Genomic and transcriptomic analysis unveils population evolution and development of pesticide resistance in fall armyworm Spodoptera frugiperda.

Furong Gui; Tianming Lan; Yue Zhao; Wei Guo; Yang Dong; Dongming Fang; Huan Liu; Haimeng LI; Hongli Wang; Ruoshi Hao; Xiaofang Cheng; Yahong LI; Pengcheng Yang; Sunil Kumar Sahu; Yaping Chen; Le Cheng; Shuqi HE; Ping Liu; Guangyi Fan; Haorong LU; Guohai HU; Wei Dong; Bin Chen; Yuan Jiang; Yongwei Zhang; Hanhong XU; Fei Lin; Bernard Slippers; Alisa Postma; Matthew Jackson; Birhan Addisie Abate; Kassahun Tesfaye; Aschalew Lemma Demie; Meseret Destaw Bayeleygne; Dawit Tesfaye Degefu; Feng Chen; Paul K Kuria; Zachary M Kinyua; Tong-xian Liu; Huanming Yang; Fangneng Huang; Xin Liu; Jun Sheng; Le Kang

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Genomic and transcriptomic analysis unveils population evolution and development of pesticide resistance in fall armyworm Spodoptera frugiperda.

Author: Furong GUI ¹ ; Tianming LAN ² ; Yue ZHAO ¹ ; Wei GUO ³ ; Yang DONG ¹ ; Dongming FANG ² ; Huan LIU ² ; Haimeng LI ² ; Hongli WANG ² ; Ruoshi HAO ⁴ ; Xiaofang CHENG ⁵ ; Yahong LI ⁶ ; Pengcheng YANG ⁷ ; Sunil Kumar SAHU ² ; Yaping CHEN ¹ ; Le CHENG ⁸ ; Shuqi HE ¹ ; Ping LIU ⁵ ; Guangyi FAN ⁹ ; Haorong LU ¹⁰ ; Guohai HU ¹⁰ ; Wei DONG ² ; Bin CHEN ¹ ; Yuan JIANG ¹¹ ; Yongwei ZHANG ¹¹ ; Hanhong XU ¹² ; Fei LIN ¹² ; Bernard SLIPPERS ¹³ ; Alisa POSTMA ¹³ ; Matthew JACKSON ¹³ ; Birhan Addisie ABATE ¹⁴ ; Kassahun TESFAYE ¹⁴ ; Aschalew Lemma DEMIE ¹⁴ ; Meseret Destaw BAYELEYGNE ¹⁴ ; Dawit Tesfaye DEGEFU ¹⁵ ; Feng CHEN ⁵ ; Paul K KURIA ¹⁶ ; Zachary M KINYUA ¹⁶ ; Tong-Xian LIU ¹⁷ ; Huanming YANG ¹⁸ ; Fangneng HUANG ¹⁹ ; Xin LIU ²⁰ ; Jun SHENG ²¹ ; Le KANG ²²
Author Information

1. State Key Laboratory for Conservation and Utilization of Bioresources in Yunnan, Yunnan Agricultural University, Kunming, 650201, China.
2. State Key Laboratory of Agricultural Genomics, BGI-Shenzhen, Shenzhen, 518083, China.
3. State Key Laboratory of Integrated Management of Pest Insects and Rodents, Institute of Zoology, Chinese Academy of Sciences, Beijing, 100101, China.
4. Yunnan Plateau Characteristic Agriculture Industry Research Institute, Kunming, 650201, China.
5. MGI, BGI-Shenzhen, Shenzhen, 518083, China.
6. Yunnan Plant Protection and Quarantine Station, Kunming, 650034, China.
7. Beijing Institutes of Life Science, Chinese Academy of Sciences, Beijing, 100101, China.
8. BGI-Yunnan, No. 389 Haiyuan Road, High-tech Development Zone, Kunming, 650106, China.
9. BGI-Qingdao, BGI-Shenzhen, Qingdao, 266555, China.
10. China National GeneBank, Jinsha Road, Dapeng New District, Shenzhen, 518120, China.
11. BGI-Americas, One Broadway, 14th Floor, Cambridge, MA, 02142, USA.
12. State Key Laboratory for Conservation and Utilization of Subtropical Agro-Bioresources, South China Agricultural University, Guangzhou, 510642, China.
13. Department of Biochemistry, Genetics and Microbiology, Forestry and Agricultural Biotechnology Institute, University of Pretoria, Pretoria, South Africa.
14. Ethiopian Biotechnology Institute, Addis Ababa, Ethiopia.
15. Melkassa Agricultural Research Center, Ethiopian Institute of Agricultural Research, Melkassa, Addis Ababa, Ethiopia.
16. Kenya Agricultural and Livestock Research Organization, P.O. Box 57811, Nairobi, 00800, Kenya.
17. College of Plant Health and Medicine, Qingdao Agricultural University, Qingdao, 266109, China.
18. Guangdong Provincial Key Laboratory of Genome Read and Write, BGI-Shenzhen, Shenzhen, 518120, China.
19. Department of Entomology, Louisiana State University Agricultural Center, Baton Rouge, LA, 70803, USA. FHuang@agcenter.lsu.edu.
20. State Key Laboratory of Agricultural Genomics, BGI-Shenzhen, Shenzhen, 518083, China. liuxin@genomics.cn.
21. State Key Laboratory for Conservation and Utilization of Bioresources in Yunnan, Yunnan Agricultural University, Kunming, 650201, China. shengjunpuer@163.com.
22. State Key Laboratory of Integrated Management of Pest Insects and Rodents, Institute of Zoology, Chinese Academy of Sciences, Beijing, 100101, China. lkang@ioz.ac.cn.
Publication Type:Research Support, Non-U.S. Gov't
Keywords: Spodoptera frugiperda; chromosome-level genome; cytochrome p450; pesticides; population differentiation
MeSH: Animals; China; Genomics; Humans; Male; Pesticides; Spodoptera/genetics*; Transcriptome
From: Protein & Cell 2022;13(7):513-531
CountryChina
Language:English
Abstract: The fall armyworm (FAW), Spodoptera frugiperda, is a destructive pest native to America and has recently become an invasive insect pest in China. Because of its rapid spread and great risks in China, understanding of FAW genetic background and pesticide resistance is urgent and essential to develop effective management strategies. Here, we assembled a chromosome-level genome of a male FAW (SFynMstLFR) and compared re-sequencing results of the populations from America, Africa, and China. Strain identification of 163 individuals collected from America, Africa and China showed that both C and R strains were found in the American populations, while only C strain was found in the Chinese and African populations. Moreover, population genomics analysis showed that populations from Africa and China have close relationship with significantly genetic differentiation from American populations. Taken together, FAWs invaded into China were most likely originated from Africa. Comparative genomics analysis displayed that the cytochrome p450 gene family is extremely expanded to 425 members in FAW, of which 283 genes are specific to FAW. Treatments of Chinese populations with twenty-three pesticides showed the variant patterns of transcriptome profiles, and several detoxification genes such as AOX, UGT and GST specially responded to the pesticides. These findings will be useful in developing effective strategies for management of FAW in China and other invaded areas.