Detection of Nanophyetus salmincola in water, snails and fish tissues by quantitative PCR

The data are used to support the development and validation of two quantitative polymerase chain reaction (qPCR) assays to detect the parasite Nanophyetus salmincola DNA in water samples and fish and snail tissues. The data link to a series of experiments that are described in the publications. Experiment 1 defines the linearity and detection limits of the assays. Experiment 2 assesses the utility of the assays to detect N. salminicola waterborne cercaria in one liter volumes of water. Experiment 4 assesses the detection of N. salminicola waterborne cercaria in small volumes (50 microliters). Experiments 5 and 6 assesses the within and between run repeatability of the assays. Experiment 7 assesses the diagnostic...

Categories: Data; Tags: DNA probe analysis, Disease research, USGS Science Data Catalog (SDC), Washington

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...

Tags: Class Reptilia, DNA sequencing, Earth, Oceans, Atlantic, North Atlantic, Earth, Oceans, Pacific, Family Cheloniidae, All tags... Family Herpesviridae, Florida, Indian River County, Martin County, Sarasota, Genetic Diversity, Genetics, 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 Science Data Catalog (SDC), Virology, Wildlife Disease, biota, disease research, endangered species, genetics, marine biology, polymerase chain reaction, reptiles, sea turtles, virology, viruses, Fewer tags