ID 555319 - BioProject

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Accession: PRJNA555319 ID: 555319

USDA Agricultural Research Service’s Ag100Pest Initiative

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This project is a component of the Earth BioGenome Project (EBP)

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39 additional projects are components of the Earth BioGenome Project (EBP).

The USDA Agricultural Research Service’s Ag100Pest Initiative will produce annotated, high quality genome assemblies for 100 US agricultural pest arthropods. The Ag100Pest Initiative is a component of both the i5k Initiative and Earth BioGenome Project. Species are being chosen across arthropod pests of US field crops, livestock, bees, trees, and stored products as well as foreign pest species considered potential invasive threats to US agriculture.

Accession	PRJNA555319
Type	Umbrella project
Submission	Registration date: 18-Jul-2019 Ag100Pest - USDA-ARS - USDA-ARS
Relevance	Agricultural

Project Data:

Resource Name	Number of Links
Sequence data
Nucleotide (total)	635145
WGS master	82
Genomic DNA	3
Transcript	627838
SRA Experiments	179
Protein Sequences	548674
Publications
PubMed	7
PMC	3
Other datasets
BioSample	137
Assembly	82

SRA Data Details

Parameter	Value
Data volume, Gbases	7,095
Data volume, Tbytes	3.23

This project encompasses the following 120 sub-projects:

Project Type

Number of Projects

Genome sequencing

Highest level of assembly :

Complete genome
Chromosomes
Scaffolds
Contigs
SRA or Trace
No data links
Total

2
30
4
14
38
7
95

BioProject accession	Assembly level	Name	Title
PRJNA706033	Scaffolds	Acheta domesticus	Acheta domesticus and associated symbionts (USDA ARS Center for Grain...)
PRJNA1093064	No data links	Acheta domesticus	Acheta domesticus isolate:BO2018_Ado_male_adult RefSeq BioProject (NCBI)
PRJNA827938	Contigs	Amyelois transitella	Genome sequencing of Amyelois transitella (navel orangeworm) adult female alternate pseudohaplotype (USDA-ARS Ag100Pest)
PRJNA1036713	Complete genome	Amyelois transitella	Amyelois transitella RefSeq Raw sequence reads (NCBI)
PRJNA796007	Chromosomes	Anastrepha obliqua	Genome sequencing of Anastrepha obliqua adult male: principal pseudohaplotype (United States Department...)

List all 95 'Genome sequencing' projects...

BioProject accession	Assembly level	Name	Title
PRJNA706033	Scaffolds	Acheta domesticus	Acheta domesticus and associated symbionts (USDA ARS Center for Grain...)
PRJNA1093064	No data links	Acheta domesticus	Acheta domesticus isolate:BO2018_Ado_male_adult RefSeq BioProject (NCBI)
PRJNA827938	Contigs	Amyelois transitella	Genome sequencing of Amyelois transitella (navel orangeworm) adult female alternate pseudohaplotype (USDA-ARS Ag100Pest)
PRJNA1036713	Complete genome	Amyelois transitella	Amyelois transitella RefSeq Raw sequence reads (NCBI)
PRJNA796007	Chromosomes	Anastrepha obliqua	Genome sequencing of Anastrepha obliqua adult male: principal pseudohaplotype (United States Department...)
PRJNA797107	Contigs	Anastrepha obliqua	Genome sequencing of Anastrepha obliqua adult male: alternate pseudohaplotype (United States Department...)
PRJNA950966	Chromosomes	Anastrepha obliqua	Anastrepha obliqua RefSeq Raw sequence reads (NCBI)
PRJNA767479	SRA or Trace	Aphis gossypii genome sequencing, principal pseudohaplotype	Aphis gossypii genome sequencing, principal pseudohaplotype (United States Department...)
PRJNA609960	No data links	Bactericera maculipennis	Bindweed psyllid Genome sequencing and assembly (AgriVectors)
PRJNA880168	Chromosomes	Bombus huntii	Bombus huntii RefSeq Raw sequence reads (NCBI)
PRJNA609959	No data links	Cacopsylla pyricola	Pear psylla Genome sequencing and assembly (AgriVectors)
PRJNA767407	SRA or Trace	Chaetopsis massyla genome sequencing, principal pseudohaplotype	Chaetopsis massyla genome sequencing, principal pseudohaplotype (United States Department...)
PRJNA813603	No data links	Curculio caryae	Genome sequencing of Curculio caryae adult female alternate pseudohaplotype (USDA Ag100Pest)
PRJNA881449	Contigs	Cydia pomonella	Genome sequencing of Cydia pomonella (Codling Moth) adult female alternate pseudohaplotype (United States Department...)
PRJNA1055067	Chromosomes	Cydia pomonella	Cydia pomonella RefSeq Raw sequence reads (NCBI)
PRJNA816608	Contigs	Cynaeus angustus	Genome sequencing of Cynaeus angustus adult alternate pseudohaplotype (United States Department...)
PRJNA767403	Chromosomes	Cynaeus angustus genome sequencing adult principal pseudohaplotype	Cynaeus angustus genome sequencing adult principal pseudohaplotype (United States Department...)
PRJNA813639	Contigs	Dermacentor andersoni	Genome sequencing of Dermacentor andersoni adult female alternate pseudohaplotype (United States Department...)
PRJNA788888	SRA or Trace	Diabrotica undecimpunctata genome sequencing, principal pseudohaplotype	Diabrotica undecimpunctata genome sequencing, principal pseudohaplotype (United States Department...)
PRJNA1043226	Chromosomes	Diachasmimorpha longicaudata	Genome Sequencing of Diachasmimorpha longicaudata adult haploid male, UGA strain (United States Department...)
PRJNA797438	Chromosomes	Diprion similis	Diprion similis RefSeq Raw sequence reads (NCBI)
PRJNA1029194	Chromosomes	Genome Sequencing of Vanessa tameamea Adult Female Principal Pseudohaplotype	Genome Sequencing of Vanessa tameamea Adult Female Principal Pseudohaplotype (United States Department...)
PRJNA1029239	Chromosomes	Genome Sequencing of Vanessa tameamea Adult Male Principal Pseudohaplotype	Genome Sequencing of Vanessa tameamea Adult Male Principal Pseudohaplotype (United States Department...)
PRJNA767396	Scaffolds	Genome sequencing and assembly of Dermacentor andersoni adult female principal pseudohaplotype	Genome sequencing and assembly of Dermacentor andersoni adult female principal pseudohaplotype (United States Department...)
PRJNA868053	SRA or Trace	Genome sequencing of Amblyomma americanum (lone star tick) adult principal pseudohaplotype	Genome sequencing of Amblyomma americanum (lone star tick) adult principal pseudohaplotype (USDA-ARS Ag100Pest)
PRJNA827935	Complete genome	Genome sequencing of Amyelois transitella (navel orangeworm) adult female principal pseudohaplotype	Genome sequencing of Amyelois transitella (navel orangeworm) adult female principal pseudohaplotype (USDA-ARS Ag100Pest)
PRJNA866173	SRA or Trace	Genome sequencing of Aphis gossypii AL (cotton aphid) adult female principal pseudohaplotype	Genome sequencing of Aphis gossypii AL (cotton aphid) adult female principal pseudohaplotype (USDA-ARS Ag100Pest)
PRJNA866599	SRA or Trace	Genome sequencing of Bactericera maculipennis (bindweed psyllid) adult female principal pseudohaplotype	Genome sequencing of Bactericera maculipennis (bindweed psyllid) adult female principal pseudohaplotype (USDA-ARS Ag100Pest)
PRJNA858880	Chromosomes	Genome sequencing of Bombus huntii (Hunt bumble bee) adult haploid male	Genome sequencing of Bombus huntii (Hunt bumble bee) adult haploid male (USDA-ARS Ag100Pest)
PRJNA873126	SRA or Trace	Genome sequencing of Colladonus geminatus (geminate leafhopper) adult principal pseudohaplotype	Genome sequencing of Colladonus geminatus (geminate leafhopper) adult principal pseudohaplotype (USDA-ARS Ag100Pest)
PRJNA813156	SRA or Trace	Genome sequencing of Curculio caryae adult female principal pseudohaplotype	Genome sequencing of Curculio caryae adult female principal pseudohaplotype (United States Department...)
PRJNA880355	Chromosomes	Genome sequencing of Cydia pomonella (Codling Moth) adult female principal pseudohaplotype	Genome sequencing of Cydia pomonella (Codling Moth) adult female principal pseudohaplotype (United States Department...)
PRJNA881403	No data links	Genome sequencing of Cydia pomonella (Codling Moth) adult female principal pseudohaplotype	Genome sequencing of Cydia pomonella (Codling Moth) adult female principal pseudohaplotype (United States Department...)
PRJNA866608	SRA or Trace	Genome sequencing of Dermacentor albipictus (winter tick) adult principal pseudohaplotype	Genome sequencing of Dermacentor albipictus (winter tick) adult principal pseudohaplotype (USDA-ARS Ag100Pest)
PRJNA868367	SRA or Trace	Genome sequencing of Dermacentor variabilis (American dog tick) adult principal pseudohaplotype	Genome sequencing of Dermacentor variabilis (American dog tick) adult principal pseudohaplotype (USDA-ARS Ag100Pest)
PRJNA866607	SRA or Trace	Genome sequencing of Diabrotica virgifera (Western corn rootworm) adult principal pseudohaplotype	Genome sequencing of Diabrotica virgifera (Western corn rootworm) adult principal pseudohaplotype (USDA-ARS Ag100Pest)
PRJNA784632	Chromosomes	Genome sequencing of Diprion similis	Genome sequencing of Diprion similis (United States Department...)
PRJNA1089323	Chromosomes	Genome sequencing of Leptoglossus phyllopus adult male principal pseudohaplotype	Genome sequencing of Leptoglossus phyllopus adult male principal pseudohaplotype (USDA-ARS Ag100Pest)
PRJNA861375	Chromosomes	Genome sequencing of Microplitis demolitor adult male haploid	Genome sequencing of Microplitis demolitor adult male haploid (USDA-ARS)
PRJNA784631	Chromosomes	Genome sequencing of Neodiprion fabricii	Genome sequencing of Neodiprion fabricii (United States Department...)
PRJNA784628	Chromosomes	Genome sequencing of Neodiprion lecontei	Genome sequencing of Neodiprion lecontei (United States Department...)
PRJNA784629	Chromosomes	Genome sequencing of Neodiprion virginiana	Genome sequencing of Neodiprion virginiana (United States Department...)
PRJNA866606	SRA or Trace	Genome sequencing of Oryzaephilus mercator (merchant grain beetle) adult principal pseudohaplotype	Genome sequencing of Oryzaephilus mercator (merchant grain beetle) adult principal pseudohaplotype (USDA-ARS Ag100Pest)
PRJNA867745	SRA or Trace	Genome sequencing of Ostrinia nubilalis (European corn borer) adult male principal pseudohaplotype	Genome sequencing of Ostrinia nubilalis (European corn borer) adult male principal pseudohaplotype (USDA-ARS Ag100Pest)
PRJNA867411	SRA or Trace	Genome sequencing of Palorus ratzeburgii (small-eyed flour beetle) adult principal pseudohaplotype	Genome sequencing of Palorus ratzeburgii (small-eyed flour beetle) adult principal pseudohaplotype (USDA-ARS Ag100Pest)
PRJNA877690	SRA or Trace	Genome sequencing of Prosapia bicincta (two-lined spittlebug) adult principal pseudohaplotype	Genome sequencing of Prosapia bicincta (two-lined spittlebug) adult principal pseudohaplotype (USDA-ARS Ag100Pest)
PRJNA867420	SRA or Trace	Genome sequencing of Sitotroga cerealella (Angoumois grain moth) adult principal pseudohaplotype	Genome sequencing of Sitotroga cerealella (Angoumois grain moth) adult principal pseudohaplotype (USDA-ARS Ag100Pest)
PRJNA867421	SRA or Trace	Genome sequencing of Spodoptera frugiperda Benzon susceptible (fall armyworm) larval principal pseudohaplotype	Genome sequencing of Spodoptera frugiperda Benzon susceptible (fall armyworm) larval principal pseudohaplotype (USDA-ARS Ag100Pest)
PRJNA862269	SRA or Trace	Genome sequencing of Tetanops myopaeformis (sugarbeet root maggot) adult male principal pseudohaplotype	Genome sequencing of Tetanops myopaeformis (sugarbeet root maggot) adult male principal pseudohaplotype (USDA-ARS Ag100Pest)
PRJNA867719	SRA or Trace	Genome sequencing of Tribolium brevicornis (North American flour beetle) adult principal pseudohaplotype	Genome sequencing of Tribolium brevicornis (North American flour beetle) adult principal pseudohaplotype (USDA-ARS Ag100Pest)
PRJNA865805	Chromosomes	Genome sequencing of Tribolium castaneum GA2 (red flour beetle) adult male principal pseudohaplotype	Genome sequencing of Tribolium castaneum GA2 (red flour beetle) adult male principal pseudohaplotype (USDA-ARS Ag100Pest)
PRJNA865812	SRA or Trace	Genome sequencing of Tribolium castaneum Wakefield (red flour beetle) adult principal pseudohaplotype	Genome sequencing of Tribolium castaneum Wakefield (red flour beetle) adult principal pseudohaplotype (USDA-ARS Ag100Pest)
PRJNA867831	SRA or Trace	Genome sequencing of Trogoderma inclusum (larger cabinet beetle) adult principal pseudohaplotype	Genome sequencing of Trogoderma inclusum (larger cabinet beetle) adult principal pseudohaplotype (USDA-ARS Ag100Pest)
PRJNA867751	SRA or Trace	Genome sequencing of Typhaea stercorea (hairy fungus beetle) adult principal pseudohaplotype	Genome sequencing of Typhaea stercorea (hairy fungus beetle) adult principal pseudohaplotype (USDA-ARS Ag100Pest)
PRJNA804956	SRA or Trace	Helicoverpa zea genome sequencing	Helicoverpa zea genome sequencing (United States Department...)
PRJNA764225	SRA or Trace	HiFi sequencing of Vespa crabro for whole genome assembly	HiFi sequencing of Vespa crabro for whole genome assembly (United States Department...)
PRJNA767417	SRA or Trace	Lasioderma serricorne genome sequencing, principal pseudohaplotype	Lasioderma serricorne genome sequencing, principal pseudohaplotype (United States Department...)
PRJNA767393	Chromosomes	Latheticus oryzae	Genome sequencing of Latheticus oryzae adult male principal pseudohaplotype (United States Department...)
PRJNA816611	Contigs	Latheticus oryzae	Genome sequencing of Latheticus oryzae adult male alternate pseudohaplotype (USDA Ag100Pest)
PRJNA1089328	Contigs	Leptoglossus phyllopus	Genome sequencing of Leptoglossus phyllopus adult male alternate pseudohaplotype (USDA-ARS Ag100Pest)
PRJNA609967	No data links	Leuronota fagarae	Wild lime psyllid Genome sequencing and assembly (AgriVectors)
PRJNA540533	SRA or Trace	Lycorma delicatula	Lycorma delicatula Genome sequencing and assembly (USDA-ARS)
PRJNA862959	Chromosomes	Microplitis mediator	Genome sequencing of Microplitis mediator adult male haploid (USDA-ARS)
PRJNA802241	Chromosomes	Neodiprion fabricii	Neodiprion fabricii RefSeq Raw sequence reads (NCBI)
PRJNA802239	Chromosomes	Neodiprion pinetum	Neodiprion pinetum RefSeq Raw sequence reads (NCBI)
PRJNA767423	Chromosomes	Neodiprion pinetum genome sequencing	Neodiprion pinetum genome sequencing (United States Department...)
PRJNA832905	Chromosomes	Ornithodoros turicata	Ornithodoros turicata female genome sequencing and assembly, principal pseudohaplotype (United States Department...)
PRJNA1102374	Chromosomes	Ornithodoros turicata RefSeq BioProject	Ornithodoros turicata female genome sequencing and assembly, principal pseudohaplotype (NCBI)
PRJNA788923	SRA or Trace	Oryzaephilus surnamensis genome sequencing, principal pseudohaplotype	Oryzaephilus surnamensis genome sequencing, principal pseudohaplotype (United States Department...)
PRJNA860998	SRA or Trace	PacBio Iso-Seq transcriptome sequencing of Diorhabda carinulata tissues	PacBio Iso-Seq transcriptome sequencing of Diorhabda carinulata tissues (United States Department...)
PRJNA805283	SRA or Trace	PacBio Iso-Seq transcriptome sequencing of Schistocerca gregaria tissues	PacBio Iso-Seq transcriptome sequencing of Schistocerca gregaria tissues (United States Department...)
PRJNA804955	Chromosomes	Pectinophora gossypiella	Pectinophora gossypiella genome sequencing (United States Department...)
PRJNA836959	Contigs	Pectinophora gossypiella	Genome sequencing of Pectinophora gossypiella 4th instar female alternate pseudohaplotype (USDA Ag100 Pest)
PRJNA865299	Chromosomes	Pectinophora gossypiella	Pectinophora gossypiella RefSeq BioPorject (NCBI)
PRJNA788876	SRA or Trace	Proximity Ligation Genome for Helicoverpa zea (Lepidoptera: Noctuidae)	Proximity Ligation Genome for Helicoverpa zea (Lepidoptera: Noctuidae) (Colorado State University)
PRJNA861162	SRA or Trace	RNAseq of Diorhabda carinulata	RNAseq of Diorhabda carinulata (United States Department...)
PRJNA861163	SRA or Trace	RNAseq of Diorhabda sublineata	RNAseq of Diorhabda sublineata (United States Department...)
PRJNA598370	SRA or Trace	Rdo Transcriptome tissues	Rdo Transcriptome tissues (USDA)
PRJNA869756	Scaffolds	Refseq	Refseq (NCBI)
PRJNA782545	Chromosomes	Schistocerca gregaria	Schistocerca gregaria genome sequencing, principal pseudohaplotype (United States Department...)
PRJNA797116	Scaffolds	Schistocerca gregaria	Schistocerca gregaria genome sequencing, alternate pseudohaplotype (United States Department...)
PRJNA767382	SRA or Trace	Sitotroga cerealella genome sequencing, principal pseudohaplotype	Sitotroga cerealella genome sequencing, principal pseudohaplotype (United States Department...)
PRJNA782593	SRA or Trace	Stomoxys calcitrans genome sequencing, principal pseudohaplotype	Stomoxys calcitrans genome sequencing, principal pseudohaplotype (United States Department...)
PRJNA862272	No data links	Tetanops myopaeformis	Genome sequencing of Tetanops myopaeformis (sugar beet maggot) adult male alternate pseudohaplotype (USDA-ARS Ag100Pest)
PRJNA866666	Contigs	Tribolium castaneum	Genome sequencing of Tribolium castaneum GA2 (red flour beetle) adult male alternate pseudohaplotype (USDA-ARS Ag100Pest)
PRJNA1095480	Chromosomes	Tribolium castaneum	Tribolium castaneum RefSeq Raw sequence reads (NCBI)
PRJNA782491	SRA or Trace	Trogoderma granarium genome sequencing, principal pseudohaplotype	Trogoderma granarium genome sequencing, principal pseudohaplotype (United States Department...)
PRJNA782563	SRA or Trace	Trogoderma variabile genome sequencing, principal pseudohaplotype	Trogoderma variabile genome sequencing, principal pseudohaplotype (United States Department...)
PRJNA1029196	Contigs	Vanessa tameamea	Genome sequencing of Vanessa tameamea adult female alternate pseudohaplotype (United States Department...)
PRJNA1029243	Contigs	Vanessa tameamea	Vanessa tameamea isolate:Waianae Genome sequencing and assembly (United States Department...)
PRJNA1092285	Chromosomes	Vanessa tameamea	Vanessa tameamea RefSeq Raw sequence reads (NCBI)
PRJNA649643	Contigs	Vespa mandarinia	Vespa mandarinia alternate pseudohaplotype genome sequencing (USDA-ARS)
PRJNA649644	Contigs	Vespa mandarinia	Vespa mandarinia principal pseudohaplotype genome sequencing (USDA-ARS)
PRJNA656956	Contigs	Vespa mandarinia	Vespa mandarinia RefSeq Genome sequencing (NCBI)
PRJNA767493	SRA or Trace	Vespula pensylvanica genome sequencing, principal pseudohaplotype	Vespula pensylvanica genome sequencing, principal pseudohaplotype (United States Department...)

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Umbrella project

BioProject accession	Name	Title
PRJNA826836	Aethina tumida	Genome sequencing of Aethina tumida (small hive beetle) adult male (USDA Ag100Pest)
PRJNA1112820	Anabrus simplex	Genome sequencing of Anabrus simplex (Mormon cricket) Idaho adult female (United States Department...)
PRJNA1112822	Anabrus simplex	Genome sequencing of Anabrus simplex (Mormon cricket) Colorado adult female (United States Department...)
PRJNA950437	Anastrepha ludens	Genome sequencing of Anastrepha ludens adult female (Ag100Pest)
PRJNA812602	Anastrepha ludens	Genome sequencing of Anastrepha ludens adult male (United States Department...)

List all 25 'Umbrella project' projects...

BioProject accession	Name	Title
PRJNA826836	Aethina tumida	Genome sequencing of Aethina tumida (small hive beetle) adult male (USDA Ag100Pest)
PRJNA1112820	Anabrus simplex	Genome sequencing of Anabrus simplex (Mormon cricket) Idaho adult female (United States Department...)
PRJNA1112822	Anabrus simplex	Genome sequencing of Anabrus simplex (Mormon cricket) Colorado adult female (United States Department...)
PRJNA950437	Anastrepha ludens	Genome sequencing of Anastrepha ludens adult female (Ag100Pest)
PRJNA812602	Anastrepha ludens	Genome sequencing of Anastrepha ludens adult male (United States Department...)
PRJNA831860	Anthonomus grandis grandis	Genome sequencing of Anthonomus grandis grandis adult male (United States Department...)
PRJNA974432	Anthonomus grandis thurberiae	Genome sequencing of Anthonomus grandis thurberiae (United States Department...)
PRJNA814719	Curculio caryae	Genome sequencing of Curculio caryae adult female (United States Department...)
PRJNA943412	Cylas formicarius	Cylas formicarius genome sequencing (United States Department...)
PRJNA889358	Diorhabda carinata	Diorhabda carinata genome sequencing, (United States Department...)
PRJNA902378	Diorhabda carinulata	Diorhabda carinulata genome sequencing (United States Department...)
PRJNA888121	Diorhabda elongata	Diorhabda elongata genome sequencing (United States Department...)
PRJNA902370	Diorhabda sublineata	Genome sequencing of Diorhabda sublineata (subtropical tamarisk beetle) adult male (USDA Ag100Pest)
PRJNA1112847	Genome sequencing of Bactrocera oleae adult male	Genome sequencing of Bactrocera oleae adult male (USDA-ARS Ag100Pest)
PRJNA1112853	Genome sequencing of Diabrotica undecimpunctata adult male	Genome sequencing of Diabrotica undecimpunctata adult male (USDA-ARS Ag100Pest)
PRJNA1112846	Genome sequencing of Lycorma delicatula adult female principal pseudohaplotype	Genome sequencing of Lycorma delicatula adult female principal pseudohaplotype (USDA-ARS Ag100Pest)
PRJNA944226	Gnatocerus cornutus	Gnatocerus cornutus genome sequencing adult male (United States Department...)
PRJNA812600	Helicoverpa zea	Helicoverpa zea genome sequencing and assembly (United States Department...)
PRJNA1130954	Ostrinia nubilalis	Genome sequencing of Ostrinia nubilalis (European corn borer) bivoltine E pheromone adult female (USDA-ARS Ag100Pest)
PRJNA1130956	Ostrinia nubilalis	Genome sequencing of Ostrinia nubilalis (European corn borer) univoltine Z pheromone adult female (USDA-ARS Ag100Pest)
PRJNA1130957	Ostrinia nubilalis	Genome sequencing of Ostrinia nubilalis (European corn borer) bivoltine Z pheromone adult male (USDA-ARS Ag100Pest)
PRJNA949155	Plodia interpunctella	Plodia interpunctella isolate USDA-ARS_2022_Savannah genome sequencing (United States Department...)
PRJNA1086881	Strauzia longitudinalis	Genome sequencing of Strauzia longitudinalis adult male (USDA-ARS Ag100Pest)
PRJNA820855	Tribolium confusum	Genome sequencing of Tribolium confusum adult male (United States Department...)
PRJNA922191	Zeugodacus cucurbitae	Genome sequencing of Zeugodacus cucurbitae (melon fly) adult male (United States Department...)

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