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Series GSE141668 Query DataSets for GSE141668
Status Public on Dec 10, 2019
Title Transcriptional analysis effect of excess sugar and lipid on the growth and development of Caenorhabditis elegan
Organism Caenorhabditis elegans
Experiment type Expression profiling by high throughput sequencing
Summary Purpose:We used transcriptome sequencing to study the mechanism of sugar and lipid excesses on nematode growth and development.
Methods:Nematodes grew to L4 phase and collected nematodes from different treatment groups, including control group without any treatment, 400 mM sucrose, 500 ug/ml stearic acid, co-treatment with sucrose and stearic acid, and co-treatment with resveratrol-sucrose-stearic acid, 3 replicates per group. Extract total RNA, detect RNA quality, library preparation, sequencing, and analyze data
Results:Reads were obtained for each sample using Illumina Hiseq X Ten sequencing. After discarding the low-quality reads, corresponding to 48 million clean reads obtained from sequencing were mapped on the reference genome of C. elegans (GCF_000002985.6). High Pearson's correlation coefficients of FPKM distribution between the three biological replicates for each sample were detected (R2 = 0.93-0.99, P < 0.001) , reflecting the robustness of our library preparation from nematodes’ RNA samples.Compared with control group, there were 905 DEGs in the sucrose group , of which 387 genes were upregulated and 518 genes were downregulated. Similarly, there were 698 DEGs in the stearic acid group , including 367 upregulated and 331 downregulated DEGs. Compared with control group, there were 1014 DEGs in group SUC-STE, including 476 upregulated DEGs, and 538 downregulated DEGs. Moreover, in contrast to the sucrose-stearic acid group, there were 10 DEGs after treated with resveratrol, including 5 upregulated DEGs and 5 downregulated DEGs.
 
Overall design Deep-sequencing using Illumina, in triplicate, yielded L4 stage nematode mRNA expression profiles without treatment, sugar and lipid treatment alone, sugar and lipid co-treatment, and resveratrol-sugar-lipid co-treatment.
 
Contributor(s) Wang X, Zhang L
Citation(s) 32015763
Submission date Dec 09, 2019
Last update date Feb 10, 2020
Contact name Xiong Wang
E-mail(s) Nobita_Wang@aliyun.com
Phone 18379141626
Organization name China Agricultural University
Department College of Food Science and Nutritional Engineering
Street address No. 17, Qinghua East Road, Haidian District, Beijing
City Beijing
ZIP/Postal code 100083
Country China
 
Platforms (1)
GPL13657 Illumina HiSeq 2000 (Caenorhabditis elegans)
Samples (15)
GSM4210842 Control rep1
GSM4210843 Control rep2
GSM4210844 Control rep3
Relations
BioProject PRJNA594361
SRA SRP235274

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE141668_Gene_full_table.xls.gz 3.5 Mb (ftp)(http) XLS
GSE141668_control_vs_ste.annotation.xls.gz 87.0 Kb (ftp)(http) XLS
GSE141668_control_vs_suc-ste.annotation.xls.gz 127.4 Kb (ftp)(http) XLS
GSE141668_control_vs_suc.annotation.xls.gz 113.9 Kb (ftp)(http) XLS
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Raw data are available in SRA
Processed data are available on Series record

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