor-like serine/threonine-protein kinase gene (Capana05g000704), were validated in the 237 accessions, which showed an average accuracy of 82.7%. The genotyping of the seven KASP markers strongly corresponded with the phenotype of 42 individual plants in a pedigree family (PC83-163) developed from the P. capsici-resistant line CM334. This research provides a set of efficient and high-throughput KASP markers for marker-assisted selection of resistance to P. capsici in C. annuum. Supplementary Information The online version contains supplementary material available at 10.1007/s11032-023-01367-3.
Collapse
Affiliation(s)
- Zhenghai Zhang
- Key Laboratory of Vegetable Genetics and Physiology of the Ministry of Agriculture, Institute of Vegetables and Flowers, Chinese Academy of Agricultural Sciences, 12 Zhongguancun Nandajie, Beijing, 100081 China
| | - Yacong Cao
- Key Laboratory of Vegetable Genetics and Physiology of the Ministry of Agriculture, Institute of Vegetables and Flowers, Chinese Academy of Agricultural Sciences, 12 Zhongguancun Nandajie, Beijing, 100081 China
| | - Yongfu Wang
- Key Laboratory of Vegetable Genetics and Physiology of the Ministry of Agriculture, Institute of Vegetables and Flowers, Chinese Academy of Agricultural Sciences, 12 Zhongguancun Nandajie, Beijing, 100081 China
| | - Hailong Yu
- Key Laboratory of Vegetable Genetics and Physiology of the Ministry of Agriculture, Institute of Vegetables and Flowers, Chinese Academy of Agricultural Sciences, 12 Zhongguancun Nandajie, Beijing, 100081 China
| | - Huamao Wu
- Key Laboratory of Vegetable Genetics and Physiology of the Ministry of Agriculture, Institute of Vegetables and Flowers, Chinese Academy of Agricultural Sciences, 12 Zhongguancun Nandajie, Beijing, 100081 China
| | - Jing Liu
- Key Laboratory of Vegetable Genetics and Physiology of the Ministry of Agriculture, Institute of Vegetables and Flowers, Chinese Academy of Agricultural Sciences, 12 Zhongguancun Nandajie, Beijing, 100081 China
| | - Dongliang An
- Key Laboratory of Vegetable Genetics and Physiology of the Ministry of Agriculture, Institute of Vegetables and Flowers, Chinese Academy of Agricultural Sciences, 12 Zhongguancun Nandajie, Beijing, 100081 China
| | - Yanshu Zhu
- Key Laboratory of Vegetable Genetics and Physiology of the Ministry of Agriculture, Institute of Vegetables and Flowers, Chinese Academy of Agricultural Sciences, 12 Zhongguancun Nandajie, Beijing, 100081 China
| | - Xigang Feng
- Key Laboratory of Vegetable Genetics and Physiology of the Ministry of Agriculture, Institute of Vegetables and Flowers, Chinese Academy of Agricultural Sciences, 12 Zhongguancun Nandajie, Beijing, 100081 China
| | - Baoxi Zhang
- Key Laboratory of Vegetable Genetics and Physiology of the Ministry of Agriculture, Institute of Vegetables and Flowers, Chinese Academy of Agricultural Sciences, 12 Zhongguancun Nandajie, Beijing, 100081 China
| | - Lihao Wang
- Key Laboratory of Vegetable Genetics and Physiology of the Ministry of Agriculture, Institute of Vegetables and Flowers, Chinese Academy of Agricultural Sciences, 12 Zhongguancun Nandajie, Beijing, 100081 China
| |
Collapse
|
6
|
Bassetti N, Caarls L, Bukovinszkine'Kiss G, El-Soda M, van Veen J, Bouwmeester K, Zwaan BJ, Schranz ME, Bonnema G, Fatouros NE. Genetic analysis reveals three novel QTLs underpinning a butterfly egg-induced hypersensitive response-like cell death in Brassica rapa. BMC PLANT BIOLOGY 2022; 22:140. [PMID: 35331150 PMCID: PMC8944062 DOI: 10.1186/s12870-022-03522-y] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 11/23/2021] [Accepted: 03/08/2022] [Indexed: 06/14/2023]
Abstract
BACKGROUND Cabbage white butterflies (Pieris spp.) can be severe pests of Brassica crops such as Chinese cabbage, Pak choi (Brassica rapa) or cabbages (B. oleracea). Eggs of Pieris spp. can induce a hypersensitive response-like (HR-like) cell death which reduces egg survival in the wild black mustard (B. nigra). Unravelling the genetic basis of this egg-killing trait in Brassica crops could improve crop resistance to herbivory, reducing major crop losses and pesticides use. Here we investigated the genetic architecture of a HR-like cell death induced by P. brassicae eggs in B. rapa. RESULTS A germplasm screening of 56 B. rapa accessions, representing the genetic and geographical diversity of a B. rapa core collection, showed phenotypic variation for cell death. An image-based phenotyping protocol was developed to accurately measure size of HR-like cell death and was then used to identify two accessions that consistently showed weak (R-o-18) or strong cell death response (L58). Screening of 160 RILs derived from these two accessions resulted in three novel QTLs for Pieris brassicae-induced cell death on chromosomes A02 (Pbc1), A03 (Pbc2), and A06 (Pbc3). The three QTLs Pbc1-3 contain cell surface receptors, intracellular receptors and other genes involved in plant immunity processes, such as ROS accumulation and cell death formation. Synteny analysis with A. thaliana suggested that Pbc1 and Pbc2 are novel QTLs associated with this trait, while Pbc3 also contains an ortholog of LecRK-I.1, a gene of A. thaliana previously associated with cell death induced by a P. brassicae egg extract. CONCLUSIONS This study provides the first genomic regions associated with the Pieris egg-induced HR-like cell death in a Brassica crop species. It is a step closer towards unravelling the genetic basis of an egg-killing crop resistance trait, paving the way for breeders to further fine-map and validate candidate genes.
Collapse
Affiliation(s)
- Niccolò Bassetti
- Biosystematics Group, Wageningen University & Research, Wageningen, The Netherlands
| | - Lotte Caarls
- Biosystematics Group, Wageningen University & Research, Wageningen, The Netherlands
- Laboratory of Plant Breeding, Wageningen University & Research, Wageningen, The Netherlands
| | - Gabriella Bukovinszkine'Kiss
- Biosystematics Group, Wageningen University & Research, Wageningen, The Netherlands
- Laboratory of Genetics, Wageningen University & Research, Wageningen, The Netherlands
| | - Mohamed El-Soda
- Department of Genetics, Faculty of Agriculture, Cairo University, Giza, Egypt
| | - Jeroen van Veen
- Biosystematics Group, Wageningen University & Research, Wageningen, The Netherlands
| | - Klaas Bouwmeester
- Biosystematics Group, Wageningen University & Research, Wageningen, The Netherlands
- Laboratory of Entomology, Wageningen University & Research, Wageningen, The Netherlands
| | - Bas J Zwaan
- Laboratory of Genetics, Wageningen University & Research, Wageningen, The Netherlands
| | - M Eric Schranz
- Biosystematics Group, Wageningen University & Research, Wageningen, The Netherlands
| | - Guusje Bonnema
- Laboratory of Plant Breeding, Wageningen University & Research, Wageningen, The Netherlands
| | - Nina E Fatouros
- Biosystematics Group, Wageningen University & Research, Wageningen, The Netherlands.
| |
Collapse
|
7
|
Kim KS, Kim JM, Jung J, Shin I, Park S, Lee JS, Jeong SC, Lee JD, Jung JK, Ha BK, Kang S. Fine-mapping and candidate gene analysis for the foxglove aphid resistance gene Raso2 from wild soybean PI 366121. TAG. THEORETICAL AND APPLIED GENETICS. THEORETISCHE UND ANGEWANDTE GENETIK 2021; 134:2687-2698. [PMID: 33974087 DOI: 10.1007/s00122-021-03853-8] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/23/2020] [Accepted: 05/04/2021] [Indexed: 06/12/2023]
Abstract
KEY MESSAGE The foxglove aphid resistance gene Raso2 from PI 366121 was fine-mapped to 77 Kb region, and one candidate gene was identified. The foxglove aphid (FA: Aulacorthum solani Kaltenbach) is an important insect pest that causes serious yield losses in soybean. The FA resistance gene Raso2 from wild soybean PI 366121 was previously mapped to a 13 cM interval on soybean chromosome 7. However, fine-mapping of Raso2 was needed to improve the effectiveness of marker-assisted selection (MAS) and to eventually clone it. The objectives of this study were to fine-map Raso2 from PI 366121 using Axiom® 180 K SoyaSNP array, to confirm the resistance and inheritance of Raso2 in a different background, and to identify candidate gene(s). The 105 F4:8 recombinant inbred lines were used to fine-map the gene and to test antibiosis and antixenosis of Raso2 to FA. These efforts resulted in the mapping of Raso2 on 1 cM interval which corresponds to 77 Kb containing eight annotated genes based on the Williams 82 reference genome assembly (Wm82.a2.v1). Interestingly, all nonsynonymous substitutions were in Glyma.07g077700 which encodes the disease resistance protein containing LRR domain and expression of the gene in PI 366121 was significantly higher than that in Williams 82. In addition, distinct SNPs within Glyma.07g077700 that can distinguish PI 366121 and diverse FA-susceptible soybeans were identified. We also confirmed that Raso2 presented the resistance to FA and the Mendelian inheritance for single dominant gene in a different background. The results of this study would provide fundamental information on MAS for development of FA-resistant cultivars as well as functional study and cloning of the candidate gene in soybean.
Collapse
Affiliation(s)
- Ki-Seung Kim
- Deparment of Innovative Technology, FarmHannong, Ltd., Nonsan, 33010, Korea
| | - Ji-Min Kim
- Department of Crop Science and Biotechnology, Dankook University, Cheonan, 31116, Korea
| | - Jiyeong Jung
- Department of Crop Science and Biotechnology, Dankook University, Cheonan, 31116, Korea
| | - Ilseob Shin
- Department of Crop Science and Biotechnology, Dankook University, Cheonan, 31116, Korea
| | - Sumin Park
- Department of Crop Science and Biotechnology, Dankook University, Cheonan, 31116, Korea
- Business Incubation Center, Sae Han Agricultural Technology Research Station, Hwaseong, 18330, Korea
| | - Ju Seok Lee
- Bio-Evaluation Center, Korea Research Institute of Bioscience and Biotechnology, Cheongju, 28116, Korea
| | - Soon-Chun Jeong
- Bio-Evaluation Center, Korea Research Institute of Bioscience and Biotechnology, Cheongju, 28116, Korea
| | - Jeong-Dong Lee
- School of Applied Biosciences, Kyungpook National University, Daegu, 41566, Korea
| | - Jin Kyo Jung
- Rural Development Administration, National Institute of Crop Science, Suwon, 16613, Korea
| | - Bo-Keun Ha
- Department of Applied Plant Science, Chonnam National University, Gwangju, 61186, Korea
| | - Sungtaeg Kang
- Department of Crop Science and Biotechnology, Dankook University, Cheonan, 31116, Korea.
| |
Collapse
|
8
|
Kloth KJ, Shah P, Broekgaarden C, Ström C, Albrectsen BR, Dicke M. SLI1 confers broad-spectrum resistance to phloem-feeding insects. PLANT, CELL & ENVIRONMENT 2021; 44:2765-2776. [PMID: 33837973 PMCID: PMC8360143 DOI: 10.1111/pce.14064] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/11/2021] [Revised: 03/30/2021] [Accepted: 04/02/2021] [Indexed: 05/13/2023]
Abstract
Resistance (R) genes usually compete in a coevolutionary arms race with reciprocal effectors to confer strain-specific resistance to pathogens or herbivorous insects. Here, we investigate the specificity of SLI1, a recently identified R gene in Arabidopsis that encodes a small heat shock-like protein involved in resistance to Myzus persicae aphids. In a panel with several aphid and whitefly species, SLI1 compromised reproductive rates of three species: the tobacco aphid M. persicae nicotianae, the cabbage aphid Brevicoryne brassicae and the cabbage whitefly Aleyrodes proletella. Electrical penetration graph recording of aphid behaviour, revealed shorter salivations and a 3-to-5-fold increase in phloem feeding on sli1 loss-of-function plants. The mustard aphid Lipaphis erysimi and Bemisia tabaci whitefly were not affected by SLI1. Unlike the other two aphid species, L. erysimi exhibited repetitive salivations preceding successful phloem feeding, indicating a role of salivary effectors in overcoming SLI1-mediated resistance. Microscopic characterization showed that SLI1 proteins localize in the sieve tubes of virtually all above- and below-ground tissues and co-localize with the aphid stylet tip after penetration of the sieve element plasma membrane. These observations reveal an unconventional R gene that escapes the paradigm of strain specificity and confers broad-spectrum quantitative resistance to phloem-feeding insects.
Collapse
Affiliation(s)
- Karen J. Kloth
- Laboratory of EntomologyWageningen University & ResearchWageningenThe Netherlands
| | - Parth Shah
- Laboratory of EntomologyWageningen University & ResearchWageningenThe Netherlands
| | | | - Cecilia Ström
- Department of Plant Physiology, Umeå Plant Science CentreUmeå UniversityUmeåSweden
| | | | - Marcel Dicke
- Laboratory of EntomologyWageningen University & ResearchWageningenThe Netherlands
| |
Collapse
|
9
|
Lovell JT, Bentley NB, Bhattarai G, Jenkins JW, Sreedasyam A, Alarcon Y, Bock C, Boston LB, Carlson J, Cervantes K, Clermont K, Duke S, Krom N, Kubenka K, Mamidi S, Mattison CP, Monteros MJ, Pisani C, Plott C, Rajasekar S, Rhein HS, Rohla C, Song M, Hilaire RS, Shu S, Wells L, Webber J, Heerema RJ, Klein PE, Conner P, Wang X, Grauke LJ, Grimwood J, Schmutz J, Randall JJ. Four chromosome scale genomes and a pan-genome annotation to accelerate pecan tree breeding. Nat Commun 2021; 12:4125. [PMID: 34226565 PMCID: PMC8257795 DOI: 10.1038/s41467-021-24328-w] [Citation(s) in RCA: 35] [Impact Index Per Article: 11.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/22/2021] [Accepted: 06/07/2021] [Indexed: 02/06/2023] Open
Abstract
Genome-enabled biotechnologies have the potential to accelerate breeding efforts in long-lived perennial crop species. Despite the transformative potential of molecular tools in pecan and other outcrossing tree species, highly heterozygous genomes, significant presence-absence gene content variation, and histories of interspecific hybridization have constrained breeding efforts. To overcome these challenges, here, we present diploid genome assemblies and annotations of four outbred pecan genotypes, including a PacBio HiFi chromosome-scale assembly of both haplotypes of the 'Pawnee' cultivar. Comparative analysis and pan-genome integration reveal substantial and likely adaptive interspecific genomic introgressions, including an over-retained haplotype introgressed from bitternut hickory into pecan breeding pedigrees. Further, by leveraging our pan-genome presence-absence and functional annotation database among genomes and within the two outbred haplotypes of the 'Lakota' genome, we identify candidate genes for pest and pathogen resistance. Combined, these analyses and resources highlight significant progress towards functional and quantitative genomics in highly diverse and outbred crops.
Collapse
Affiliation(s)
- John T. Lovell
- grid.417691.c0000 0004 0408 3720Genome Sequencing Center, HudsonAlpha Institute for Biotechnology, Huntsville, AL USA
| | - Nolan B. Bentley
- grid.264756.40000 0004 4687 2082Department of Horticultural Science, Texas A&M University, College Station, TX USA
| | - Gaurab Bhattarai
- grid.213876.90000 0004 1936 738XInstitute of Plant Breeding, Genetics & Genomics, University of Georgia, Athens, GA USA
| | - Jerry W. Jenkins
- grid.417691.c0000 0004 0408 3720Genome Sequencing Center, HudsonAlpha Institute for Biotechnology, Huntsville, AL USA
| | - Avinash Sreedasyam
- grid.417691.c0000 0004 0408 3720Genome Sequencing Center, HudsonAlpha Institute for Biotechnology, Huntsville, AL USA
| | - Yanina Alarcon
- grid.419447.b0000 0004 0370 5663Noble Research Institute, Ardmore, OK USA
| | - Clive Bock
- USDA Southeastern Fruit and Tree Nut Research Laboratory, Byron, GA USA
| | - Lori Beth Boston
- grid.417691.c0000 0004 0408 3720Genome Sequencing Center, HudsonAlpha Institute for Biotechnology, Huntsville, AL USA
| | - Joseph Carlson
- grid.451309.a0000 0004 0449 479XDOE Joint Genome Institute, Berkeley, CA USA
| | - Kimberly Cervantes
- grid.24805.3b0000 0001 0687 2182Department of Entomology, Plant Pathology and Weed Science, New Mexico State University, Las Cruces, NM USA
| | - Kristen Clermont
- grid.507314.4USDA-ARS Food Processing and Sensory Quality Research, New Orleans, LA USA
| | - Sara Duke
- USDA-ARS Plains Area Administrative Office, College Station, TX USA
| | - Nick Krom
- grid.419447.b0000 0004 0370 5663Noble Research Institute, Ardmore, OK USA
| | - Keith Kubenka
- USDA Pecan Breeding and Genetics, College Station, TX USA
| | - Sujan Mamidi
- grid.417691.c0000 0004 0408 3720Genome Sequencing Center, HudsonAlpha Institute for Biotechnology, Huntsville, AL USA
| | | | - Maria J. Monteros
- grid.419447.b0000 0004 0370 5663Noble Research Institute, Ardmore, OK USA
| | - Cristina Pisani
- USDA Southeastern Fruit and Tree Nut Research Laboratory, Byron, GA USA
| | - Christopher Plott
- grid.417691.c0000 0004 0408 3720Genome Sequencing Center, HudsonAlpha Institute for Biotechnology, Huntsville, AL USA
| | - Shanmugam Rajasekar
- grid.134563.60000 0001 2168 186XArizona Genomics Institute, University of Arizona, Tucson, AZ USA
| | - Hormat Shadgou Rhein
- grid.24805.3b0000 0001 0687 2182Department of Entomology, Plant Pathology and Weed Science, New Mexico State University, Las Cruces, NM USA
| | - Charles Rohla
- grid.419447.b0000 0004 0370 5663Noble Research Institute, Ardmore, OK USA
| | - Mingzhou Song
- grid.24805.3b0000 0001 0687 2182Department of Computer Science, New Mexico State University, Las Cruces, NM USA
| | - Rolston St. Hilaire
- grid.24805.3b0000 0001 0687 2182Plant and Environmental Sciences, New Mexico State University, Las Cruces, NM USA
| | - Shengqiang Shu
- grid.451309.a0000 0004 0449 479XDOE Joint Genome Institute, Berkeley, CA USA
| | - Lenny Wells
- grid.213876.90000 0004 1936 738XDepartment of Horticulture, University of Georgia-Tifton Campus, Tifton, GA USA
| | - Jenell Webber
- grid.417691.c0000 0004 0408 3720Genome Sequencing Center, HudsonAlpha Institute for Biotechnology, Huntsville, AL USA
| | - Richard J. Heerema
- grid.24805.3b0000 0001 0687 2182Department of Computer Science, New Mexico State University, Las Cruces, NM USA
| | - Patricia E. Klein
- grid.264756.40000 0004 4687 2082Department of Horticultural Science, Texas A&M University, College Station, TX USA
| | - Patrick Conner
- grid.213876.90000 0004 1936 738XDepartment of Horticulture, University of Georgia-Tifton Campus, Tifton, GA USA
| | - Xinwang Wang
- USDA Pecan Breeding and Genetics, College Station, TX USA
| | - L. J. Grauke
- USDA Pecan Breeding and Genetics, College Station, TX USA
| | - Jane Grimwood
- grid.417691.c0000 0004 0408 3720Genome Sequencing Center, HudsonAlpha Institute for Biotechnology, Huntsville, AL USA
| | - Jeremy Schmutz
- grid.417691.c0000 0004 0408 3720Genome Sequencing Center, HudsonAlpha Institute for Biotechnology, Huntsville, AL USA ,grid.451309.a0000 0004 0449 479XDOE Joint Genome Institute, Berkeley, CA USA
| | - Jennifer J. Randall
- grid.24805.3b0000 0001 0687 2182Department of Entomology, Plant Pathology and Weed Science, New Mexico State University, Las Cruces, NM USA
| |
Collapse
|
10
|
Qiu W, Soares J, Pang Z, Huang Y, Sun Z, Wang N, Grosser J, Dutt M. Potential Mechanisms of AtNPR1 Mediated Resistance against Huanglongbing (HLB) in Citrus. Int J Mol Sci 2020; 21:ijms21062009. [PMID: 32187998 PMCID: PMC7139736 DOI: 10.3390/ijms21062009] [Citation(s) in RCA: 21] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/20/2020] [Revised: 03/12/2020] [Accepted: 03/12/2020] [Indexed: 02/03/2023] Open
Abstract
Huanglongbing (HLB), a bacterial disease caused by Candidatus Liberibacter asiaticus (CLas), is a major threat to the citrus industry. In a previous study conducted by our laboratory, several citrus transgenic trees expressing the Arabidopsis thaliana NPR1 (AtNPR1) gene remained HLB-free when grown in a field site under high HLB disease pressure. To determine the molecular mechanisms behind AtNPR1-mediated tolerance to HLB, a transcriptome analysis was performed using AtNPR1 overexpressing transgenic trees and non-transgenic trees as control, from which we identified 57 differentially expressed genes (DEGs). Data mining revealed the enhanced transcription of genes encoding pathogen-associated molecular patterns (PAMPs), transcription factors, leucine-rich repeat receptor kinases (LRR-RKs), and putative ankyrin repeat-containing proteins. These proteins were highly upregulated in the AtNPR1 transgenic line compared to the control plant. Furthermore, analysis of protein–protein interactions indicated that AtNPR1 interacts with CsNPR3 and CsTGA5 in the nucleus. Our results suggest that AtNPR1 positively regulates the innate defense mechanisms in citrus thereby boosting resistance and effectively protecting the plant against HLB.
Collapse
Affiliation(s)
- Wenming Qiu
- Institute of Fruit and Tea, Hubei Academy of Agricultural Sciences, Wuhan 430064, China; (W.Q.); (Z.S.)
- Citrus Research and Education Center, University of Florida, Lake Alfred, FL 33850, USA; (J.S.); (Z.P.); (Y.H.); (N.W.); (J.G.)
| | - Juliana Soares
- Citrus Research and Education Center, University of Florida, Lake Alfred, FL 33850, USA; (J.S.); (Z.P.); (Y.H.); (N.W.); (J.G.)
| | - Zhiqian Pang
- Citrus Research and Education Center, University of Florida, Lake Alfred, FL 33850, USA; (J.S.); (Z.P.); (Y.H.); (N.W.); (J.G.)
| | - Yixiao Huang
- Citrus Research and Education Center, University of Florida, Lake Alfred, FL 33850, USA; (J.S.); (Z.P.); (Y.H.); (N.W.); (J.G.)
| | - Zhonghai Sun
- Institute of Fruit and Tea, Hubei Academy of Agricultural Sciences, Wuhan 430064, China; (W.Q.); (Z.S.)
| | - Nian Wang
- Citrus Research and Education Center, University of Florida, Lake Alfred, FL 33850, USA; (J.S.); (Z.P.); (Y.H.); (N.W.); (J.G.)
| | - Jude Grosser
- Citrus Research and Education Center, University of Florida, Lake Alfred, FL 33850, USA; (J.S.); (Z.P.); (Y.H.); (N.W.); (J.G.)
| | - Manjul Dutt
- Citrus Research and Education Center, University of Florida, Lake Alfred, FL 33850, USA; (J.S.); (Z.P.); (Y.H.); (N.W.); (J.G.)
- Correspondence:
| |
Collapse
|