The chromosome-scale reference genome of mirid bugs (Adelphocoris suturalis) genome provides insights into omnivory, insecticide resistance, and survival adaptation
Abstract Background Adelphocoris suturalis (Hemiptera: Miridae) is a notorious agricultural pest, which causes serious economic losses to a diverse range of agricultural crops around the world. The poor understanding of its genomic characteristics has seriously hindered the establishment of sustaina...
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| Format: | Article |
| Language: | English |
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BMC
2023-09-01
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| Series: | BMC Biology |
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| Online Access: | https://doi.org/10.1186/s12915-023-01666-3 |
| _version_ | 1797451462299615232 |
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| author | Zhongping Xu Guanying Wang Jing Luo Mingju Zhu Lisong Hu Sijia Liang Bo Li Xingxing Huang Ying Wang Guangyu Zhang Can Zhang Yi Zhou Daojun Yuan Taiyu Chen Lizhen Chen Weihua Ma Wei Gao Keith Lindsey Xianlong Zhang Fang Ding Shuangxia Jin |
| author_facet | Zhongping Xu Guanying Wang Jing Luo Mingju Zhu Lisong Hu Sijia Liang Bo Li Xingxing Huang Ying Wang Guangyu Zhang Can Zhang Yi Zhou Daojun Yuan Taiyu Chen Lizhen Chen Weihua Ma Wei Gao Keith Lindsey Xianlong Zhang Fang Ding Shuangxia Jin |
| author_sort | Zhongping Xu |
| collection | DOAJ |
| description | Abstract Background Adelphocoris suturalis (Hemiptera: Miridae) is a notorious agricultural pest, which causes serious economic losses to a diverse range of agricultural crops around the world. The poor understanding of its genomic characteristics has seriously hindered the establishment of sustainable and environment-friendly agricultural pest management through biotechnology and biological insecticides. Results Here, we report a chromosome-level assembled genome of A. suturalis by integrating Illumina short reads, PacBio, 10x Chromium, and Hi-C mapping technologies. The resulting 1.29 Gb assembly contains twelve chromosomal pseudomolecules with an N50 of 1.4 and 120.6 Mb for the contigs and scaffolds, respectively, and carries 20,010 protein-coding genes. The considerable size of the A. suturalis genome is predominantly attributed to a high amount of retrotransposons, especially long interspersed nuclear elements (LINEs). Transcriptomic and phylogenetic analyses suggest that A. suturalis-specific candidate effectors, and expansion and expression of gene families associated with omnivory, insecticide resistance and reproductive characteristics, such as digestion, detoxification, chemosensory receptors and long-distance migration likely contribute to its strong environmental adaptability and ability to damage crops. Additionally, 19 highly credible effector candidates were identified and transiently overexpressed in Nicotiana benthamiana for functional assays and potential targeting for insect resistance genetic engineering. Conclusions The high-quality genome of A. suturalis provides an important genomic landscape for further investigations into the mechanisms of omnivory, insecticide resistance and survival adaptation, and for the development of integrated management strategies. |
| first_indexed | 2024-03-09T14:55:00Z |
| format | Article |
| id | doaj.art-3a8f67453816434eb926e446675312b2 |
| institution | Directory Open Access Journal |
| issn | 1741-7007 |
| language | English |
| last_indexed | 2024-03-09T14:55:00Z |
| publishDate | 2023-09-01 |
| publisher | BMC |
| record_format | Article |
| series | BMC Biology |
| spelling | doaj.art-3a8f67453816434eb926e446675312b22023-11-26T14:14:30ZengBMCBMC Biology1741-70072023-09-0121112310.1186/s12915-023-01666-3The chromosome-scale reference genome of mirid bugs (Adelphocoris suturalis) genome provides insights into omnivory, insecticide resistance, and survival adaptationZhongping Xu0Guanying Wang1Jing Luo2Mingju Zhu3Lisong Hu4Sijia Liang5Bo Li6Xingxing Huang7Ying Wang8Guangyu Zhang9Can Zhang10Yi Zhou11Daojun Yuan12Taiyu Chen13Lizhen Chen14Weihua Ma15Wei Gao16Keith Lindsey17Xianlong Zhang18Fang Ding19Shuangxia Jin20National Key Laboratory of Crop Genetic Improvement, Hubei Hongshan Laboratory, Huazhong Agricultural UniversityNational Key Laboratory of Crop Genetic Improvement, Hubei Hongshan Laboratory, Huazhong Agricultural UniversityState Key Laboratory of Biocatalysis and Enzyme Engineering, School of Life Sciences, Hubei UniversityNational Key Laboratory of Crop Genetic Improvement, Hubei Hongshan Laboratory, Huazhong Agricultural UniversitySpice and Beverage Research Institute, Chinese Academy of Tropical Agricultural SciencesAcademy of Industry Innovation and Development, Huanghuai UniversityXinjiang Key Laboratory of Crop Biotechnology, Institute of Nuclear and Biological Technology, Xinjiang Academy of Agricultural SciencesHubei Insect Resources Utilization and Sustainable Pest Management Key Laboratory, Huazhong Agricultural UniversityNational Key Laboratory of Crop Genetic Improvement, Hubei Hongshan Laboratory, Huazhong Agricultural UniversityNational Key Laboratory of Crop Genetic Improvement, Hubei Hongshan Laboratory, Huazhong Agricultural UniversityNational Key Laboratory of Crop Genetic Improvement, Hubei Hongshan Laboratory, Huazhong Agricultural UniversityNational Key Laboratory of Crop Genetic Improvement, Hubei Hongshan Laboratory, Huazhong Agricultural UniversityNational Key Laboratory of Crop Genetic Improvement, Hubei Hongshan Laboratory, Huazhong Agricultural UniversityNational Key Laboratory of Crop Genetic Improvement, Hubei Hongshan Laboratory, Huazhong Agricultural UniversityHubei Insect Resources Utilization and Sustainable Pest Management Key Laboratory, Huazhong Agricultural UniversityNational Key Laboratory of Crop Genetic Improvement, Hubei Hongshan Laboratory, Huazhong Agricultural UniversityState Key Laboratory of Cotton Biology, Henan Key Laboratory of Plant Stress Biology, School of Life Science, Henan UniversityDepartment of Biosciences, Durham UniversityNational Key Laboratory of Crop Genetic Improvement, Hubei Hongshan Laboratory, Huazhong Agricultural UniversityHubei Key Laboratory of Plant Pathology, College of Plant Science and Technology, Huazhong Agricultural UniversityNational Key Laboratory of Crop Genetic Improvement, Hubei Hongshan Laboratory, Huazhong Agricultural UniversityAbstract Background Adelphocoris suturalis (Hemiptera: Miridae) is a notorious agricultural pest, which causes serious economic losses to a diverse range of agricultural crops around the world. The poor understanding of its genomic characteristics has seriously hindered the establishment of sustainable and environment-friendly agricultural pest management through biotechnology and biological insecticides. Results Here, we report a chromosome-level assembled genome of A. suturalis by integrating Illumina short reads, PacBio, 10x Chromium, and Hi-C mapping technologies. The resulting 1.29 Gb assembly contains twelve chromosomal pseudomolecules with an N50 of 1.4 and 120.6 Mb for the contigs and scaffolds, respectively, and carries 20,010 protein-coding genes. The considerable size of the A. suturalis genome is predominantly attributed to a high amount of retrotransposons, especially long interspersed nuclear elements (LINEs). Transcriptomic and phylogenetic analyses suggest that A. suturalis-specific candidate effectors, and expansion and expression of gene families associated with omnivory, insecticide resistance and reproductive characteristics, such as digestion, detoxification, chemosensory receptors and long-distance migration likely contribute to its strong environmental adaptability and ability to damage crops. Additionally, 19 highly credible effector candidates were identified and transiently overexpressed in Nicotiana benthamiana for functional assays and potential targeting for insect resistance genetic engineering. Conclusions The high-quality genome of A. suturalis provides an important genomic landscape for further investigations into the mechanisms of omnivory, insecticide resistance and survival adaptation, and for the development of integrated management strategies.https://doi.org/10.1186/s12915-023-01666-3Adelphocoris suturalisChromosome-scale reference genomeCandidate effectorsOmnivoryDetoxification |
| spellingShingle | Zhongping Xu Guanying Wang Jing Luo Mingju Zhu Lisong Hu Sijia Liang Bo Li Xingxing Huang Ying Wang Guangyu Zhang Can Zhang Yi Zhou Daojun Yuan Taiyu Chen Lizhen Chen Weihua Ma Wei Gao Keith Lindsey Xianlong Zhang Fang Ding Shuangxia Jin The chromosome-scale reference genome of mirid bugs (Adelphocoris suturalis) genome provides insights into omnivory, insecticide resistance, and survival adaptation BMC Biology Adelphocoris suturalis Chromosome-scale reference genome Candidate effectors Omnivory Detoxification |
| title | The chromosome-scale reference genome of mirid bugs (Adelphocoris suturalis) genome provides insights into omnivory, insecticide resistance, and survival adaptation |
| title_full | The chromosome-scale reference genome of mirid bugs (Adelphocoris suturalis) genome provides insights into omnivory, insecticide resistance, and survival adaptation |
| title_fullStr | The chromosome-scale reference genome of mirid bugs (Adelphocoris suturalis) genome provides insights into omnivory, insecticide resistance, and survival adaptation |
| title_full_unstemmed | The chromosome-scale reference genome of mirid bugs (Adelphocoris suturalis) genome provides insights into omnivory, insecticide resistance, and survival adaptation |
| title_short | The chromosome-scale reference genome of mirid bugs (Adelphocoris suturalis) genome provides insights into omnivory, insecticide resistance, and survival adaptation |
| title_sort | chromosome scale reference genome of mirid bugs adelphocoris suturalis genome provides insights into omnivory insecticide resistance and survival adaptation |
| topic | Adelphocoris suturalis Chromosome-scale reference genome Candidate effectors Omnivory Detoxification |
| url | https://doi.org/10.1186/s12915-023-01666-3 |
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