Targeted amplicon resequencing of chelonid alphaherpesvirus 5 from tumor samples collected from Chelonia mydas (green turtle) inhabiting Hawaiian and Florida coastal waters
The files in this data release are the processed DNA consensus sequence alignment files for the chelonid herpesvirus 5 (ChHV-5) genome plus 66 open reading frames representing protien-coding genes. DNA was extracted from tumor biopsies from green sea turtles (Chelonias mydas) with fibropapillomatosis sampled from Florida and Hawaii coastal waters. We used high-throughput short-read sequencing (Illumina MiSeq and Ion Torrent Personal Genome Machine) of long-range PCR products amplified from tumor tissue using primers designed from the single available ChHV5 reference genome from a Hawaii green sea turtle. The raw sequence data is available at the NCBI Sequence Read Archive under bioproject number PRJNA360405, including biosample numbers SAMN06210144- SAMN06210150.
Complete Metadata
| accessLevel | public |
|---|---|
| bureauCode |
[
"010:12"
]
|
| contactPoint |
{
"fn": "Cheryl Morrison",
"@type": "vcard:Contact",
"hasEmail": "mailto:cmorrison@usgs.gov"
}
|
| description | The files in this data release are the processed DNA consensus sequence alignment files for the chelonid herpesvirus 5 (ChHV-5) genome plus 66 open reading frames representing protien-coding genes. DNA was extracted from tumor biopsies from green sea turtles (Chelonias mydas) with fibropapillomatosis sampled from Florida and Hawaii coastal waters. We used high-throughput short-read sequencing (Illumina MiSeq and Ion Torrent Personal Genome Machine) of long-range PCR products amplified from tumor tissue using primers designed from the single available ChHV5 reference genome from a Hawaii green sea turtle. The raw sequence data is available at the NCBI Sequence Read Archive under bioproject number PRJNA360405, including biosample numbers SAMN06210144- SAMN06210150. |
| distribution |
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"title": "Original Metadata",
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|
| identifier | http://datainventory.doi.gov/id/dataset/USGS_59c01bede4b091459a5e0aaa |
| keyword |
[
"Class Reptilia",
"DNA sequencing",
"Earth, Oceans, Atlantic, North Atlantic",
"Earth, Oceans, Pacific",
"Family Cheloniidae",
"Family Herpesviridae",
"Florida, Indian River County, Martin County, Sarasota",
"Genetic Diversity",
"Genus Chelonia",
"Genus Scutavirus",
"Green Sea Turtle",
"Hawaii, Hilo",
"Hawaii, Maui County 2",
"Hawaii, Oahu, Honolulu County",
"Infrakingdom Deuterostomia",
"Infraphylum Gnathostomata",
"Kingdom Animalia",
"Order Herpesvirales",
"Order Testudines",
"Phylum Chordata",
"Species Chelonia mydas",
"Species Chelonid alphaherpesvirus 5",
"Subfamily Alpheherpesvirinae",
"Subfamily Cheloniinae",
"Subkingdom Bilateria",
"Suborder Cryptodira",
"Subphylum Vertebrata",
"Superclass Tetrapoda",
"Superfamily Chelonioidea",
"USGS:59c01bede4b091459a5e0aaa",
"Virology",
"biota",
"disease research",
"endangered species",
"genetics",
"marine biology",
"polymerase chain reaction",
"reptiles",
"sea turtles",
"virology",
"viruses"
]
|
| modified | 2020-08-21T00:00:00Z |
| publisher |
{
"name": "U.S. Geological Survey",
"@type": "org:Organization"
}
|
| spatial | -158.90625000000003, 17.97873309555617, -68.90625000000001, 30.751277776257812 |
| theme |
[
"Geospatial"
]
|
| title | Targeted amplicon resequencing of chelonid alphaherpesvirus 5 from tumor samples collected from Chelonia mydas (green turtle) inhabiting Hawaiian and Florida coastal waters |
