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SRX8455370: GSM4587931: M_tick2; Dermacentor marginatus; RNA-Seq
1 ILLUMINA (Illumina HiSeq 4000) run: 24.2M spots, 7.1G bases, 2.2Gb downloads

Submitted by: NCBI (GEO)
Study: Dermacentor marginatus female adults transcriptome
show Abstracthide Abstract
The Ixodidea tick Dermacentor marginatus is a vector of many pathogens wide spread in Eurasia. Study of gene targets of the tick species provides insight to find novel tick protective antigen for drug development and vaccine targets. To obtain a broader picture of gene sequences and changes in expression level, we aimed to characterize the whole body transcriptome in D. marginatus adult female after engorgement and long-term starvation using RNA-seq. We have assembled and analyzed transcriptome of D. marginatus females 5 days after ecdysis, 24 h after a blood meal, and 6 months under controlled experimental conditions. Sequencing produced 30251 unigenes, of which 32% were annotated using Trinity. Gene expression was compared among groups differed by status as newly molted, starved and engorged female adult ticks. Nearly 1/3 of the unigenes in each group were differentially expressed compared to the other two group, and we found that the most numerous were proteins involved in catalytic and binding activities and apoptosis. Selected up-regulated differentially expressed genes in each group associated to protein, lipids, carbohydrate and chitin metabolism. Blood feeding and long-term starvation also caused genes differentially expressed in the defense response and antioxidant response. Finding the sequence information and expression pattern would be helpful in understanding molecular physiology of D. marginatus, and provides information for anti-tick vaccine and drug development. Overall design: Nine samples are prepared for sequencing
Sample: M_tick2
SAMN15086212 • SRS6756899 • All experiments • All runs
Library:
Instrument: Illumina HiSeq 4000
Strategy: RNA-Seq
Source: TRANSCRIPTOMIC
Selection: cDNA
Layout: PAIRED
Construction protocol: Ticks were pulverized in liquid nitogen, then total RNA was extracted using Trizol reagent (Invitrogen, CA, USA) following the manufacturer's procedure. The total RNA quantity and purity were analysis of Bioanalyzer 2100 and RNA 6000 Nano LabChip Kit (Agilent, CA, USA) with RIN number >7.0. Poly(A) RNA was purified from total RNA(5ug) using poly-T oligo-attached magnetic beads by two rounds of purification. Then the left RNA was fragmented into small pieces using divalent cations under elevated temperature.The cleaved RNA fragments were reverse-transcribed to create the final cDNA library in accordance with the protocol for the TruSeq Stranded Total RNA HT Sample Prep Kit (Illumina, San Diego, USA).
Experiment attributes:
GEO Accession: GSM4587931
Links:
Runs: 1 run, 24.2M spots, 7.1G bases, 2.2Gb
Run# of Spots# of BasesSizePublished
SRR1190880724,188,4967.1G2.2Gb2020-11-18

ID:
10992367

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