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Status |
Public on Nov 01, 2023 |
Title |
CM2 |
Sample type |
SRA |
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Source name |
Testis tissue
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Organism |
Oreochromis niloticus |
Characteristics |
tissue: Testis tissue genotype: control
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Treatment protocol |
Introduction of antisense RNA fragments: First, 1.5 mL solution for promoting the opening of fertilization hole (each liter of water contained 6 g of sodium chloride, 0.1 g of potassium chloride, 0.1 g of calcium chloride, and 0.1 g of sodium bicarbonate, 0.1 g of sodium dihydrogen phosphate and 1.2 g of glucose) was added respectively into the stainless steel basin where the eggs were placed. The opening time of the egg fertilization hole could be prolonged and the antisense RNA fragments could be fully introduced by using the chemical solution that obtained above. Then 0.8 mL of transfection reagent was added. The stainless steel basin was gently shaken for 15 min to make the antisense RNA fragment enter the eggs through the fertilization hole. In negative control group, 0.8 mL of transfection reagent containing blank plasmid was added according to the above operation. In control group, 0.8 mL of transfection reagent containing ultrapure water was added according to the above operation.
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Growth protocol |
The newly-hatched larvae were placed and fed in a small water circulating system for 30 days, then the feeding larvae were transferred to a large water circulating system for culturing. The culture cycle was a 150-day period. The fish were stopped feeding for 1 day before the end of the experiment, and then the body shape of the fish, sexual organs, and gonads were photographed. The blood was drawn from tail vein to extract serum for hormone determination, and gonadal weight was weighed. At the same time, gonadal tissues were selected for HE staining, related gene quantification and protein level determination.
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Extracted molecule |
total RNA |
Extraction protocol |
Total RNA was isolated and purified using TRIzol reagent (Invitrogen, Carlsbad, CA, USA) following the manufacturer's procedure RNA libraries were prepared for sequencing using standard Illumina protocols
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Library strategy |
RNA-Seq |
Library source |
transcriptomic |
Library selection |
cDNA |
Instrument model |
Illumina NovaSeq 6000 |
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Description |
Testis tissue of tilapia during sexual maturity
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Data processing |
Using the Illumina paired-end RNA-seq approach we aligned reads of all samples to the reference genome using HISAT package StringTie and Ballgown was used to estimate the expression levels of all transcripts. StringTie was used to perform expression level for mRNAs by calculating FPKM The differentially expressed mRNAs and genes were selected with log2 (fold change) >1 or log2 (fold change) <-1 and with statistical significance (p value < 0.05) by R package – Ballgown. Genome_build: http://asia.ensembl.org/Oreochromis_niloticus/Info/Index Supplementary_files_format_and_content: xls include FPKM values for each Sample
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Submission date |
Nov 09, 2020 |
Last update date |
Nov 01, 2023 |
Contact name |
Jun Qiang |
E-mail(s) |
qiangj@ffrc.cn
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Organization name |
Freshwater Fisheries Research Center, Chinese Academy of Fishery Sciences
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Street address |
9 Shanshi East road
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City |
Wuxi |
State/province |
Jiangsu |
ZIP/Postal code |
214081 |
Country |
China |
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Platform ID |
GPL29385 |
Series (1) |
GSE161135 |
Antisense RNA technology induces the loss of function of steroidogenic factor 1 leading to abortion of tilapia |
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Relations |
BioSample |
SAMN16710329 |
SRA |
SRX9463292 |
Supplementary data files not provided |
SRA Run Selector |
Raw data are available in SRA |
Processed data are available on Series record |
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