|
| Status |
Public on Dec 09, 2019 |
| Title |
B_breve_CLA_2A |
| Sample type |
SRA |
| |
|
| Source name |
B_breve_CLA
|
| Organism |
Bifidobacterium breve DSM 20213 = JCM 1192 |
| Characteristics |
treatment: MRS-cys-linoleic acid
|
| Growth protocol |
MRS-cys, MRS-cys-linoleic acid
|
| Extracted molecule |
total RNA |
| Extraction protocol |
acidic-phenol/guanidine-isothiocyanate protocol
1)mRNA enrichment: Oligo dT Selection or rRNA depletion;2)RNA fragment and reverse transcription: Fragment the RNA and reverse transcription to double-strand cDNA (dscDNA) by N6 random primer;3)End repair, add A tailing and adaptor ligation:The synthesized cDNA was subjected to end-repair and then was 3’ adenylated. Adaptors were ligated to the ends of these 3’ adenylated cDNA fragments;4)PCR amplification:The ligation products were purified and many rounds of PCR amplification were performed to enrich the purified cDNA template using PCR primer;5)Denature and cyclization:Denature the PCR product by heat and the single strand DNA is cyclized by splint oligo and DNA ligase;6) Sequencing on BGISEQ-500 platform.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
BGISEQ-500 |
| |
|
| Description |
replicate 2
CLA_2A
|
| Data processing |
SOAPnuke
FASTQ
HISAT
Bowtie2
RSEM
Genome_build: Bifbre
Supplementary_files_format_and_content: AllSamples.GeneExpression.FPKM.txt
|
| |
|
| Submission date |
Dec 09, 2019 |
| Last update date |
Dec 10, 2019 |
| Contact name |
Maria Luisa Callegari |
| E-mail(s) |
[email protected]
|
| Organization name |
Università Cattolica del Sacro Cuore
|
| Department |
DISTAS
|
| Lab |
Microbiology
|
| Street address |
via Emilia Parmense
|
| City |
Piacenza |
| State/province |
Piacenza |
| ZIP/Postal code |
29122 |
| Country |
Italy |
| |
|
| Platform ID |
GPL27650 |
| Series (1) |
| GSE139284 |
Effect of linoleic acid on gut-derived Bifidobacterium breve DSM 20213: a transcriptomic approach |
|
| Relations |
| BioSample |
SAMN13513291 |
| SRA |
SRX7291036 |
