Entamoeba moshkovskii inter-species experiment transcriptome replicat... - SRA

SRX13162055: Entamoeba moshkovskii inter-species experiment transcriptome replicate 2
1 ILLUMINA (Illumina HiSeq 2000) run: 112.2M spots, 5G bases, 3.2Gb downloads

Design: All strains were cultured in axenic media. E. histolytica strain HM1: IMSS was cultured in TYI-S-33 medium at 37C; E. moshkovskii strain Laredo was cultured in LYI-S-2 medium at room temperature; E. dispar strain SAW 760 was cultured in LYI medium at 37C and E. invadens strain IP-1 was cultured in TYI-S-33 medium at 25 C. Total RNA was extracted from approximately 1106 of trophozoites (with each culture performed in triplicates) of using Trizol (Invitrogen). The polyA fraction was purified from 10 to 100 g of total RNA using Dynabeads according to the manufacturers instructions (Thermofisher ref. 28152103011150). All libraries were purified on a 5% TBE gel (Biorad, # 456-5013) and were quantified by Bioanalyzer DNA High Sensitivity Chips (Agilent, # 5065-4626). Sequencing was performed on HiSeq-2000 (Illumina) in a multiplexed 51+7 nucleotide single-end read using a TruSeq SR Cluster kit v3 cBot HS (Illumina, # GD- 401-3002) and a TruSeq SBS kit v3 HS 50 cycles (Illumina, # FC-401-3002). FASTQ sequence files were generated using CASAVA 1.8.2 (Illumina) and adapter sequences with trimmed using AlienTrimmer [23912058] (version 0.4.0). Reads shorter than 20 nucleotides were discarded.

Submitted by: Institut Pasteur

Study: RNA sequencing reveals widespread transcription of natural antisense RNAs in Entamoebidae species

PRJNA781395 • SRP346673 • All experiments • All runs

show Abstracthide Abstract

Entamoeba is a genus of Amoebozoa, including the intestinal colonizing pathogenic species Entamoeba histolytica. To understand the basis of gene regulation in E. histolytica from an evolutionary perspective, we have profiled the transcriptomes of its closely related species E. dispar, E. moshkovskii and E. invadens. Interestingly, we observed the enrichment of antisense transcription in genes involving in several processes that are common to species infecting the human intestine, e.g. metabolism of phospholipids. These results suggested a potentially conserved and compact gene regulatory system in Entamoeba.

Sample: Entamoeba moshkovskii inter-species experiment transcriptome

SAMN23247228 • SRS11093449 • All experiments • All runs

Organism: Entamoeba moshkovskii

Library:

Name: EMO_standard_2

Instrument: Illumina HiSeq 2000

Strategy: RNA-Seq

Source: TRANSCRIPTOMIC

Selection: other

Layout: SINGLE

Runs: 1 run, 112.2M spots, 5G bases, 3.2Gb

Run	# of Spots	# of Bases	Size	Published
SRR16971201	112,168,934	5G	3.2Gb	2021-12-01

ID:: 17973448

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