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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 #435651
Research Project: Improved Methods for the Management of Dipteran Pests of Livestock

Location: Livestock Arthropod Pest Research Unit

Title: Whole genome sequencing with assembly and transcriptomic sequencing of Phormia regina, the black blow fly in the National Center for Biotechnology Information

Author
item Hickner, Paul
item Sim, Sheina
item Geib, Scott
item Luecke, David
item Saelao, Perot
item Bodine, Deanna
item Bendele, Kylie
item BAILEY, EZRA - Texas A&M University

Submitted to: National Center for Biotechnology Information (NCBI)
Publication Type: Database / Dataset
Publication Acceptance Date: 6/9/2026
Publication Date: N/A
Citation: N/A

Interpretive Summary: The goal of this project is to sequence, assemble, and annotate the genome of Phormia regina, commonly known as the black blow fly. P. regina 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 related to the New World screwworm and other Cochliomyia spp. and occasionally infests living animals, thus the P. regina genome could provide valuable insights into the evolution of feeding habits in the Calliphoridae. A chromosome-level reference assembly was generated by sequencing a single adult male on the PacBio Revio and scaffolding with Hi-C. RNA sequencing was conducted on an Illumina NextSeq to provide evidence for annotations using NCBI’s EGAPx pipeline. BioProject PRJNA1467660 Genomic BioSample Phormia_regina_male SAMN60254335 Genomic SRA Study SRP701737 Genomic SRA Phormia_regina_maleHi-C SRR38708391 Genomic SRA Phormia_regina_maleHiFi SRR38708390 Genome WGS JBYYMS000000000 This Whole Genome Shotgun project has been deposited at DDBJ/ENA/GenBank under the accession JBYYMS000000000. The version described in this paper is version JBYYMS010000000. RNASeq BioSample P_reginaFemale_Antennae SAMN60643762 RNASeq BioSample P_reginaMale_Antennae SAMN60643763 RNASeq BioSample P_reginaFirstInstarLarva SAMN60643764 RNASeq BioSample P_reginaSecondInstarLarva SAMN60643765 RNASeq BioSample P_reginaThirdInstarLarva SAMN60643766 RNASeq BioSample P_reginaPupae SAMN60643767 RNASeq BioSample P_reginaFemale_Adult SAMN60643768 RNASeq BioSample P_reginaMale_Adult SAMN60643769 RNASeq SRA Study SRP701737 RNASeq SRA P_reg_M_adult SRR39027504 RNASeq SRA P_reg_F_adult SRR39027505 RNASeq SRA R_reg_Pupae SRR39027506 RNASeq SRA P_reg_3rdInstar SRR39027507 RNASeq SRA P_reg_2ndInstar SRR39027508 RNASeq SRA P_reg_1stInstar SRR39027509 RNASeq SRA P_reg_M_Antennae SRR39027510 RNASeq SRA P_reg_F_Antennae SRR39027511 DOI https://www.ncbi.nlm.nih.gov/bioproject/PRJNA1467660/

Technical Abstract: The goal of this project is to sequence, assemble, and annotate the genome of Phormia regina, commonly known as the black blow fly. P. regina 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 related to the New World screwworm and other Cochliomyia spp. and occasionally infests living animals, thus the P. regina genome could provide valuable insights into the evolution of feeding habits in the Calliphoridae. A chromosome-level reference assembly was generated by sequencing a single adult male on the PacBio Revio and scaffolding with Hi-C. RNA sequencing was conducted on an Illumina NextSeq to provide evidence for annotations using NCBI’s EGAPx pipeline. BioProject PRJNA1467660 Genomic BioSample Phormia_regina_male SAMN60254335 Genomic SRA Study SRP701737 Genomic SRA Phormia_regina_maleHi-C SRR38708391 Genomic SRA Phormia_regina_maleHiFi SRR38708390 Genome WGS JBYYMS000000000 This Whole Genome Shotgun project has been deposited at DDBJ/ENA/GenBank under the accession JBYYMS000000000. The version described in this paper is version JBYYMS010000000. RNASeq BioSample P_reginaFemale_Antennae SAMN60643762 RNASeq BioSample P_reginaMale_Antennae SAMN60643763 RNASeq BioSample P_reginaFirstInstarLarva SAMN60643764 RNASeq BioSample P_reginaSecondInstarLarva SAMN60643765 RNASeq BioSample P_reginaThirdInstarLarva SAMN60643766 RNASeq BioSample P_reginaPupae SAMN60643767 RNASeq BioSample P_reginaFemale_Adult SAMN60643768 RNASeq BioSample P_reginaMale_Adult SAMN60643769 RNASeq SRA Study SRP701737 RNASeq SRA P_reg_M_adult SRR39027504 RNASeq SRA P_reg_F_adult SRR39027505 RNASeq SRA R_reg_Pupae SRR39027506 RNASeq SRA P_reg_3rdInstar SRR39027507 RNASeq SRA P_reg_2ndInstar SRR39027508 RNASeq SRA P_reg_1stInstar SRR39027509 RNASeq SRA P_reg_M_Antennae SRR39027510 RNASeq SRA P_reg_F_Antennae SRR39027511 DOI https://www.ncbi.nlm.nih.gov/bioproject/PRJNA1467660/