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SRX3376043: RNA-seq of Paramormyrops kingsleyae: Fin
1 ILLUMINA (Illumina HiSeq 4000) run: 15.9M spots, 4.8G bases, 2Gb downloads

Design: tissue samples were taken from a multiple juvenile Paramormyrops kingsleyae collected in 2009 from Bambomo Creek (PKING1, PKING2, and PKING3; EOD for all specimens was P0-absent). Tissues sampled were: brain, kidney, electric organ, skeletal muscle, the skin along the flank (unenriched for electroreceptors), the skin of the face (enriched for electroreceptors), spinal cord, gonadal tissue, gill, spleen, pectoral fin, and swim bladder. Each tissue sample was dissected freshly into RNAlater, stored at 4ûC overnight, and then transferred to -20ûC until RNA isolation. RNA-isolation was performed using an RNA-easy Mini Kit for lipid tissues (Qiagen). Quality and concentration were assessed using a spectrophotometer and Qubit. RNA integrity was assessed using a BioAnalyzer (Agilent), all RNA samples sequenced had a RIN score >8 . Sequencing libraries were prepared using Illumina TruSeq Stranded mRNA Library Prep Kit LT.
Submitted by: Michigan State University
Study: Paramormyrops kingsleyae isolate:PKING1 Genome sequencing and assembly
show Abstracthide Abstract
We have developed a sequencing and assembly strategy use short-read Illumina genome sequencing to perform a de-novo assembly of the P. kingsleyae genome at 90x depth. A fully sequenced Paramormyrops genome will represent the first Osteoglossomorph genome, which is of central interest to those studying the evolution of vertebrate genomes. Osteoglossomorphs are the most ancestral group of teleost fishes, and are the first group to branch from other teleosts following the hypothesized teleost-specific whole genome duplication event. In addition to its utility for genome biologists, this would represent the first mormyrid electric fish genome, and second electric fish genome to be sequenced. This will provide the broader electric fish community with a powerful genomic resource for studies in endocrinology, neurobiology, and evolutionary biology. For the purposes of this specific project, the Paramormyrops reference genome will enhance the quality of comparative transcriptome analysis, and enable the comparison of low-depth genome resequencing sequences acquired from P. kingsleyae EOD types.
Sample:
SAMN08000822 • SRS2672298 • All experiments • All runs
Library:
Name: PKING3_FIN
Instrument: Illumina HiSeq 4000
Strategy: RNA-Seq
Source: TRANSCRIPTOMIC
Selection: Oligo-dT
Layout: PAIRED
Runs: 1 run, 15.9M spots, 4.8G bases, 2Gb
Run# of Spots# of BasesSizePublished
SRR626994715,923,4224.8G2Gb2018-01-25

ID:
4712708

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