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Sakka MK, Mavridis K, Papapostolou KM, Riga M, Vontas J, Athanassiou CG. Development, application and evaluation of three novel TaqMan qPCR assays for phosphine resistance monitoring in major stored product pests Tribolium castaneum and Rhyzopertha dominica. PEST MANAGEMENT SCIENCE 2024; 80:275-281. [PMID: 37671455 DOI: 10.1002/ps.7755] [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: 06/20/2023] [Revised: 08/22/2023] [Accepted: 09/06/2023] [Indexed: 09/07/2023]
Abstract
BACKROUND Stored product protection from insect pests relies heavily on the use of phosphine. The most serious drawback of phosphine is the development of resistance in major stored product insects worldwide, including the red flour beetle, Tribolium castaneum (Herbst) and the lesser grain borer, Rhyzopertha dominica (F.). Two genetic loci are responsible for phosphine resistance: the rph1 (S349G mutation in the cyt-b5-r homolog) in T. castaneum and the rph2 (P45/49S mutation in the dihydrolipoamide dehydrogenase (dld) gene) in T. castaneum and R. dominica. RESULTS In this study, we have developed and applied high-throughput, practical and specific molecular diagnostics (TaqMan qPCR) for monitoring mutations S349G, P45S and P49S. In our pilot monitoring application, we have included phosphine-resistant and susceptible populations from different parts of the world (USA, Australia, Brazil) and European strains from Greece and Serbia. Our results for the resistant T. castaneum showed a P45S mutant allele frequency (MAF) of 100% and 75.0% in the populations from Serbia and Brazil, respectively. Regarding the susceptible T. castaneum, P45S was detected in Greece (MAF = 62.5%) and was absent in Australia (MAF = 0.0%). Additionally, the S349G mutation was found to be fixed in all resistant populations, while it was also detected in susceptible ones (frequencies: 65.0% and 100.0%). The only case where both mutations were fixed (100%) was a resistant population from Serbia. In R. dominica, the P49S mutation was found only in the two resistant R. dominica populations from Serbia and Greece (50.0% and 100%) and was absent from the susceptible one from Greece; thus, P49S seems to be a satisfactory indicator for monitoring phosphine resistance. CONCLUSIONS Our P49S detection assay in R. dominica seems to be a viable option in this direction, yet its utilization needs additional large-scale confirmatory work. The identification of additional resistance markers also should be prioritized. © 2023 The Authors. Pest Management Science published by John Wiley & Sons Ltd on behalf of Society of Chemical Industry.
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Affiliation(s)
- Maria K Sakka
- Laboratory of Entomology and Agricultural Zoology, Department of Agriculture, Crop Production and Rural Environment, University of Thessaly, Volos, Greece
| | - Konstantinos Mavridis
- Institute of Molecular Biology and Biotechnology, Foundation for Research and Technology-Hellas, Heraklion, Greece
| | - Kyriaki Maria Papapostolou
- Institute of Molecular Biology and Biotechnology, Foundation for Research and Technology-Hellas, Heraklion, Greece
| | - Maria Riga
- Institute of Molecular Biology and Biotechnology, Foundation for Research and Technology-Hellas, Heraklion, Greece
| | - John Vontas
- Institute of Molecular Biology and Biotechnology, Foundation for Research and Technology-Hellas, Heraklion, Greece
- Pesticide Science Laboratory, Department of Crop Science, Agricultural University of Athens, Athens, Greece
| | - Christos G Athanassiou
- Laboratory of Entomology and Agricultural Zoology, Department of Agriculture, Crop Production and Rural Environment, University of Thessaly, Volos, Greece
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Li L, Shan C, Liu Q, Li B, Liu T. Comparative Analysis of the Metabolic Profiles of Strains of Tribolium castaneum (Herbst) Adults with Different Levels of Phosphine Resistance Based on Direct Immersion Solid-Phase Microextraction and Gas Chromatography-Mass Spectrometry. Molecules 2023; 28:7721. [PMID: 38067452 PMCID: PMC10707947 DOI: 10.3390/molecules28237721] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/16/2023] [Revised: 11/07/2023] [Accepted: 11/17/2023] [Indexed: 12/18/2023] Open
Abstract
The management of phosphine (PH3) resistance in stored grain pests is an essential component of implementing timely and effective pest control strategies. The prevailing standard method for PH3 resistance testing involves the exposure of adult insects to a specific concentration over a fixed period. Although it is widely adopted, this method necessitates an extensive period for assay preparation and diagnosis. To address this issue, this study employed Direct Immersion Solid-Phase Microextraction (DI-SPME) coupled with Gas Chromatography-Mass Spectrometry (GC-MS) to compare and analyze the metabolic profiles of PH3-sensitive (TC-S), PH3 weak-resistant (TC-W), and PH3 strong-resistant (TC-SR) Tribolium castaneum (Herbst) adults. A total of 36 metabolites were identified from 3 different PH3-resistant strains of T. castaneum; 29 metabolites were found to present significant differences (p < 0.05) across these groups, with hydrocarbon and aromatic compounds being particularly prevalent. Seven metabolites showed no significant variations among the strains, consisting of four hydrocarbon compounds, two iodo-hydrocarbon compounds, and one alcohol compound. Further multivariate statistical analysis revealed a total of three, two, and nine differentially regulated metabolites between the TC-S versus TC-W, TC-S versus TC-SR, and TC-W versus TC-SR groups, respectively. Primarily, these metabolites comprised hydrocarbons and iodo-hydrocarbons, with the majority being associated with insect cuticle metabolism. This study demonstrates that DI-SPME technology is an effective method for studying differentially expressed metabolites in T. castaneum with different levels of PH3 resistance. This approach may help to provide a better understanding of the development of insect PH3 resistance and act as a valuable reference for the establishment of rapid diagnostic techniques for insect PH3 resistance.
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Affiliation(s)
| | | | | | | | - Tao Liu
- Institute of Equipment Technology, Chinese Academy of Inspection and Quarantine, No. A3 Gaobeidianbeilu, Chaoyang District, Beijing 100123, China; (L.L.); (C.S.); (Q.L.); (B.L.)
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Selvapandian U, Nallusamy S, Singh SK, Mannu J, Shanmugam V, Ravikumar C, Subbarayalu M. Transcriptome profiling and in silico docking analysis of phosphine resistance in rice weevil, Sitophilus oryzae (Coleoptera: Curculionidae). JOURNAL OF INSECT SCIENCE (ONLINE) 2023; 23:29. [PMID: 38159032 PMCID: PMC10757423 DOI: 10.1093/jisesa/iead110] [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: 03/07/2023] [Revised: 09/08/2023] [Accepted: 11/28/2023] [Indexed: 01/03/2024]
Abstract
The rice weevil, Sitophilus oryzae (Linnaeus, Coleoptera: Curculionidae), is a serious cosmopolitan pest that affects grain in storage and has developed high levels of resistance toward phosphine. In this study, RNA-seq data was used to study the phosphine resistance mechanisms in S. oryzae. Resistant and susceptible populations of S. oryzae were identified based on phosphine bioassays conducted in 32 populations collected across Tamil Nadu, India. Differential expression of mitochondrial (COX1, COX2, COX3, ND2, ND3, ATP6, and ATP8) and detoxification genes (Cyps, Gsts, and Cbe) were observed in the resistant and susceptible populations of S. oryzae. The previously characterized phosphine resistant gene, dld (dihydrolipoamide dehydrogenase) linked to the rph2 locus, was found to be up-regulated in resistant S. oryzae population (ISO-TNAU-RT) treated with phosphine. Also, the genes involved in Tricarboxylic acid (TCA) cycle were significantly down-regulated. In addition, a significant up-regulation in the expression of the antioxidant enzymes superoxide dismutase (2.5×) and catalase (2.1×) in ISO-TNAU-RT populations was recorded. Furthermore, a distinct amino acid substitution, Lysine > Glutamic acid (K141E) was identified in resistant phenotypes. In silico docking studies of both resistant and susceptible DLD protein with phosphine molecule revealed that the amino acid residues involved in the interaction were different. This suggested that the amino acid substitution might lead to structural modifications which reduces the affinity of the target (phosphine). This study provides insight on the various genes, pathways, and functional mechanisms having a significant role in phosphine resistance in S. oryzae.
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Affiliation(s)
- Upasna Selvapandian
- Department of Plant Biotechnology, Centre for Plant Molecular Biology & Biotechnology, Tamil Nadu Agricultural University, Coimbatore, India
| | - Saranya Nallusamy
- Department of Plant Molecular Biology and Bioinformatics, Centre for Plant Molecular Biology & Biotechnology, Tamil Nadu Agricultural University, Coimbatore, India
| | - Sonu Kumar Singh
- Department of Plant Biotechnology, Centre for Plant Molecular Biology & Biotechnology, Tamil Nadu Agricultural University, Coimbatore, India
| | - Jayakanthan Mannu
- Department of Plant Molecular Biology and Bioinformatics, Centre for Plant Molecular Biology & Biotechnology, Tamil Nadu Agricultural University, Coimbatore, India
| | - Varanavasiappan Shanmugam
- Department of Plant Biotechnology, Centre for Plant Molecular Biology & Biotechnology, Tamil Nadu Agricultural University, Coimbatore, India
| | - Caroline Ravikumar
- Department of Plant Molecular Biology and Bioinformatics, Centre for Plant Molecular Biology & Biotechnology, Tamil Nadu Agricultural University, Coimbatore, India
| | - Mohankumar Subbarayalu
- Department of Plant Biotechnology, Centre for Plant Molecular Biology & Biotechnology, Tamil Nadu Agricultural University, Coimbatore, India
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Shen X, Che M, Xu H, Zhuang X, Chen E, Tang P, Wang K. Insight into the molecular mechanism of phosphine toxicity provided by functional analysis of cytochrome b5 fatty acid desaturase and dihydrolipoamide dehydrogenase in the red flour beetle, Tribolium castaneum. PESTICIDE BIOCHEMISTRY AND PHYSIOLOGY 2023; 194:105482. [PMID: 37532347 DOI: 10.1016/j.pestbp.2023.105482] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/12/2023] [Revised: 05/08/2023] [Accepted: 05/25/2023] [Indexed: 08/04/2023]
Abstract
Phosphine is the dominant chemical used in postharvest pest control. Widespread and highly frequent use of phosphine has been selected for pest insects, including Tribolium castaneum, which is highly resistant. Lipid peroxidation and reactive oxygen species (ROS) are two major factors determining phosphine toxicity; however, the mechanisms of production of these two factors in phosphine toxicity are still unknown. Here, we first determined the time course of phosphine-induced lipid peroxidation and ROS production in T. castaneum. Our results showed that lipid peroxidation occurs before ROS in the process of phosphine toxicity, and fumigated beetles with higher resistance levels were associated with weaker activity on lipid peroxidation and ROS. A significant decline in lipid peroxidation was observed in fumigated individuals after knockdown of cytochrome b5 fatty acid desaturase (Cyt-b5-r) via RNA interference (RNAi), indicating that Cyt-b5-r is critical for triggering phosphine-induced lipid peroxidation. Moreover, significant decreases in both ROS and mortality were detected in fumigated T. castaneum adults fed melatonin for 7 days, an inhibitor of lipid peroxidation. Cyt-b5-r RNAi also inhibited ROS production and mortality in phosphine-treated beetles. Meanwhile, a significant decrease in ROS production (68.4%) was detected in dihydrolipoamide dehydrogenase (DLD) knockdown individuals with phenotypes susceptible to phosphine, suggesting that lipid peroxidation initiates ROS with the expression of DLD. However, a significant increase in ROS (122.1%) was detected in the DLD knockdown beetles with strongly resistant phenotypes, indicating that the DLD-involved pathway may not be the only mechanism of ROS generation in phosphine toxicity and the existence of a moonlighting role in downregulating ROS in strongly resistant T. castaneum.
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Affiliation(s)
- Xu Shen
- Collaborative Innovation Center for Modern Grain Circulation and Safety, College of Food Science and Engineering, Nanjing University of Finance and Economics, Nanjing 210023, China
| | - Meiling Che
- Collaborative Innovation Center for Modern Grain Circulation and Safety, College of Food Science and Engineering, Nanjing University of Finance and Economics, Nanjing 210023, China
| | - Honglei Xu
- Collaborative Innovation Center for Modern Grain Circulation and Safety, College of Food Science and Engineering, Nanjing University of Finance and Economics, Nanjing 210023, China
| | - Xinbo Zhuang
- Collaborative Innovation Center for Modern Grain Circulation and Safety, College of Food Science and Engineering, Nanjing University of Finance and Economics, Nanjing 210023, China
| | - Erhu Chen
- Collaborative Innovation Center for Modern Grain Circulation and Safety, College of Food Science and Engineering, Nanjing University of Finance and Economics, Nanjing 210023, China
| | - Peian Tang
- Collaborative Innovation Center for Modern Grain Circulation and Safety, College of Food Science and Engineering, Nanjing University of Finance and Economics, Nanjing 210023, China.
| | - Kangxu Wang
- Collaborative Innovation Center for Modern Grain Circulation and Safety, College of Food Science and Engineering, Nanjing University of Finance and Economics, Nanjing 210023, China.
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Deeksha MG, Nebapure SM, Kalia VK, Sagar D, Bhattacharya R, Dahuja A, Subramanian S. Comparison of phenotypic and genotypic frequency of phosphine resistance in select field populations of Tribolium castaneum from India. Mol Biol Rep 2023; 50:6569-6578. [PMID: 37338735 DOI: 10.1007/s11033-023-08605-z] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/18/2023] [Accepted: 06/16/2023] [Indexed: 06/21/2023]
Abstract
BACKGROUND Tribolium castaneum causes substantial damage to stored grains, leading to economic losses. The present study evaluates phosphine resistance in adult and larval stages of T. castaneum from north and northeast India, where continuous and long-term phosphine use in large-scale storage conditions intensifies resistance, posing risks to grain quality, safety, and industry profitability. METHODS AND RESULTS This study utilized T. castaneum bioassays and CAPS markers restriction digestion methodology to assess resistance. The phenotypic results indicated a lower LC50 value in larvae compared to adults, while the resistance ratio remained consistent across both stages. Similarly, the genotypic analysis revealed comparable resistance levels regardless of the developmental stage. We categorized the freshly collected populations based on resistance ratios, with Shillong showing weak resistance, Delhi and Sonipat displaying moderate resistance, and Karnal, Hapur, Moga, and Patiala exhibiting strong resistance to phosphine. Further validation by accessing findings and exploring the relationship between phenotypic and genotypic variations using Principal Component Analysis (PCA). This comprehensive study enhances our understanding of T. castaneum resistance levels, providing valuable insights for the development of targeted pest management strategies. CONCLUSION This study provides insights into the current phenotypic and genotypic resistance levels of T. castaneum in North and North East India. Understanding this is crucial for developing effective pest management strategies and future research on biological and physiological aspects of phosphine resistance in insects, enabling the formulation of effective management practices. Addressing phosphine resistance is vital for sustainable pest management and the long-term viability of the agricultural and food industries.
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Affiliation(s)
- M G Deeksha
- Division of Entomology, ICAR- Indian Agricultural Research Institute, New Delhi, 110012, India
| | - Suresh M Nebapure
- Division of Entomology, ICAR- Indian Agricultural Research Institute, New Delhi, 110012, India
| | - Vinay Kumari Kalia
- Division of Entomology, ICAR- Indian Agricultural Research Institute, New Delhi, 110012, India
| | - Doddachowdappa Sagar
- Division of Entomology, ICAR- Indian Agricultural Research Institute, New Delhi, 110012, India
| | - Ramcharan Bhattacharya
- National Institute for Plant Biotechnology, ICAR- Indian Agricultural Research Institute, New Delhi, 110012, India
| | - Anil Dahuja
- Division of Biochemistry, ICAR- Indian Agricultural Research Institute, New Delhi, 110012, India
| | - Sabtharishi Subramanian
- Division of Entomology, ICAR- Indian Agricultural Research Institute, New Delhi, 110012, India.
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Fu Q, Hu T, Yang Y, Zhao M. Transcriptome analysis reveals phenanthrene degradation strategy of Pseudomonas stutzeri LH-42. 3 Biotech 2023; 13:65. [PMID: 36718409 PMCID: PMC9883372 DOI: 10.1007/s13205-023-03473-7] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/12/2022] [Accepted: 01/02/2023] [Indexed: 01/28/2023] Open
Abstract
Toxic polycyclic aromatic hydrocarbons (PAHs) are often released into the environment during the combustion and processing of fossil fuels and are capable of causing significant pollution to people and the environment. One of the representative substances of PAHs is phenanthrene, which is often studied as a model compound for PAHs treatment. In this study, we compared the results of transcriptome analysis of Pseudomonas stutzeri LH-42 in two different culture conditions under phenanthrene-induced culture (test group) and glucose-induced culture (control group), and analysed the key enzymatic mechanisms of Pseudomonas stutzeri LH-42 in the biodegradation of phenanthrene. In our experiments, the transcriptome results showed that a total of 380 genes were more than twofold differentially expressed in the test group, of which 187 genes were significantly up-regulated in expression under Phenanthrene induction. Among the 380 differentially expressed genes, 90 genes were involved in Phenanthrene biodegradation, mainly including genes involved in biometabolism, cellular chemotaxis, substrate transport, signal induction and other related processes. Based on the transcriptome sequence analysis of Pseudomonas stutzeri LH-42 at the time of phenanthrene induction, a total of 25 dioxygenase genes were identified, and the related genes were mainly concentrated in two relatively concentrated clusters of PAHs biodegradation genes. The transcriptome analysis resulted in a complete set of enzyme genes related to the phenanthrene biodegradation pathway. The analysis of key enzymes led to the inference of a possible phenanthrene biodegradation pathway: the salicylic acid degradation pathway. The results of this study provide a theoretical basis for in situ remediation of PAHs-contaminated environments using Pseudomonas stutzeri LH-42. Supplementary Information The online version contains supplementary material available at 10.1007/s13205-023-03473-7.
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Affiliation(s)
- Qiang Fu
- School of Minerals Processing and Bioengineering, Central South University, Changsha, 410083 Hunan China
| | - Tingting Hu
- School of Minerals Processing and Bioengineering, Central South University, Changsha, 410083 Hunan China
| | - Yu Yang
- School of Minerals Processing and Bioengineering, Central South University, Changsha, 410083 Hunan China
| | - Mengshi Zhao
- School of Minerals Processing and Bioengineering, Central South University, Changsha, 410083 Hunan China
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Wang K, Che M, Chen E, Jian F, Tang P. Amplification refractory mutation system based real-time PCR (ARMS-qPCR) for rapid resistance characterization of Tribolium castaneum to phosphine. PESTICIDE BIOCHEMISTRY AND PHYSIOLOGY 2022; 187:105181. [PMID: 36127043 DOI: 10.1016/j.pestbp.2022.105181] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/18/2022] [Revised: 07/19/2022] [Accepted: 07/24/2022] [Indexed: 06/15/2023]
Abstract
Resistance of Tribolium castaneum to phosphine is related to point mutations in DNA code corresponding to amino acid changes associated with a core metabolic enzyme dihydrolipoamide dehydrogenase (DLD), but the mutation patterns vary among different resistant populations. Thus, there is a great need to develop a cost-effective method to detect core mutations in T. castaneum, which would be the key factor to understand the molecular basis of phosphine resistance. Amplification refractory mutation system-based quantitative Real-Time PCR (ARMS-qPCR) is an ideal method that can rapidly detect point mutations. Here, the P45S and G131D mutations existed in the DLD of T. castaneum selected from strong Chinese resistance phenotypes, and the DLD P45S mutation, which represents a strong phosphine resistance allele, was confirmed as the most abundant mutation to determine strong resistance genotypes. Our study found that 85 out of 120 beetles carried the P45S resistance allele, including 51 homozygous and 34 heterozygous individuals. Moreover, there was a strong linear relationship (R2 = 0.917) between the resistance ratio and the resistance allele frequency among the strongly resistant populations. Our data showed that the ARMS-qPCR method that we developed could rapidly determine strong resistance phenotypes of T. castaneum to phosphine by detecting the DLD P45S mutation. These results not only provide a detailed example for developing an ARMS-qPCR-based method to characterize pesticide resistance, but also support further elucidation of the molecular basis of phosphine resistance.
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Affiliation(s)
- Kangxu Wang
- Collaborative Innovation Center for Modern Grain Circulation and Safety, College of Food Science and Engineering, Nanjing University of Finance and Economics, Nanjing, Jiangsu 210023, China.
| | - Meiling Che
- Collaborative Innovation Center for Modern Grain Circulation and Safety, College of Food Science and Engineering, Nanjing University of Finance and Economics, Nanjing, Jiangsu 210023, China
| | - Erhu Chen
- Collaborative Innovation Center for Modern Grain Circulation and Safety, College of Food Science and Engineering, Nanjing University of Finance and Economics, Nanjing, Jiangsu 210023, China
| | - Fuji Jian
- Department of Biosystems Engineering, University of Manitoba, Winnipeg R3T 5V6, Canada
| | - Peian Tang
- Collaborative Innovation Center for Modern Grain Circulation and Safety, College of Food Science and Engineering, Nanjing University of Finance and Economics, Nanjing, Jiangsu 210023, China.
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Alnajim I, Aldosary N, Agarwal M, Liu T, Du X, Ren Y. Role of Lipids in Phosphine Resistant Stored-Grain Insect Pests Tribolium castaneum and Rhyzopertha dominica. INSECTS 2022; 13:798. [PMID: 36135499 PMCID: PMC9503450 DOI: 10.3390/insects13090798] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 07/19/2022] [Revised: 08/30/2022] [Accepted: 08/30/2022] [Indexed: 06/16/2023]
Abstract
Insects rely on lipids as an energy source to perform various activities, such as growth, flight, diapause, and metamorphosis. This study evaluated the role of lipids in phosphine resistance by stored-grain insects. Phosphine resistant and susceptible strains of the two main stored-grain insects, Tribolium castaneum and Rhyzopertha dominica, were analyzed using liquid chromatography-mass spectroscopy (LC-MS) to determine their lipid contents. Phosphine resistant strains of both species had a higher amount of lipids than susceptible stains. Significant variance ratios between the resistant and susceptible strains of T. castaneum were observed for glycerolipids (1.13- to 53.10-fold) and phospholipids (1.05- to 20.00-fold). Significant variance ratios between the resistant and susceptible strains of R. dominica for glycerolipids were 1.04- to 31.50-fold and for phospholipids were 1.04- to 10.10-fold. Glycerolipids are reservoirs to face the long-term energy shortage. Phospholipids act as a barrier to isolate the cells from the surrounding environment and allow each cell to perform its specific function. Thus, lipids offer a consistent energy source for the resistant insect to survive under the stress of phosphine fumigation and provide a suitable environment to protect the mitochondria from phosphine. Hence, it was proposed through this study that the lipid content of phosphine-resistant and phosphine-susceptible strains of T. castaneum and R. dominica could play an important role in the resistance of phosphine.
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Affiliation(s)
- Ihab Alnajim
- Date Palm Research Center, University of Basrah, Basra 61004, Iraq
- College of Science, Health, Engineering and Education, Murdoch University, Perth, WA 6150, Australia
| | - Naser Aldosary
- Date Palm Research Center, University of Basrah, Basra 61004, Iraq
| | - Manjree Agarwal
- College of Science, Health, Engineering and Education, Murdoch University, Perth, WA 6150, Australia
- Chemcentre, Resources and Chemistry Precinct, Bentley, WA 6102, Australia
| | - Tao Liu
- Institute of Equipment Technology, Chinese Academy of Inspection and Quarantine, No. A3, Gaobeidianbeilu, Chaoyang District, Beijing 100123, China
| | - Xin Du
- College of Science, Health, Engineering and Education, Murdoch University, Perth, WA 6150, Australia
| | - Yonglin Ren
- College of Science, Health, Engineering and Education, Murdoch University, Perth, WA 6150, Australia
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The Genome of Rhyzopertha dominica (Fab.) (Coleoptera: Bostrichidae): Adaptation for Success. Genes (Basel) 2022; 13:genes13030446. [PMID: 35328000 PMCID: PMC8956072 DOI: 10.3390/genes13030446] [Citation(s) in RCA: 8] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/30/2021] [Revised: 02/16/2022] [Accepted: 02/21/2022] [Indexed: 12/15/2022] Open
Abstract
The lesser grain borer, Rhyzopertha dominica (F.) (Coleoptera: Bostrichidae), is a major global pest of cereal grains. Infestations are difficult to control as larvae feed inside grain kernels, and many populations are resistant to both contact insecticides and fumigants. We sequenced the genome of R. dominica to identify genes responsible for important biological functions and develop more targeted and efficacious management strategies. The genome was assembled from long read sequencing and long-range scaffolding technologies. The genome assembly is 479.1 Mb, close to the predicted genome size of 480.4 Mb by flow cytometry. This assembly is among the most contiguous beetle assemblies published to date, with 139 scaffolds, an N50 of 53.6 Mb, and L50 of 4, indicating chromosome-scale scaffolds. Predicted genes from biologically relevant groups were manually annotated using transcriptome data from adults and different larval tissues to guide annotation. The expansion of carbohydrase and serine peptidase genes suggest that they combine to enable efficient digestion of cereal proteins. A reduction in the copy number of several detoxification gene families relative to other coleopterans may reflect the low selective pressure on these genes in an insect that spends most of its life feeding internally. Chemoreceptor genes contain elevated numbers of pseudogenes for odorant receptors that also may be related to the recent ontogenetic shift of R. dominica to a diet consisting primarily of stored grains. Analysis of repetitive sequences will further define the evolution of bostrichid beetles compared to other species. The data overall contribute significantly to coleopteran genetic research.
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Parisot N, Vargas-Chávez C, Goubert C, Baa-Puyoulet P, Balmand S, Beranger L, Blanc C, Bonnamour A, Boulesteix M, Burlet N, Calevro F, Callaerts P, Chancy T, Charles H, Colella S, Da Silva Barbosa A, Dell'Aglio E, Di Genova A, Febvay G, Gabaldón T, Galvão Ferrarini M, Gerber A, Gillet B, Hubley R, Hughes S, Jacquin-Joly E, Maire J, Marcet-Houben M, Masson F, Meslin C, Montagné N, Moya A, Ribeiro de Vasconcelos AT, Richard G, Rosen J, Sagot MF, Smit AFA, Storer JM, Vincent-Monegat C, Vallier A, Vigneron A, Zaidman-Rémy A, Zamoum W, Vieira C, Rebollo R, Latorre A, Heddi A. The transposable element-rich genome of the cereal pest Sitophilus oryzae. BMC Biol 2021; 19:241. [PMID: 34749730 PMCID: PMC8576890 DOI: 10.1186/s12915-021-01158-2] [Citation(s) in RCA: 25] [Impact Index Per Article: 8.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/08/2021] [Accepted: 09/27/2021] [Indexed: 12/14/2022] Open
Abstract
BACKGROUND The rice weevil Sitophilus oryzae is one of the most important agricultural pests, causing extensive damage to cereal in fields and to stored grains. S. oryzae has an intracellular symbiotic relationship (endosymbiosis) with the Gram-negative bacterium Sodalis pierantonius and is a valuable model to decipher host-symbiont molecular interactions. RESULTS We sequenced the Sitophilus oryzae genome using a combination of short and long reads to produce the best assembly for a Curculionidae species to date. We show that S. oryzae has undergone successive bursts of transposable element (TE) amplification, representing 72% of the genome. In addition, we show that many TE families are transcriptionally active, and changes in their expression are associated with insect endosymbiotic state. S. oryzae has undergone a high gene expansion rate, when compared to other beetles. Reconstruction of host-symbiont metabolic networks revealed that, despite its recent association with cereal weevils (30 kyear), S. pierantonius relies on the host for several amino acids and nucleotides to survive and to produce vitamins and essential amino acids required for insect development and cuticle biosynthesis. CONCLUSIONS Here we present the genome of an agricultural pest beetle, which may act as a foundation for pest control. In addition, S. oryzae may be a useful model for endosymbiosis, and studying TE evolution and regulation, along with the impact of TEs on eukaryotic genomes.
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Affiliation(s)
- Nicolas Parisot
- Univ Lyon, INSA Lyon, INRAE, BF2I, UMR 203, 69621 Villeurbanne, France
| | - Carlos Vargas-Chávez
- Univ Lyon, INSA Lyon, INRAE, BF2I, UMR 203, 69621 Villeurbanne, France
- Institute for Integrative Systems Biology (I2SySBio), Universitat de València and Spanish Research Council (CSIC), València, Spain
- Present Address: Institute of Evolutionary Biology (IBE), CSIC-Universitat Pompeu Fabra, Barcelona, Spain
| | - Clément Goubert
- Laboratoire de Biométrie et Biologie Evolutive, UMR5558, Université Lyon 1, Université Lyon, Villeurbanne, France
- Department of Molecular Biology and Genetics, Cornell University, 526 Campus Rd, Ithaca, New York, 14853, USA
- Present Address: Human Genetics, McGill University, Montreal, QC, Canada
| | | | - Séverine Balmand
- Univ Lyon, INSA Lyon, INRAE, BF2I, UMR 203, 69621 Villeurbanne, France
| | - Louis Beranger
- Univ Lyon, INSA Lyon, INRAE, BF2I, UMR 203, 69621 Villeurbanne, France
| | - Caroline Blanc
- Univ Lyon, INSA Lyon, INRAE, BF2I, UMR 203, 69621 Villeurbanne, France
| | - Aymeric Bonnamour
- Univ Lyon, INSA Lyon, INRAE, BF2I, UMR 203, 69621 Villeurbanne, France
| | - Matthieu Boulesteix
- Laboratoire de Biométrie et Biologie Evolutive, UMR5558, Université Lyon 1, Université Lyon, Villeurbanne, France
| | - Nelly Burlet
- Laboratoire de Biométrie et Biologie Evolutive, UMR5558, Université Lyon 1, Université Lyon, Villeurbanne, France
| | - Federica Calevro
- Univ Lyon, INSA Lyon, INRAE, BF2I, UMR 203, 69621 Villeurbanne, France
| | - Patrick Callaerts
- Department of Human Genetics, Laboratory of Behavioral and Developmental Genetics, KU Leuven, University of Leuven, B-3000, Leuven, Belgium
| | - Théo Chancy
- Univ Lyon, INSA Lyon, INRAE, BF2I, UMR 203, 69621 Villeurbanne, France
| | - Hubert Charles
- Univ Lyon, INSA Lyon, INRAE, BF2I, UMR 203, 69621 Villeurbanne, France
- ERABLE European Team, INRIA, Rhône-Alpes, France
| | - Stefano Colella
- Univ Lyon, INSA Lyon, INRAE, BF2I, UMR 203, 69621 Villeurbanne, France
- Present Address: LSTM, Laboratoire des Symbioses Tropicales et Méditerranéennes, IRD, CIRAD, INRAE, SupAgro, Univ Montpellier, Montpellier, France
| | - André Da Silva Barbosa
- INRAE, Sorbonne Université, CNRS, IRD, UPEC, Université de Paris, Institute of Ecology and Environmental Sciences of Paris, Versailles, France
| | - Elisa Dell'Aglio
- Univ Lyon, INSA Lyon, INRAE, BF2I, UMR 203, 69621 Villeurbanne, France
| | - Alex Di Genova
- Laboratoire de Biométrie et Biologie Evolutive, UMR5558, Université Lyon 1, Université Lyon, Villeurbanne, France
- ERABLE European Team, INRIA, Rhône-Alpes, France
- Instituto de Ciencias de la Ingeniería, Universidad de O'Higgins, Rancagua, Chile
| | - Gérard Febvay
- Univ Lyon, INSA Lyon, INRAE, BF2I, UMR 203, 69621 Villeurbanne, France
| | - Toni Gabaldón
- Life Sciences, Barcelona Supercomputing Centre (BSC-CNS), Barcelona, Spain
- Mechanisms of Disease, Institute for Research in Biomedicine (IRB), Barcelona, Spain
- Institut Catalan de Recerca i Estudis Avançats (ICREA), Barcelona, Spain
| | | | - Alexandra Gerber
- Laboratório de Bioinformática, Laboratório Nacional de Computação Científica, Petrópolis, Brazil
| | - Benjamin Gillet
- Institut de Génomique Fonctionnelle de Lyon (IGFL), Université de Lyon, Ecole Normale Supérieure de Lyon, CNRS UMR 5242, Lyon, France
| | | | - Sandrine Hughes
- Institut de Génomique Fonctionnelle de Lyon (IGFL), Université de Lyon, Ecole Normale Supérieure de Lyon, CNRS UMR 5242, Lyon, France
| | - Emmanuelle Jacquin-Joly
- INRAE, Sorbonne Université, CNRS, IRD, UPEC, Université de Paris, Institute of Ecology and Environmental Sciences of Paris, Versailles, France
| | - Justin Maire
- Univ Lyon, INSA Lyon, INRAE, BF2I, UMR 203, 69621 Villeurbanne, France
- Present Address: School of BioSciences, The University of Melbourne, Parkville, VIC, 3010, Australia
| | | | - Florent Masson
- Univ Lyon, INSA Lyon, INRAE, BF2I, UMR 203, 69621 Villeurbanne, France
- Present Address: Global Health Institute, School of Life Sciences, Ecole Polytechnique Fédérale de Lausanne (EPFL), 1015, Lausanne, Switzerland
| | - Camille Meslin
- INRAE, Sorbonne Université, CNRS, IRD, UPEC, Université de Paris, Institute of Ecology and Environmental Sciences of Paris, Versailles, France
| | - Nicolas Montagné
- INRAE, Sorbonne Université, CNRS, IRD, UPEC, Université de Paris, Institute of Ecology and Environmental Sciences of Paris, Versailles, France
| | - Andrés Moya
- Institute for Integrative Systems Biology (I2SySBio), Universitat de València and Spanish Research Council (CSIC), València, Spain
- Foundation for the Promotion of Sanitary and Biomedical Research of Valencian Community (FISABIO), València, Spain
| | | | - Gautier Richard
- IGEPP, INRAE, Institut Agro, Université de Rennes, Domaine de la Motte, 35653, Le Rheu, France
| | - Jeb Rosen
- Institute for Systems Biology, Seattle, WA, USA
| | - Marie-France Sagot
- Laboratoire de Biométrie et Biologie Evolutive, UMR5558, Université Lyon 1, Université Lyon, Villeurbanne, France
- ERABLE European Team, INRIA, Rhône-Alpes, France
| | | | | | | | - Agnès Vallier
- Univ Lyon, INSA Lyon, INRAE, BF2I, UMR 203, 69621 Villeurbanne, France
| | - Aurélien Vigneron
- Univ Lyon, INSA Lyon, INRAE, BF2I, UMR 203, 69621 Villeurbanne, France
- Present Address: Department of Evolutionary Ecology, Institute for Organismic and Molecular Evolution, Johannes Gutenberg University, 55128, Mainz, Germany
| | - Anna Zaidman-Rémy
- Univ Lyon, INSA Lyon, INRAE, BF2I, UMR 203, 69621 Villeurbanne, France
| | - Waël Zamoum
- Univ Lyon, INSA Lyon, INRAE, BF2I, UMR 203, 69621 Villeurbanne, France
| | - Cristina Vieira
- Laboratoire de Biométrie et Biologie Evolutive, UMR5558, Université Lyon 1, Université Lyon, Villeurbanne, France.
- ERABLE European Team, INRIA, Rhône-Alpes, France.
| | - Rita Rebollo
- Univ Lyon, INSA Lyon, INRAE, BF2I, UMR 203, 69621 Villeurbanne, France.
| | - Amparo Latorre
- Institute for Integrative Systems Biology (I2SySBio), Universitat de València and Spanish Research Council (CSIC), València, Spain.
- Foundation for the Promotion of Sanitary and Biomedical Research of Valencian Community (FISABIO), València, Spain.
| | - Abdelaziz Heddi
- Univ Lyon, INSA Lyon, INRAE, BF2I, UMR 203, 69621 Villeurbanne, France.
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11
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Waters JM, McCulloch GA. Reinventing the wheel? Reassessing the roles of gene flow, sorting and convergence in repeated evolution. Mol Ecol 2021; 30:4162-4172. [PMID: 34133810 DOI: 10.1111/mec.16018] [Citation(s) in RCA: 17] [Impact Index Per Article: 5.7] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/28/2021] [Revised: 06/08/2021] [Accepted: 06/11/2021] [Indexed: 12/31/2022]
Abstract
Biologists have long been intrigued by apparently predictable and repetitive evolutionary trajectories inferred across a variety of lineages and systems. In recent years, high-throughput sequencing analyses have started to transform our understanding of such repetitive shifts. While researchers have traditionally categorized such shifts as either "convergent" or "parallel," based on relatedness of the lineages involved, emerging genomic insights provide an opportunity to better describe the actual evolutionary mechanisms at play. A synthesis of recent genomic analyses confirms that convergence is the predominant driver of repetitive evolution among species, whereas repeated sorting of standing variation is the major driver of repeated shifts within species. However, emerging data reveal numerous notable exceptions to these expectations, with recent examples of de novo mutations underpinning convergent shifts among even very closely related lineages, while repetitive sorting processes have occurred among even deeply divergent taxa, sometimes via introgression. A number of very recent analyses have found evidence for both processes occurring on different scales within taxa. We suggest that the relative importance of convergent versus sorting processes depends on the interplay between gene flow among populations, and phylogenetic relatedness of the lineages involved.
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12
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Perkin LC, Smith TPL, Oppert B. Variants in the Mitochondrial Genome Sequence of Rhyzopertha dominica (Fabricius) (Coleoptera: Bostrycidae). INSECTS 2021; 12:insects12050387. [PMID: 33925386 PMCID: PMC8146127 DOI: 10.3390/insects12050387] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 04/05/2021] [Revised: 04/25/2021] [Accepted: 04/26/2021] [Indexed: 11/20/2022]
Abstract
Simple Summary The lesser grain borer damages grains in storage worldwide. The major control method for this beetle is phosphine fumigation, but the increase in resistant populations has led to a loss in phosphine efficacy. Insect mitochondria are the major source of energy, and some phosphine-resistant insects have reduced energy production. Therefore, we want to understand whether changes in the mitochondrial genome may promote phosphine resistance in insects, but we need an accurate mitogenome sequence and annotation. We extracted and sequenced genomic DNA from a laboratory colony of the lesser grain borer and assembled and annotated the mitochondrial genome. The mitochondrial genome sequence was similar in structure to other insect mitochondria and encoded typical mitochondrial genes. We compared our predicted mitochondrial genome sequence to that of another lesser grain borer strain from Jingziguan (China). While there was mostly agreement among the two sequences, the data will be used to determine if key differences may suggest mutations in the two populations related to phosphine control pressure. However, differences also could be the result in different genome sequences and interpretations. The data will be useful as a research tool to examine the expression of mitochondrial genes in phosphine susceptible and -resistant insect populations. Abstract The lesser grain borer, Rhyzopertha dominica, is a coleopteran pest of stored grains and is mainly controlled by phosphine fumigation, but the increase in phosphine-resistant populations threatens efficacy. Some phosphine-resistant insects have reduced respiration, and thus studying the mitochondrial genome may provide additional information regarding resistance. Genomic DNA from an inbred laboratory strain of R. dominica was extracted and sequenced with both short (Illumina) and long (Pacific Biosciences) read technologies for whole genome sequence assembly and annotation. Short read sequences were assembled and annotated by open software to identify mitochondrial sequences, and the assembled sequence was manually annotated and verified by long read sequences. The mitochondrial genome sequence for R. dominica had a total length of 15,724 bp and encoded 22 trna genes, 2 rRNA genes, 13 protein coding genes (7 nad subunits, 3 cox, 2 atp, and 1 cytB), flanked by a long control region. We compared our predicted mitochondrial genome to that of another from a R. dominica strain from Jingziguan (China). While there was mostly agreement between the two assemblies, key differences will be further examined to determine if mutations in populations are related to insecticide control pressure, mainly that of phosphine. Differences in sequence data, assembly, and annotation also may result in different genome interpretations.
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Affiliation(s)
- Lindsey C. Perkin
- USDA-ARS, Southern Plains Agricultural Research Center, College Station, TX 77845, USA;
| | | | - Brenda Oppert
- USDA-ARS, Center for Grain and Animal Health Research, Manhattan, KS 66502, USA
- Correspondence: ; Tel.: +1-785-776-2780
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13
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Chen EH, Duan JY, Song W, Wang DX, Tang PA. RNA-seq Analysis Reveals Mitochondrial and Cuticular Protein Genes Are Associated with Phosphine Resistance in the Rusty Grain Beetle (Coleoptera:Laemophloeidae). JOURNAL OF ECONOMIC ENTOMOLOGY 2021; 114:440-453. [PMID: 33346362 DOI: 10.1093/jee/toaa273] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/05/2020] [Indexed: 06/12/2023]
Abstract
The rusty grain beetle, Cryptolestes ferrugineus (Stephens), is a serious pest of stored grain, which has developed high levels of resistance to phosphine. In this study, five geographically distant populations of C. ferrugineus had been collected in China, specifically in granaries where phosphine fumigant is used for pest control, and they showed a high resistance ratio up to 1,907 (LC50 = 21.0 mg/liter). Then, a reference transcriptome was constructed to use as a basis for investigating the molecular mechanisms of phosphine resistance in this species, which consisted of 47,006 unigenes with a mean length of 1,090. Subsequently, the RNA-Seq analysis of individuals from the most susceptible and resistant populations led to the identification of 54 genes that are differentially expressed. GO and KEGG analysis demonstrated that genes associated with mitochondrial and respiration functions were significantly enriched. Also, the 'structural constituent of cuticle' term was annotated in the GO enrichment analysis and further qRT-PCR confirmed that the expression levels of nine cuticular protein genes were significantly increased in the resistant population. In conclusion, we present here a transcriptome-wide overview of gene expression changes between resistant and susceptible populations of C. ferrugineus, and this in turn documents that mitochondria and cuticular protein genes may play together a crucial role in phosphine resistance. Further gene function analysis should enable the provision of advice to expedite resistance management decisions.
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Affiliation(s)
- Er-Hu Chen
- Collaborative Innovation Center for Modern Grain Circulation and Safety, College of Food Science and Engineering, Nanjing University of Finance and Economics, Nanjing, Jiangsu, China
| | - Jin-Yan Duan
- Collaborative Innovation Center for Modern Grain Circulation and Safety, College of Food Science and Engineering, Nanjing University of Finance and Economics, Nanjing, Jiangsu, China
| | - Wei Song
- Collaborative Innovation Center for Modern Grain Circulation and Safety, College of Food Science and Engineering, Nanjing University of Finance and Economics, Nanjing, Jiangsu, China
| | - Dian-Xuan Wang
- Collaborative Innovation Center of Grain Storage Security, Zhengzhou, Henan, China
| | - Pei-An Tang
- Collaborative Innovation Center for Modern Grain Circulation and Safety, College of Food Science and Engineering, Nanjing University of Finance and Economics, Nanjing, Jiangsu, China
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14
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Wilkins RV, Campbell JF, Zhu KY, Starkus LA, McKay T, Morrison WR. Long-Lasting Insecticide-Incorporated Netting and Interception Traps at Pilot-Scale Warehouses and Commercial Facilities Prevents Infestation by Stored Product Beetles. FRONTIERS IN SUSTAINABLE FOOD SYSTEMS 2021. [DOI: 10.3389/fsufs.2020.561820] [Citation(s) in RCA: 12] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/17/2022] Open
Abstract
At any point along the post-harvest supply chain, commodities are vulnerable to insect infestation. This is due to a variety of factors, but includes landscape-scale movement of stored product insects to and from food facilities and natural refugia. Long-lasting insecticide-incorporated netting (LLIN) is an innovative tactic that may be used to intercept immigrating insects. LLIN can be used to cover gaps in architecture (e.g., vents, windows, eaves, or over pallets of goods) at food facilities. Another novel approach would be to use LLIN as a kill mechanism in attract-and-kill inspired interception traps on the perimeter of facilities. Furthermore, employing these two LLIN-based approaches together would create multiple protective barriers to reduce infestation in commodities. Therefore, the goal of the current study was to (1) examine the ability of interception traps to capture stored product insects at commercial wheat and rice food facilities, (2) assess whether LLIN deployment method affected efficacy in preventing infestation by stored product insects in pilot-scale warehouses, and (3) determine the success of using LLIN alone, interception traps alone, or both together to prevent infestations. Over 2 years, interception traps deployed for 48-h periods on the perimeter of commercial food facilities captured over 3,000 insects, representing 14 stored product insect taxa. Warehouses deploying LLIN exhibited an 89–93% and 98–100% reduction in insects reaching and progeny production in commodities, even after the release of 3,600 insects of three species over 12 weeks. The combined use of LLIN and interception traps did not improve control above LLIN alone, but this may be because insects could fly unencumbered, highlighting the importance of covering gaps with LLIN on food facilities.
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15
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Jagadeesan R, Schlipalius DI, Singarayan VT, Nath NS, Nayak MK, Ebert PR. Unique genetic variants in dihydrolipoamide dehydrogenase (dld) gene confer strong resistance to phosphine in the rusty grain beetle, Cryptolestes ferrugineus (Stephens). PESTICIDE BIOCHEMISTRY AND PHYSIOLOGY 2021; 171:104717. [PMID: 33357567 DOI: 10.1016/j.pestbp.2020.104717] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/22/2020] [Revised: 09/23/2020] [Accepted: 09/23/2020] [Indexed: 06/12/2023]
Abstract
The rusty grain beetle, Cryptolestes ferrugineus, a major pest of stored commodities, has developed very high levels (>1000×) of resistance to the fumigant phosphine. Resistance in this species is remarkably stronger than reported in any other stored product pests demanding the need to understand the molecular basis of this trait. Previous genetic studies in other grain insect pests identified specific variants in two major genes, rph1 and rph2 in conferring the strong resistance trait. However, in C. ferrugineus, although the gene, rph1 was identified as cytochrome-b5-fatty acid desaturase, the rph2 gene has not been reported so far. We tested the candidate gene for rph2, dihydrolipoamide dehydrogenase (dld) using the recently published transcriptome of C. ferrugineus and identified three variants, L73N and A355G + D360H, a haplotype, conferring resistance in this species. Our sequence analysis in resistant strain and phosphine selected resistant survivors indicates that these variants occur either alone as a homozygote or a mixture of heterozygotes (i.e complex heterozygotes) both conferring strong resistance. We also found that one of the three variants, possibly L73N expressing "dominant" trait at low frequency in resistant insects. Comparison of dld sequences between Australian and Chinese resistant strain of this species confirmed that the identified variants are highly conserved. Our fitness analysis indicated that resistant insects may not incur significant biological costs in the absence of phosphine selection for 19 generations. Thus, we propose that the observed high levels of resistance in C. ferrugineus could be primarily due to the characteristics of three unique variants, L73N and A355G + D360H within dld.
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Affiliation(s)
- Rajeswaran Jagadeesan
- Department of Agriculture and Fisheries, Ecosciences Precinct, Dutton Park, Queensland, Australia.
| | - David I Schlipalius
- School of Biological Sciences, The University of Queensland, St. Lucia, Queensland, Australia
| | - Virgine T Singarayan
- School of Biological Sciences, The University of Queensland, St. Lucia, Queensland, Australia
| | - Nisa S Nath
- School of Biological Sciences, The University of Queensland, St. Lucia, Queensland, Australia
| | - Manoj K Nayak
- Department of Agriculture and Fisheries, Ecosciences Precinct, Dutton Park, Queensland, Australia
| | - Paul R Ebert
- School of Biological Sciences, The University of Queensland, St. Lucia, Queensland, Australia
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16
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Wang K, Liu M, Wang Y, Song W, Tang P. Identification and functional analysis of cytochrome P450 CYP346 family genes associated with phosphine resistance in Tribolium castaneum. PESTICIDE BIOCHEMISTRY AND PHYSIOLOGY 2020; 168:104622. [PMID: 32711762 DOI: 10.1016/j.pestbp.2020.104622] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/17/2020] [Revised: 05/21/2020] [Accepted: 05/31/2020] [Indexed: 06/11/2023]
Abstract
Resistance to phosphine fumigation has been frequently reported in insect pests of stored products and remains one of the obstacles in controlling these pests, including Tribolium castaneum. In this study, six field populations of T. castaneum were collected from different localities in China. Bioassay data showed that SZ population was strongly resistant to phosphine, followed by moderate-resistance populations WL and SF and three susceptible populations JX, YN, and ML. In addition, synergism assays showed that piperonyl butoxide significantly increased the toxicity of phosphine in resistant population SZ. Furthermore, CYP346B subfamily genes, CYP346B1, CYP346B2, and CYP346B3, were significantly overexpressed in resistant populations. Expression of CYP346B1, CYP346B2, and CYP346B3 were significantly upregulated following exposure to phosphine. RNAi assays showed that depletions on the expression levels of CYP346B1, CYP346B2, and CYP346B3 resulted in an increase of susceptibility to phosphine in T. castaneum, respectively. Our data demonstrated that CYP346B subfamily genes in T. castaneum were associated with the resistance of phosphine. Moreover, the study also increased our understanding of the molecular basis of phosphine resistance in stored pest insects.
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Affiliation(s)
- Kangxu Wang
- Collaborative Innovation Center for Modern Grain Circulation and Safety, College of Food Science and Engineering, Nanjing University of Finance and Economics, Nanjing 210023, Jiangsu, China
| | - Manwen Liu
- Collaborative Innovation Center for Modern Grain Circulation and Safety, College of Food Science and Engineering, Nanjing University of Finance and Economics, Nanjing 210023, Jiangsu, China
| | - Yazhou Wang
- Collaborative Innovation Center for Modern Grain Circulation and Safety, College of Food Science and Engineering, Nanjing University of Finance and Economics, Nanjing 210023, Jiangsu, China
| | - Wei Song
- Collaborative Innovation Center for Modern Grain Circulation and Safety, College of Food Science and Engineering, Nanjing University of Finance and Economics, Nanjing 210023, Jiangsu, China
| | - Peian Tang
- Collaborative Innovation Center for Modern Grain Circulation and Safety, College of Food Science and Engineering, Nanjing University of Finance and Economics, Nanjing 210023, Jiangsu, China.
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17
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Wilkins RV, Zhu KY, Campbell JF, Morrison WR. Mobility and Dispersal of Two Cosmopolitan Stored-Product Insects Are Adversely Affected by Long-Lasting Insecticide Netting in a Life Stage-Dependent Manner. JOURNAL OF ECONOMIC ENTOMOLOGY 2020; 113:1768-1779. [PMID: 32412048 DOI: 10.1093/jee/toaa094] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/24/2020] [Indexed: 06/11/2023]
Abstract
Tribolium castaneum (Herbst) (Coleoptera: Tenebrionidae) and Trogoderma variabile Ballion (Coleoptera: Dermestidae) are two stored-product insects that cause extensive damage to a variety of postharvest commodities. Long-lasting insecticide-incorporated netting (LLIN), commonly used to control vector-borne diseases in tropical regions, has only been recently studied in an agricultural setting. While prior research showed that LLIN was successful against stored-product beetles, little is known about differential susceptibility among stored-product insect life stages. The aim of this study was to evaluate LLIN efficacy against immature T. castaneum and T. variabile compared with adults. Movement and dispersal ability were evaluated after exposure to LLIN or an untreated, control netting. For the movement assay, video-tracking software recorded the postexposure effects of LLIN on distance traveled and velocity of the insects in 2-h trials. For the dispersal assay, insects were exposed to the netting then released into one end of a PVC pipe and allowed 48 h to disperse to a novel food patch located at the opposite end of the pipe. Our study found that movement and dispersal ability of T. variabile and T. castaneum are significantly reduced, often by multiple-fold, after LLIN exposure, with the larval stage of each species more tolerant to the insecticide netting than adults. These results indicate that LLIN is a promising tool for use in intercepting immigrating insects of different life stages in food facilities to protect stored products.
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Affiliation(s)
- Rachel V Wilkins
- Department of Entomology, Kansas State University, 123 Waters Hall, Manhattan, KS
| | - Kun Yan Zhu
- Department of Entomology, Kansas State University, 123 Waters Hall, Manhattan, KS
| | - James F Campbell
- USDA, Agricultural Research Service, Center for Grain and Animal Health Research, 1515 College Avenue, Manhattan, KS
| | - William R Morrison
- USDA, Agricultural Research Service, Center for Grain and Animal Health Research, 1515 College Avenue, Manhattan, KS
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18
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Daglish GJ, Jagadeesan R, Nayak MK, McCulloch GA, Singarayan VT, Walter GH. The Gene Introgression Approach and the Potential Cost of Genes that Confer Strong Phosphine Resistance in Red Flour Beetle (Coleoptera: Tenebrionidae). JOURNAL OF ECONOMIC ENTOMOLOGY 2020; 113:1547-1554. [PMID: 32170301 DOI: 10.1093/jee/toaa033] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/18/2019] [Indexed: 06/10/2023]
Abstract
Resistance in pest insects to the grain fumigant phosphine (PH3) poses a threat to trade and food security. The possible pleiotropic effects of PH3 resistance on development and reproduction were investigated in the red flour beetle, Tribolium castaneum (Herbst), by introgressing two genes known to be major contributors to strong resistance (tc_rph1 and tc_rph2) into a susceptible background. The tc_rph2 allele was the G135S variant, whereas the identity of tc_rph1 allele was unknown but could have been one of the three known variants (L119W, V123F, or S349G). The introgressed resistant strain was 288× more resistant than the susceptible strain, based on mortality after a 20 h fumigation with PH3. Molecular screening confirmed that the introgressed strain was homozygous for the resistance genes, but was otherwise indistinguishable from the susceptible strain based on screening with 12 neutral DNA markers. We found no differences of consequence in developmental time between the susceptible and introgressed resistant strains. Similarly, the number of F1 adults produced by these strains was more or less equal, as was the weight of individual F1 adults. The conclusions remained the same regardless of whether the experiments were conducted on a flour-based medium or wheat. Thus, we found no evidence that being fully strongly PH3 resistant (i.e., homozygous for tc_rph1 and tc_rph2) has major consequences in terms of development or reproduction in T. castaneum.
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Affiliation(s)
- Gregory J Daglish
- Department of Agriculture and Fisheries, Queensland, Ecosciences Precinct, Brisbane, QLD, Australia
| | - Rajeswaran Jagadeesan
- Department of Agriculture and Fisheries, Queensland, Ecosciences Precinct, Brisbane, QLD, Australia
| | - Manoj K Nayak
- Department of Agriculture and Fisheries, Queensland, Ecosciences Precinct, Brisbane, QLD, Australia
| | | | - Virgine T Singarayan
- School of Biological Sciences, The University of Queensland, St. Lucia, QLD, Australia
| | - Gimme H Walter
- School of Biological Sciences, The University of Queensland, St. Lucia, QLD, Australia
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19
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Nayak MK, Daglish GJ, Phillips TW, Ebert PR. Resistance to the Fumigant Phosphine and Its Management in Insect Pests of Stored Products: A Global Perspective. ANNUAL REVIEW OF ENTOMOLOGY 2020; 65:333-350. [PMID: 31610132 DOI: 10.1146/annurev-ento-011019-025047] [Citation(s) in RCA: 70] [Impact Index Per Article: 17.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/20/2023]
Abstract
Development of resistance in major grain insect pest species to the key fumigant phosphine (hydrogen phosphide) across the globe has put the viability and sustainability of phosphine in jeopardy. The resistance problem has been aggravated over the past two decades, due mostly to the lack of suitable alternatives matching the major attributes of phosphine, including its low price, ease of application, proven effectiveness against a broad pest spectrum, compatibility with most storage conditions, and international acceptance as a residue-free treatment. In this review, we critically analyze the published literature in the area of phosphine resistance with special emphasis on the methods available for detection of resistance, the genetic basis of resistance development, key management strategies, and research gaps that need to be addressed.
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Affiliation(s)
- Manoj K Nayak
- Department of Agriculture and Fisheries, Ecosciences Precinct, Dutton Park, Brisbane, Queensland 4102, Australia; ,
| | - Gregory J Daglish
- Department of Agriculture and Fisheries, Ecosciences Precinct, Dutton Park, Brisbane, Queensland 4102, Australia; ,
| | - Thomas W Phillips
- Department of Entomology, Kansas State University, Manhattan, Kansas 66506, USA;
| | - Paul R Ebert
- School of Biological Sciences, University of Queensland, St Lucia, Brisbane, Queensland 4072, Australia;
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20
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Kim K, Yang JO, Sung JY, Lee JY, Park JS, Lee HS, Lee BH, Ren Y, Lee DW, Lee SE. Minimization of energy transduction confers resistance to phosphine in the rice weevil, Sitophilus oryzae. Sci Rep 2019; 9:14605. [PMID: 31601880 PMCID: PMC6787191 DOI: 10.1038/s41598-019-50972-w] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/02/2019] [Accepted: 09/10/2019] [Indexed: 11/09/2022] Open
Abstract
Infestation of phosphine (PH3) resistant insects threatens global grain reserves. PH3 fumigation controls rice weevil (Sitophilus oryzae) but not highly resistant insect pests. Here, we investigated naturally occurring strains of S. oryzae that were moderately resistant (MR), strongly resistant (SR), or susceptible (wild-type; WT) to PH3 using global proteome analysis and mitochondrial DNA sequencing. Both PH3 resistant (PH3-R) strains exhibited higher susceptibility to ethyl formate-mediated inhibition of cytochrome c oxidase than the WT strain, whereas the disinfectant PH3 concentration time of the SR strain was much longer than that of the MR strain. Unlike the MR strain, which showed altered expression levels of genes encoding metabolic enzymes involved in catabolic pathways that minimize metabolic burden, the SR strain showed changes in the mitochondrial respiratory chain. Our results suggest that the acquisition of strong PH3 resistance necessitates the avoidance of oxidative phosphorylation through the accumulation of a few non-synonymous mutations in mitochondrial genes encoding complex I subunits as well as nuclear genes encoding dihydrolipoamide dehydrogenase, concomitant with metabolic reprogramming, a recognized hallmark of cancer metabolism. Taken together, our data suggest that reprogrammed metabolism represents a survival strategy of SR insect pests for the compensation of minimized energy transduction under anoxic conditions. Therefore, understanding the resistance mechanism of PH3-R strains will support the development of new strategies to control insect pests.
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Affiliation(s)
- Kyeongnam Kim
- School of Applied Biosciences, Kyungpook National University, Daegu, 41566, Korea
| | - Jeong Oh Yang
- Animal and Plant Quarantine Agency (APQA), Gimcheon, 39660, Korea
| | - Jae-Yoon Sung
- Department of Biotechnology, Yonsei University, Seoul, 03722, Korea
| | - Ji-Young Lee
- Department of Biotechnology, Yonsei University, Seoul, 03722, Korea
| | - Jeong Sun Park
- Animal and Plant Quarantine Agency (APQA), Gimcheon, 39660, Korea
| | - Heung-Sik Lee
- Animal and Plant Quarantine Agency (APQA), Gimcheon, 39660, Korea
| | - Byung-Ho Lee
- Institute of Agriculture and Life Science, Gyeongsang National University, Jinju, 52828, Korea
| | - Yonglin Ren
- School of Veterinary and Life Science, Murdoch University, 90 South St., Murdoch, WA, 6150, Australia
| | - Dong-Woo Lee
- Department of Biotechnology, Yonsei University, Seoul, 03722, Korea.
| | - Sung-Eun Lee
- School of Applied Biosciences, Kyungpook National University, Daegu, 41566, Korea.
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21
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Schlipalius DI, Tuck AG, Pavic H, Daglish GJ, Nayak MK, Ebert PR. A high-throughput system used to determine frequency and distribution of phosphine resistance across large geographical regions. PEST MANAGEMENT SCIENCE 2019; 75:1091-1098. [PMID: 30255667 DOI: 10.1002/ps.5221] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/16/2018] [Revised: 09/03/2018] [Accepted: 09/19/2018] [Indexed: 06/08/2023]
Abstract
BACKGROUND Next-generation sequencing can enable genetic surveys of large numbers of individuals. We developed a genotyping-by-sequencing assay for detecting strong phosphine resistance alleles in the dihydrolipoamide dehydrogenase (dld) gene of Rhyzopertha dominica populations. The assay can estimate the distribution and frequency of resistance variants in thousands of individual insects in a single run. RESULTS We analysed 1435 individual insects collected over a 1-year period from 59 grain-storage sites including farms (n = 29) and central storages (n = 30) across eastern Australia. Resistance alleles were detected in 49% of samples, 38% of farms and 60% of central storages. Although multiple alleles were detected, only two resistance variants (P49S and K142E) were widespread and each appeared to have a distinct but overlapping geographical distribution. CONCLUSION The type of structure in which the grain is stored had a strong effect on resistance allele frequency. We observed higher frequencies of resistance alleles in bunker storages at central sites compared with other storage types. This contributed to the higher frequencies of resistance alleles in bulk-handling facilities relative to farms. The discovery of a storage structure that predisposes insects to resistance highlights the utility of our high-throughput assay system for improvement of phosphine resistance management practices. © 2018 Society of Chemical Industry.
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Affiliation(s)
- David I Schlipalius
- Queensland Department of Agriculture and Fisheries, 3C West, Ecosciences Precinct, Brisbane, Australia
- School of Biological Sciences, University of Queensland, St. Lucia, Australia
- Plant Biosecurity Cooperative Research Centre, Canberra, Australia
| | - Andrew G Tuck
- Queensland Department of Agriculture and Fisheries, 3C West, Ecosciences Precinct, Brisbane, Australia
- School of Biological Sciences, University of Queensland, St. Lucia, Australia
- Plant Biosecurity Cooperative Research Centre, Canberra, Australia
| | - Hervoika Pavic
- Queensland Department of Agriculture and Fisheries, 3C West, Ecosciences Precinct, Brisbane, Australia
- Plant Biosecurity Cooperative Research Centre, Canberra, Australia
| | - Gregory J Daglish
- Queensland Department of Agriculture and Fisheries, 3C West, Ecosciences Precinct, Brisbane, Australia
- Plant Biosecurity Cooperative Research Centre, Canberra, Australia
| | - Manoj K Nayak
- Queensland Department of Agriculture and Fisheries, 3C West, Ecosciences Precinct, Brisbane, Australia
- Plant Biosecurity Cooperative Research Centre, Canberra, Australia
| | - Paul R Ebert
- School of Biological Sciences, University of Queensland, St. Lucia, Australia
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The Desaturase Gene Family is Crucially Required for Fatty Acid Metabolism and Survival of the Brown Planthopper, Nilaparvata lugens. Int J Mol Sci 2019; 20:ijms20061369. [PMID: 30893760 PMCID: PMC6472150 DOI: 10.3390/ijms20061369] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/31/2019] [Revised: 03/13/2019] [Accepted: 03/15/2019] [Indexed: 12/16/2022] Open
Abstract
Desaturases are essentially required for unsaturated fatty acid (UFA) biosynthesis. We identified 10 genes encoding putative desaturases in the transcriptome database of the brown planthopper (BPH), Nilaparvata lugens. These include eight First Desaturase family genes, one cytochrome b5 fused desaturase gene (Nlug-Cytb5r) and one Sphingolipid Desaturase gene (Nlug-ifc). Transcript level profiling revealed significant variation in the expression patterns of these genes across tissues and developmental stages, which occur in a gene-specific manner. Interestingly, their expression was also modulated by the insect food source: the mRNA levels of Nlug-desatC and Nlug-Cytb5r were down-regulated, but the expression level of Nlug-desatA1-b and Nlug-desatA1-c were elevated in the BPH fed on the resistant rice variety Babawee as compared to the non-resistant variety Taichun Native 1 (TN1). Silencing Nlug-desatA1-b, Nlug-desatA1-c, or Nlug-Ifc reduced fatty acid composition and abundance in female BPH 1-d-old-adults compared to controls. Whereas, single knockdown of all ten desaturase genes significantly increased mortality of BPH nymphs compared with controls. Of the ten desaturase genes, knockdown of Nlug-desatA1-b and Nlug-desatA2 caused the highest mortality in BPH (91% and 97%, respectively). Our findings offer a base for expression and functional characterization of newly identified desaturase genes in BPH, and may contribute to RNA interference-based pest management strategies.
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