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ARS Home » Plains Area » Kerrville, Texas » Knipling-Bushland U.S. Livestock Insects Research Laboratory » Livestock Arthropod Pest Research Unit » Research » Publications at this Location » Publication #429515
Research Project: Improved Methods for the Management of Dipteran Pests of Livestock

Location: Livestock Arthropod Pest Research Unit

Title: Cochliomyia macellaria genome sequencing and assembly and RNASeq data submission to National Center for Biotechnology Information

Author
item Hickner, Paul
item Sim, Sheina
item Luecke, David
item Bendele, Kylie
item Bodine, Deanna
item SCOTT, MAXWELL - North Carolina State University College Of Veterinary Medicine
item Lohmeyer, Kimberly
item Geib, Scott
item Saelao, Perot

Submitted to: National Center for Biotechnology Information (NCBI)
Publication Type: Database / Dataset
Publication Acceptance Date: 5/29/2025
Publication Date: 9/12/2025
Citation: Hickner, P.V., Sim, S.B., Luecke, D.M., Bendele, K.G., Bodine, D.M., Scott, M., Lohmeyer, K.H., Geib, S.M., Saelao, P. 2025. Cochliomyia macellaria genome sequencing and assembly and RNASeq data submission to National Center for Biotechnology Information. National Center for Biotechnology Information (NCBI). https://www.ncbi.nlm.nih.gov/bioproject/PRJNA1237386/.

Interpretive Summary: The goal of this project is to sequence, assemble, and annotate the genome of Cochliomyia macellaria, commonly known as the secondary screwworm fly. C. macellaria is a saprophagous blow fly with broad distribution in the Americas where it is used in forensic entomology to determine post-mortem interval (PMI). It is closely related to the New World screwworm, Cochliomyia hominivorax, thus the C. macellaria genome could provide valuable insights into the evolution of parasitism. Umbrella BioProject PRJNA1237386 Primary Genome BioProject (3-17-25) PRJNA1254291 Haplotype 2 Genome & RNASeq BioProject (4-22-25) PRJNA1254290 Genomic BioSamples (3-20-25) Accession Sample Name Isolate SAMN47485995 Cmac_female_parent female parent SAMN47485996 Cmac_male_parent male parent SAMN47485997 Cmac_F1_male F1 offspring Genomic Sequence Read Archive (4-16-25) Study SRP578767 Female_Parent SRR33145217 Male_Parent SRR33145216 F1_Male_HiFi SRR33145215 F1_Male_HiC SRR33145214 Genomes (accepted 5-29-25; released 9-12-25) Primary Cochliomyia macellaria Kerr-NC-F1 Genome: JBOJLO000000000, GCA_052576185.1 Hap 2/Alternate Cochliomyia macellaria Kerr-NC-F1 Genome: JBOJLP000000000, GCA_052576165.1 RNASeq BioSamples (5-6-25) – under BioProject PRJNA1254270 SAMN48349174 Cmac_M_Vd3_Prob SAMN48349175 Cmac_F_Vd3_Prob SAMN48349176 Cmac_F_Md3_Prob SAMN48349177 Cmac_F_Gd7_Prob SAMN48349178 Cmac_90-120_min_embryos SAMN48349179 Cmac_120-150_min_embryos SAMN48349180 Cmac_150-180_min_embryos SAMN48349181 Cmac_1-4_hr_embryos SAMN48349182 Cmac_F_Vd3_Wing1 SAMN48349183 Cmac_M_Vd3_Wing1 SAMN48349184 Cmac_F SAMN48349185 Cmac_M SAMN48349186 Cmac_larvae SAMN48349187 Cmac_pupa RNASeq SRA Study SRP583354 (5-6-25) under BioProject PRJNA1254270 SRR33447800 Cmac_M_Vd3_Prob SRR33447799 Cmac_F_Vd3_Prob SRR33447794 Cmac_F_Md3_Prob SRR33447793 Cmac_F_Gd7_Prob SRR33447792 Cmac_90-120_min_embryos SRR33447791 Cmac_120-150_min_embryos SRR33447790 Cmac_150-180_min_embryos SRR33447789 Cmac_1-4_hr_embryos SRR33447788 Cmac_F_Vd3_Wing1 SRR33447787 Cmac_M_Vd3_Wing1 SRR33447798 Cmac_F SRR33447797 Cmac_M SRR33447796 Cmac_larvae SRR33447795 Cmac_pupa DOI/URL: https://www.ncbi.nlm.nih.gov/bioproject/PRJNA1237386/

Technical Abstract: The goal of this project is to sequence, assemble, and annotate the genome of Cochliomyia macellaria, commonly known as the secondary screwworm fly. C. macellaria is a saprophagous blow fly with broad distribution in the Americas where it is used in forensic entomology to determine post-mortem interval (PMI). It is closely related to the New World screwworm, Cochliomyia hominivorax, thus the C. macellaria genome could provide valuable insights into the evolution of parasitism. Umbrella BioProject PRJNA1237386 Primary Genome BioProject (3-17-25) PRJNA1254291 Haplotype 2 Genome & RNASeq BioProject (4-22-25) PRJNA1254290 Genomic BioSamples (3-20-25) Accession Sample Name Isolate SAMN47485995 Cmac_female_parent female parent SAMN47485996 Cmac_male_parent male parent SAMN47485997 Cmac_F1_male F1 offspring Genomic Sequence Read Archive (4-16-25) Study SRP578767 Female_Parent SRR33145217 Male_Parent SRR33145216 F1_Male_HiFi SRR33145215 F1_Male_HiC SRR33145214 Genomes (accepted 5-29-25; released 9-12-25) Primary Cochliomyia macellaria Kerr-NC-F1 Genome: JBOJLO000000000, GCA_052576185.1 Hap 2/Alternate Cochliomyia macellaria Kerr-NC-F1 Genome: JBOJLP000000000, GCA_052576165.1 RNASeq BioSamples (5-6-25) – under BioProject PRJNA1254270 SAMN48349174 Cmac_M_Vd3_Prob SAMN48349175 Cmac_F_Vd3_Prob SAMN48349176 Cmac_F_Md3_Prob SAMN48349177 Cmac_F_Gd7_Prob SAMN48349178 Cmac_90-120_min_embryos SAMN48349179 Cmac_120-150_min_embryos SAMN48349180 Cmac_150-180_min_embryos SAMN48349181 Cmac_1-4_hr_embryos SAMN48349182 Cmac_F_Vd3_Wing1 SAMN48349183 Cmac_M_Vd3_Wing1 SAMN48349184 Cmac_F SAMN48349185 Cmac_M SAMN48349186 Cmac_larvae SAMN48349187 Cmac_pupa RNASeq SRA Study SRP583354 (5-6-25) under BioProject PRJNA1254270 SRR33447800 Cmac_M_Vd3_Prob SRR33447799 Cmac_F_Vd3_Prob SRR33447794 Cmac_F_Md3_Prob SRR33447793 Cmac_F_Gd7_Prob SRR33447792 Cmac_90-120_min_embryos SRR33447791 Cmac_120-150_min_embryos SRR33447790 Cmac_150-180_min_embryos SRR33447789 Cmac_1-4_hr_embryos SRR33447788 Cmac_F_Vd3_Wing1 SRR33447787 Cmac_M_Vd3_Wing1 SRR33447798 Cmac_F SRR33447797 Cmac_M SRR33447796 Cmac_larvae SRR33447795 Cmac_pupa DOI/URL: https://www.ncbi.nlm.nih.gov/bioproject/PRJNA1237386/