A Chromosome-Scale Genome Assembly of a Helicoverpa zea Strain Resistant to Bacillus thuringiensis Cry1Ac Insecticidal Protein.

Autor: Stahlke AR; USDA, Agricultural Research Service, Beltsville Agricultural Research Center, Bee Research Laboratory, 10300 Baltimore Avenue, Beltsville, Maryland 20705., Chang J; USDA, Agricultural Research Service, Jamie Whitten Delta States Research Center, Genomics and Bioinformatics Research Unit, 141 Experiment Station Road, Stoneville, Mississippi 38776.; USDOE, Oak Ridge Institute for Science and Education, P.O. Box 117, Oak Ridge, Tennessee 37831.; Genome Informatics Facility, Office of Biotechnology, Iowa State University, Ames, Iowa 50010., Tembrock LR; USDA, Animal and Plant Health Inspection Service, Plant Protection and Quarantine, Science & Technology, Identification Technology Program, 2301 Research Boulevard, Fort Collins, Colorado 80526.; Department of Agricultural Biology, Colorado State University, Fort Collins, Colorado 80523., Sim SB; USDA, Agricultural Research Service, U.S. Pacific Basin Agricultural Research Center, Tropical Crop and Commodity Protection Research Unit, 64 Nowelo Street, Hilo, Hawaii 96720., Chudalayandi S; Genome Informatics Facility, Office of Biotechnology, Iowa State University, Ames, Iowa 50010., Geib SM; USDA, Agricultural Research Service, U.S. Pacific Basin Agricultural Research Center, Tropical Crop and Commodity Protection Research Unit, 64 Nowelo Street, Hilo, Hawaii 96720., Scheffler BE; USDA, Agricultural Research Service, Jamie Whitten Delta States Research Center, Genomics and Bioinformatics Research Unit, 141 Experiment Station Road, Stoneville, Mississippi 38776., Perera OP; USDA, Agricultural Research Service, Jamie Whitten Delta States Research Center, Southern Insect Management Research Unit, 141 Experiment Station Road, Stoneville, Mississippi 38776., Gilligan TM; USDA, Animal and Plant Health Inspection Service, Plant Protection and Quarantine, Science & Technology, Identification Technology Program, 2301 Research Boulevard, Fort Collins, Colorado 80526., Childers AK; USDA, Agricultural Research Service, Beltsville Agricultural Research Center, Bee Research Laboratory, 10300 Baltimore Avenue, Beltsville, Maryland 20705., Hackett KJ; USDA, Agricultural Research Service, Office of National Programs, Crop Production and Protection, 5601 Sunnyside Avenue, Beltsville, Maryland 20705., Coates BS; USDA, Agricultural Research Service, Corn Insects and Crop Genetics Research Unit, 819 Wallace Road, Ames, Iowa 50011.
Jazyk: angličtina
Zdroj: Genome biology and evolution [Genome Biol Evol] 2023 Mar 03; Vol. 15 (3).
DOI: 10.1093/gbe/evac131
Abstrakt: Helicoverpa zea (Lepidoptera: Noctuidae) is an insect pest of major cultivated crops in North and South America. The species has adapted to different host plants and developed resistance to several insecticidal agents, including Bacillus thuringiensis (Bt) insecticidal proteins in transgenic cotton and maize. Helicoverpa zea populations persist year-round in tropical and subtropical regions, but seasonal migrations into temperate zones increase the geographic range of associated crop damage. To better understand the genetic basis of these physiological and ecological characteristics, we generated a high-quality chromosome-level assembly for a single H. zea male from Bt-resistant strain, HzStark_Cry1AcR. Hi-C data were used to scaffold an initial 375.2 Mb contig assembly into 30 autosomes and the Z sex chromosome (scaffold N50 = 12.8 Mb and L50 = 14). The scaffolded assembly was error-corrected with a novel pipeline, polishCLR. The mitochondrial genome was assembled through an improved pipeline and annotated. Assessment of this genome assembly indicated 98.8% of the Lepidopteran Benchmark Universal Single-Copy Ortholog set were complete (98.5% as complete single copy). Repetitive elements comprised approximately 29.5% of the assembly with the plurality (11.2%) classified as retroelements. This chromosome-scale reference assembly for H. zea, ilHelZeax1.1, will facilitate future research to evaluate and enhance sustainable crop production practices.
(Published by Oxford University Press on behalf of Society for Molecular Biology and Evolution 2022.)
Databáze: MEDLINE
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