Animals; Genomics/methods; Medicago sativa/genetics; Phylogeny; Aphids/genetics; Chromosomes, Insect; Genome, Insect; Aphids; Genomics; Medicago sativa; Statistics and Probability; Information Systems; Education; Computer Science Applications; Statistics, Probability and Uncertainty; Library and Information Sciences
Abstract :
[en] The spotted alfalfa aphid (SAA, Therioaphis trifolii) (Hemiptera: Aphididae) is a destructive pest of cultivated alfalfa (Medicago sativa L.) that leads to large financial losses in the livestock industry around the world. Here, we present a chromosome-scale genome assembly of T. trifolii, the first genome assembly for the aphid subfamily Calaphidinae. Using PacBio long-read sequencing, Illumina sequencing, and Hi-C scaffolding techniques, a 541.26 Mb genome was generated, with 90.01% of the assembly anchored into eight scaffolds, and the contig and scaffold N50 are 2.54 Mb and 44.77 Mb, respectively. BUSCO assessment showed a completeness score of 96.6%. A total of 13,684 protein-coding genes were predicted. The high-quality genome assembly of T. trifolii not only provides a genomic resource for the more complete analysis of aphid evolution, but also provides insights into the ecological adaptation and insecticide resistance of T. trifolii.
Disciplines :
Entomology & pest control
Author, co-author :
Huang, Tianyu ; Université de Liège - ULiège > TERRA Research Centre ; State Key Laboratory for Biology of Plant Diseases and Insect Pests, Institute of Plant Protection, Chinese Academy of Agricultural Sciences, Beijing, 100193, China ; Guangdong Laboratory of Lingnan Modern Agriculture, Shenzhen, Genome Analysis Laboratory of the Ministry of Agriculture, Agricultural Genomics Institute at Shenzhen, Chinese Academy of Agricultural Sciences, Shenzhen, 518120, China
Liu, Yang; State Key Laboratory for Biology of Plant Diseases and Insect Pests, Institute of Plant Protection, Chinese Academy of Agricultural Sciences, Beijing, 100193, China
He, Kang; Ministry of Agriculture Key Lab of Molecular Biology of Crop Pathogens and Insects, Institute of Insect Sciences, Zhejiang University, Hangzhou, China
Francis, Frédéric ; Université de Liège - ULiège > TERRA Research Centre > Gestion durable des bio-agresseurs
Wang, Bing ; State Key Laboratory for Biology of Plant Diseases and Insect Pests, Institute of Plant Protection, Chinese Academy of Agricultural Sciences, Beijing, 100193, China. wangbing02@caas.cn
Wang, Guirong ; State Key Laboratory for Biology of Plant Diseases and Insect Pests, Institute of Plant Protection, Chinese Academy of Agricultural Sciences, Beijing, 100193, China. wangguirong@caas.cn ; Guangdong Laboratory of Lingnan Modern Agriculture, Shenzhen, Genome Analysis Laboratory of the Ministry of Agriculture, Agricultural Genomics Institute at Shenzhen, Chinese Academy of Agricultural Sciences, Shenzhen, 518120, China. wangguirong@caas.cn
Language :
English
Title :
Chromosome-level genome assembly of the spotted alfalfa aphid Therioaphis trifolii.
This study was supported by a grant from Shenzhen Science and Technology Program (Grant No. KQTD20180411143628272) and the National Natural Science Foundation of China (31872039), Major special projects for green pest control (110202201017(LS-01)), and the Central Public-interest Scientific Institution Basal Research Fund (CAASZDRW202108) and the Agricultural Science and Technology Innovation Program.
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