|
| Status |
Public on Nov 14, 2018 |
| Title |
TJ19: Tomato juice |
| Sample type |
SRA |
| |
|
| Source name |
Tomato juice
|
| Organism |
Lactiplantibacillus plantarum |
| Characteristics |
strain: TJ19
isolation source: Tomato juice
|
| Growth protocol |
L. plantarum strains were cultivated on nine model media (bee and D. melanogaster intestine extracts [BE, DE], fecal omnivore and vegan extracts [FE_O, FE_V], olive extract [OE], tomato and pineapple juices [TJ, PJ], wheat flour hydrolysate [WFH], and cheese broth [CB])
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA libraries were prepared for sequencing using standard Illumina protocols
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NextSeq 500 |
| |
|
| Data processing |
Sequenced reads were trimmed for adaptor sequence, and masked for low-complexity or low-quality sequence, then mapped to hg19 whole genome using TopHat
Reads Per Kilobase of exon per Megabase of library size (RPKM) were calculated using GFOLD software.
Genome_build: hg19
Supplementary_files_format_and_content: tab-delimited text files include RPKM values for each Sample ...
|
| |
|
| Submission date |
Jun 07, 2018 |
| Last update date |
Nov 14, 2018 |
| Contact name |
pasquale filannino |
| E-mail(s) |
pasquale.filannino1@uniba.it
|
| Organization name |
Università degli Studi di Bari “Aldo Moro”
|
| Department |
Dipartimento di Scienze del Suolo
|
| Lab |
della Pianta e degli Alimenti - Di.S.S.P.A
|
| Street address |
Via Amendola, 165/A
|
| City |
BARI |
| ZIP/Postal code |
70126 |
| Country |
Italy |
| |
|
| Platform ID |
GPL25156 |
| Series (1) |
| GSE115448 |
How Lactobacillus plantarum Shapes its Transcriptome in Response to Contrasting Habitats |
|
| Relations |
| BioSample |
SAMN09378926 |
| SRA |
SRX4179748 |
