|
| Status |
Public on Feb 10, 2022 |
| Title |
treat1 |
| Sample type |
SRA |
| |
|
| Source name |
L. plantarum_treated
|
| Organism |
Lactiplantibacillus plantarum |
| Characteristics |
strain: NMM.1
growth phase: Exponential phase cells
treatment: 5 μg/mL D3G-treated
|
| Treatment protocol |
Lactobacillus plantarum NMM.1 cells were recovered by centrifugation (5000 g, 10 min, 4 ℃), washed twice with saline magnesium buffer (100 mM NaCl, 8 mM MgSO4, 50 mM Tris–HCl, pH 8.0), and adjusted to an OD=2.0 with buffer containing 5μg/mL deoxynivalenol-3-glucoside
|
| Growth protocol |
A single colony of Lactobacillus plantarum NMM.1 from MRS agar plate was inoculated in a falcon tube containing MRS broth and grown 24 h at 37°C under dynamic incubation.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted using RNAiso Plus Kits (Takara, China) according to the manufacturer’s recommendation. To eliminate genomic DNA contamination, the DNase I (TaKara, China) was used.
RNA libraries were prepared for sequencing using standard Illumina protocols
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
HiSeq X Ten |
| |
|
| Data processing |
Illumina HiSeq X Ten (2×150bp) sequencer with two paired-end was used for sequencing
Sequenced reads were trimmed for adaptor sequence, mapped with reference genome Lactobacillus plantarum ATCC 14917 ENA| Accession: ACGZ02000000 by Bowtie
Software RSEM was used to quantitatively analyze gene expression levels respectively
Genome_build: ACGZ02000000
Supplementary_files_format_and_content: tab-delimited text files include FPKM values for every gene and every sample
|
| |
|
| Submission date |
Oct 15, 2021 |
| Last update date |
Feb 11, 2022 |
| Contact name |
Kailin Li |
| E-mail(s) |
likailin2018@sibs.ac.cn
|
| Organization name |
Chinese Academy of Sciences
|
| Department |
Shanghai Institute of Nutrtion and Health
|
| Lab |
CAS Key Laboratory of Nutrtion, Metabolism and Food Safety
|
| Street address |
Tian Ping
|
| City |
Shanghai |
| ZIP/Postal code |
200031 |
| Country |
China |
| |
|
| Platform ID |
GPL30863 |
| Series (1) |
| GSE185970 |
Transcriptome of Lactobacillus plantarum NMM.1 isolated from Inner Mongolia raw milk |
|
| Relations |
| BioSample |
SAMN22322300 |
| SRA |
SRX12630435 |
