|
Status |
Public on Sep 25, 2020 |
Title |
Glyc_spo rep 2 |
Sample type |
SRA |
|
|
Source name |
cells
|
Organism |
Schizosaccharomyces pombe |
Characteristics |
strain: 972h- carbon source: Glycerol : sodium acetate (10 :1) 2%(w/v) age: mid exponential growth culture
|
Treatment protocol |
YE medium was used changed carbon source in each treatment : glucose 2% and Glycerol : sodium acetate (10 :1) 2%(w/v)
|
Growth protocol |
liquid culture were incubated to mid exponential growth
|
Extracted molecule |
total RNA |
Extraction protocol |
Cells were collected in log phase and RNA later added and harvested to 5000g for 5 min. Pellet were frozen on -80°C. RNA was harvested using Trizol reagent and precipitated with isopropyl alcohol, samples were treated with DNAses an concentrate with RNA cleaner kit. RRNA were removed with Ribominus bacteria /yeast kit and Illumina TruSeq RNA Sample Prep Kit (Cat#FC-122-1001) was used with 1 ug of total RNA for the construction of sequencing libraries. 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 |
Base-calling with bcl2fastq2-2.15 alignment done with bowtie version 0.12.7 filter and manipulation with samtools 1.3 Frecuency count htseq-count version 0.6.0. last filter bedtools v2.25.0 Genome_build: E. coli K-12 MG1655 and S. pombe 972 h- Supplementary_files_format_and_content: raw counts of sequencing reads for the features of interest
|
|
|
Submission date |
Sep 26, 2019 |
Last update date |
Sep 25, 2020 |
Contact name |
Veronica Jimenez-Jacinto |
E-mail(s) |
vjimenez@ibt.unam.mx
|
Phone |
+52(777) 3291719
|
Organization name |
Universidad Nacional Autonoma de Mexico
|
Department |
Unidad Universitaria de Secuenciación Masiva y Bioinformática
|
Street address |
Av. Universidad 2001. Col. chamilpa
|
City |
Cuernavaca |
State/province |
Morelos |
ZIP/Postal code |
62130 |
Country |
Mexico |
|
|
Platform ID |
GPL20584 |
Series (1) |
GSE138088 |
Comparative analysis of global transcriptional profile of Escherichia coli and Schizosaccharomyces pombe in respiratory and fermentative growth: Inferring the evolution of analog circuits of post-transcriptional regulation |
|
Relations |
BioSample |
SAMN12859051 |
SRA |
SRX6913127 |