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RNASeq Schistosoma mansoni

Schistosoma mansoni - public RNASeq studies

Table of Contents

Analysed

ERP000427: Schistosoma mansoni transcriptomics at different life stages

Wellcome Sanger Institute

High-throughput sequencing of life stages and tissues of the flatworm Schistosoma mansoni to be used for further gene editing, gene finding and transcriptome analysis
A systematically improved high quality genome and transcriptome of the human blood fluke Schistosoma mansoni. (Protasio .. Berriman, 2012)
E-MTAB-451 in ArrayExpress

Design: 3 conditions

Condition num. replicates Developmental stage Strain
24 hour schistosomule 3 24 hour schistosomule NMRI
3 hour schistosomule 3 3 hour schistosomule NMRI
Cercariae 3 Cercariae NMRI

ERP002113: Praziquantel mode of action and resistance

Wellcome Sanger Institute

The drug Praziquantel is the most commonly used drug for parasitic flatworms. It is currently being increasingly used in mass drug administration programmes, raising concerns over whether resistance will develop. Although widely used, its mode of action was until very recently uncertain. This study will investigate the praziquantel mode of action and resistance by sequencing the transcriptomes of Dugesia japonica and different stages and strains of S. mansoni.

Design: 48 conditions

Condition num. replicates Developmental stage Organism part Sex Strain Timepoint Treatment
adult females LE 3 adult whole organism female LE
adult females LE, 1 hour 3 adult whole organism female LE 1 hour Praziquantel
adult females LE, 12 hours 3 adult whole organism female LE 12 hours Praziquantel
adult females LE, 24 hours 3 adult whole organism female LE 24 hours Praziquantel
adult females LE, 3 hours 3 adult whole organism female LE 3 hours Praziquantel
adult females LEPZQ 3 adult whole organism female LEPZQ
adult females LEPZQ, 1 hour 3 adult whole organism female LEPZQ 1 hour Praziquantel
adult females LEPZQ, 12 hours 3 adult whole organism female LEPZQ 12 hours Praziquantel
adult females LEPZQ, 24 hours 3 adult whole organism female LEPZQ 24 hours Praziquantel
adult females LEPZQ, 3 hours 3 adult whole organism female LEPZQ 3 hours Praziquantel
adult females NMRI 3 adult whole organism female NMRI
adult females NMRI, 12 hours 3 adult whole organism female NMRI 12 hours Praziquantel
adult females NMRI, 24 hours 3 adult whole organism female NMRI 24 hours Praziquantel
adult females NMRI, 3 hours 3 adult whole organism female NMRI 3 hours Praziquantel
adult males LE 3 adult whole organism male LE
adult males LE, 1 hour 3 adult whole organism male LE 1 hour Praziquantel
adult males LE, 12 hours 3 adult whole organism male LE 12 hours Praziquantel
adult males LE, 24 hours 3 adult whole organism male LE 24 hours Praziquantel
adult males LE, 3 hours 3 adult whole organism male LE 3 hours Praziquantel
adult males LEPZQ 3 adult whole organism male LEPZQ
adult males LEPZQ, 1 hour 3 adult whole organism male LEPZQ 1 hour Praziquantel
adult males LEPZQ, 12 hours 3 adult whole organism male LEPZQ 12 hours Praziquantel
adult males LEPZQ, 24 hours 3 adult whole organism male LEPZQ 24 hours Praziquantel
adult males LEPZQ, 3 hours 3 adult whole organism male LEPZQ 3 hours Praziquantel
adult males NMRI 3 adult whole organism male NMRI
adult males NMRI, 12 hours 3 adult whole organism male NMRI 12 hours Praziquantel
adult males NMRI, 24 hours 3 adult whole organism male NMRI 24 hours Praziquantel
adult males NMRI, 3 hours 3 adult whole organism male NMRI 3 hours Praziquantel
adult males and females LE 3 adult whole organism pooled male and female LE
adult males and females LE, 1 hour 3 adult whole organism pooled male and female LE 1 hour Praziquantel
adult males and females LE, 12 hours 3 adult whole organism pooled male and female LE 12 hours Praziquantel
adult males and females LE, 24 hours 3 adult whole organism pooled male and female LE 24 hours Praziquantel
adult males and females LE, 3 hours 3 adult whole organism pooled male and female LE 3 hours Praziquantel
adult males and females LEPZQ 3 adult whole organism pooled male and female LEPZQ
adult males and females LEPZQ, 1 hour 3 adult whole organism pooled male and female LEPZQ 1 hour Praziquantel
adult males and females LEPZQ, 12 hours 3 adult whole organism pooled male and female LEPZQ 12 hours Praziquantel
adult males and females LEPZQ, 24 hours 3 adult whole organism pooled male and female LEPZQ 24 hours Praziquantel
adult males and females LEPZQ, 3 hours 3 adult whole organism pooled male and female LEPZQ 3 hours Praziquantel
adult males and females NMRI 3 adult whole organism pooled male and female NMRI
adult males and females NMRI, 12 hours 3 adult whole organism pooled male and female NMRI 12 hours Praziquantel
adult males and females NMRI, 24 hours 3 adult whole organism pooled male and female NMRI 24 hours Praziquantel
adult males and females NMRI, 3 hours 3 adult whole organism pooled male and female NMRI 3 hours Praziquantel
adult males and females NMRI, 30 minutes 3 adult whole organism pooled male and female NMRI 30 minutes Praziquantel
juvenile males and females NMRI 3 juvenile whole organism pooled male and female NMRI
juvenile males and females NMRI, 12 hours 3 juvenile whole organism pooled male and female NMRI 12 hours Praziquantel
juvenile males and females NMRI, 24 hours 3 juvenile whole organism pooled male and female NMRI 24 hours Praziquantel
juvenile males and females NMRI, 3 hours 3 juvenile whole organism pooled male and female NMRI 3 hours Praziquantel
juvenile males and females NMRI, 30 minutes 3 juvenile whole organism pooled male and female NMRI 30 minutes Praziquantel

ERP014584: Schistosoma mansoni RNASeq male and female characterisation

Wellcome Sanger Institute

Analysis of gene expression levels between male and female Schistosoma mansoni worms.
MiR-277/4989 regulate transcriptional landscape during juvenile to adult transition in the parasitic helminth Schistosoma mansoni. (Protasio .. Berriman, 2017)

Design: 18 conditions

Condition num. replicates Age Host infection Sex
18 days post infection, single sex infection, female 2 18 days post infection single sex female
18 days post infection, single sex infection, male 3 18 days post infection single sex male
21 days post infection, mixed sex infection, female 4 21 days post infection mixed sex female
21 days post infection, mixed sex infection, male 4 21 days post infection mixed sex male
21 days post infection, single sex infection, female 5 21 days post infection single sex female
21 days post infection, single sex infection, male 4 21 days post infection single sex male
28 days post infection, mixed sex infection, female 4 28 days post infection mixed sex female
28 days post infection, mixed sex infection, male 4 28 days post infection mixed sex male
28 days post infection, single sex infection, female 3 28 days post infection single sex female
28 days post infection, single sex infection, male 3 28 days post infection single sex male
35 days post infection, mixed sex infection, female 3 35 days post infection mixed sex female
35 days post infection, mixed sex infection, male 3 35 days post infection mixed sex male
35 days post infection, single sex infection, female 3 35 days post infection single sex female
35 days post infection, single sex infection, male 4 35 days post infection single sex male
38 days post infection, mixed sex infection, female 3 38 days post infection mixed sex female
38 days post infection, mixed sex infection, male 3 38 days post infection mixed sex male
38 days post infection, single sex infection, female 4 38 days post infection single sex female
38 days post infection, single sex infection, male 6 38 days post infection single sex male

ERP016356: S mansoni male and female adult worm reproductive organs pre and post pairing

Wellcome Sanger Institute

Schistosome sex matters: a deep view into gonad-specific and pairing-dependent transcriptomes reveals a complex gender interplay. (Lu .. Grevelding, 2016)

Design: 8 conditions

Condition num. replicates Developmental stage Host infection Organism part Sex Strain
ovaries, mixed sex infection 3 adult mixed sex ovaries female Liberia
ovaries, single sex infection 2 adult single sex ovaries female Liberia
testes, mixed sex infection 3 adult mixed sex testes male Liberia
testes, single sex infection 3 adult single sex testes male Liberia
whole female, mixed sex infection 3 adult mixed sex whole organism female Liberia
whole female, single sex infection 3 adult single sex whole organism female Liberia
whole male, mixed sex infection 3 adult mixed sex whole organism male Liberia
whole male, single sex infection 3 adult single sex whole organism male Liberia

ERP017466: High throughput sequencing of life stages tissues of Schistosoma mansoni

Wellcome Sanger Institute

High-throughput sequencing of life stages and tissues of the flatworm Schistosoma mansoni will be used for further gene editing, gene finding and transcriptome analysis..

Design: 3 conditions

Condition num. replicates Developmental stage Strain
first stage sporocyst 1 first stage sporocyst NMRI
miracidia 3 miracidia NMRI
second stage sporocyst 3 second stage sporocyst NMRI

ERP104993: Characterising Schistosoma mansoni stem cell populations

Wellcome Sanger Institute

Using RNAseq to characterise bulk preparations from different Schistosoma mansoni cells and somatic (control) cells to find new markers and putative factors involved in controlling their growth and differentiation.

Design: 9 conditions

Condition num. replicates Cell separation method Cell type Developmental stage Sex Strain
Neoblast, male 3 FACS Neoblast adult male NMRI
S1, female 3 FACS S1 adult female NMRI
S2-4, female 3 FACS S2-4 adult female NMRI
TSP2 High, male 3 FACS TSP2 High adult male NMRI
TSP2 Low, male 3 FACS TSP2 Low adult male NMRI
remaining cells after irradiation, female 3 FACS remaining cells after irradiation adult female NMRI
remaining cells after irradiation, male 3 FACS remaining cells after irradiation adult male NMRI
remaining cells, female 3 FACS remaining cells adult female NMRI
remaining cells, male 3 FACS remaining cells adult male NMRI

ERP113121: RNA seq of intra mammalian developmental stages of Schistosoma mansoni

Wellcome Sanger Institute

Design: 6 conditions

Condition num. replicates Strain Days post infection
13 dpi 3 Puerto Rican 13 dpi
17 dpi 3 Puerto Rican 17 dpi
21 dpi 3 Puerto Rican 21 dpi
28 dpi 3 Puerto Rican 28 dpi
35 dpi 3 Puerto Rican 35 dpi
6 dpi 1 Puerto Rican 6 dpi

SRP017443: Adult stem cells in the human parasite Schistosoma mansoni

University of Illinois at Urbana Champaign

Adult somatic stem cells in the human parasite Schistosoma mansoni. (Collins .. Newmark, 2013)

Design: 2 conditions

Condition num. replicates Age Culture conditions Irradiation Organism Organism part Sex Strain
Irradiated 3 Perfused from mice 43 days post-infection in vitro 48 hours 200 Gy Schistosoma mansoni posterior somatic tissue Male NMRI
Non-irradiated 3 Perfused from mice 43 days post-infection in vitro 48 hours None Schistosoma mansoni posterior somatic tissue Male NMRI

SRP067194: Stem cells rejuvenate the schistosome host-parasite interface

Pharmacology, UT Southwestern

Stem cell progeny contribute to the schistosome host-parasite interface. (Collins .. Newmark, 2016)

Design: 5 conditions

Condition num. replicates Developmental stage Organism part Sex Strain Treatment
Control RNAi 3 adult organism without head or testes male NMRI Control RNAi treated
Irradiation 200 Gy 3 adult organism without head or testes male NMRI Irradiated with 200 Gy
No treatment 3 adult organism without head or testes male NMRI
fgfrA(RNAi) 3 adult organism without head or testes male NMRI fgfrA RNAi treated
h2b(RNAi) 2 adult organism without head or testes male NMRI h2b RNAi treated

SRP071285: Schistosoma mansoni sex determination

University of Perpignan Via Domitia

Sex-Biased Transcriptome of Schistosoma mansoni: Host-Parasite Interaction, Genetic Determinants and Epigenetic Regulators Are Associated with Sexual Differentiation. (Picard .. Cosseau, 2016)

Design: 10 conditions

Condition num. replicates Developmental stage Host infection Organism part Sex
cercariae, female 2 cercariae single sex whole organism female
cercariae, male 2 cercariae single sex whole organism male
immature adult, female 2 immature adult single sex whole organism female
immature adult, male 2 immature adult single sex whole organism male
schistosomule stage 1, female 2 schistosomule stage 1 single sex whole organism female
schistosomule stage 1, male 2 schistosomule stage 1 single sex whole organism male
schistosomule stage 2, female 2 schistosomule stage 2 single sex whole organism female
schistosomule stage 2, male 2 schistosomule stage 2 single sex whole organism male
schistosomule stage 3, female 2 schistosomule stage 3 single sex whole organism female
schistosomule stage 3, male 2 schistosomule stage 3 single sex whole organism male

SRP093920: Schistosoma mansoni strain:LE Transcriptome or Gene expression

Rene Rachou Research Center

Smp38 MAP Kinase Regulation in Schistosoma mansoni: Roles in Survival, Oviposition, and Protection Against Oxidative Stress. (Avelar .. MourĂ£o, 2019)

Design: 4 conditions

Condition num. replicates Biomaterial provider Developmental stage Organism part Sex Strain Treatment
Control A 3 Moluscario Lobato Paraense schistosomula whole organism pooled male and female LE Control A
Control B 3 Moluscario Lobato Paraense schistosomula whole organism pooled male and female LE Control B
GFP-dsRNA 3 Moluscario Lobato Paraense schistosomula whole organism pooled male and female LE GFP-dsRNA
mCherry-dsRNA 3 Moluscario Lobato Paraense schistosomula whole organism pooled male and female LE mCherry-dsRNA

SRP096638: RNA-seq for the study of the effect of histone modifying enzymes (HMEs) inhibitors on gene expression in Schistosoma mansoni

University of Sao Paulo - Institute of Chemistry

Inhibition of histone methyltransferase EZH2 in Schistosoma mansoni in vitro by GSK343 reduces egg laying and decreases the expression of genes implicated in DNA replication and noncoding RNA metabolism. (Pereira .. Verjovski-Almeida, 2018)

Design: 19 conditions

Condition num. replicates Developmental stage Treatment Concentration Host Sex Strain Organism part
BH female 3 adult Homo sapiens female BH whole organism
BH female, GSK343 at 20uM 3 adult GSK343 20uM Homo sapiens female BH whole organism
BH male 3 adult Homo sapiens male BH whole organism
BH male, GSK343 at 20uM 3 adult GSK343 20uM Homo sapiens male BH whole organism
BH schistosomula 4 schistosomula Homo sapiens BH whole organism
BH schistosomula, GSK343 at 20uM 4 schistosomula GSK343 20uM Homo sapiens BH whole organism
Female 4 Mesocricetus auratus female whole organism
Female, MC3935 treated 4 MC395 Mesocricetus auratus female whole organism
Male 4 Mesocricetus auratus male whole organism
Male, MC3935 treated 4 MC395 Mesocricetus auratus male whole organism
NMRI female 3 adult Homo sapiens female puerto rican whole organism
NMRI female, TH65 at 05uM 3 adult TH65 5uM Homo sapiens female puerto rican whole organism
NMRI female, TH65 at 10uM 3 adult TH65 10uM Homo sapiens female puerto rican whole organism
NMRI female, TH65 at 20uM 3 adult TH65 20uM Homo sapiens female puerto rican whole organism
NMRI male 3 adult Homo sapiens male puerto rican whole organism
NMRI male, TH65 at 05uM 3 adult TH65 5uM Homo sapiens male puerto rican whole organism
NMRI male, TH65 at 10uM 3 adult TH65 10uM Homo sapiens male puerto rican whole organism
NMRI male, TH65 at 20uM 3 adult TH65 20uM Homo sapiens male puerto rican whole organism
Schistosomula, MC395 treated 4 schistosomula MC395 Mesocricetus auratus whole organism

SRP101425: Allele Specific expression in male and female Schistosoma mansoni adult worms

University of Perpignan Via Domitia

Design: 4 conditions

Condition num. replicates Breed Sex Collection date Developmental stage Geographic location Host Organism part
f-BRExm-GH2 F1-Mirror Female Adults 2 f-BRExm-GH2_mirror female 2015 adult France: Perpignan mouse whole organism
f-BRExm-GH2 F1-Mirror Male Adults 2 f-BRExm-GH2_mirror male 2015 adult France: Perpignan mouse whole organism
f-GH2xm-BRE F1 Female Adults 2 f-GH2xm-BRE_F1 female 2015 adult France: Perpignan mouse whole organism
f-GH2xm-BRE F1 Male Adults 2 f-GH2xm-BRE_F1 male 2015 adult France: Perpignan mouse whole organism

SRP108901: Schistosoma mansoni strain LE - Transcriptome or Gene expression

University of Perpignan

Double impact: natural molluscicide for schistosomiasis vector control also impedes development of Schistosoma mansoni cercariae into adult parasites. (Augusto .. Grunau, 2017)

Design: 4 conditions

Condition num. replicates Sex Strain Treatment
female 1 female LE
female, E. milli latex 2 female LE E. milli latex
male 2 male LE
male, E. milli latex 2 male LE E. milli latex

SRP124650: Transcriptional Profiling of Schistosoma mansoni f zfp-1-1(RNAi) parasites

SRP163002: Transcriptomic analysis of reduced sensitivity to praziquantel in Schistosoma mansoni

Biology, University of New Mexico

Transcriptomic analysis of reduced sensitivity to praziquantel in Schistosoma mansoni. (Sanchez .. Cunningham, 2019)

Design: 6 conditions

Condition num. replicates Generation Treatment Concentration Days post infection Organism part Sex Source name Strain
Passage 6 4 Passage 6 49 whole organism pooled male and female whole parasites Puerto Rican-1 (PR-1)
Passage 6, PZQ 4 Passage 6 Praziquantel 900 mg/Kg 49 whole organism pooled male and female whole parasites Puerto Rican-1 (PR-1)
Passage 7 4 Passage 7 49 whole organism pooled male and female whole parasites Puerto Rican-1 (PR-1)
Passage 7, PZQ 4 Passage 7 Praziquantel 900 mg/Kg 49 whole organism pooled male and female whole parasites Puerto Rican-1 (PR-1)
Passage 8 4 Passage 8 49 whole organism pooled male and female whole parasites Puerto Rican-1 (PR-1)
Passage 8, PZQ 4 Passage 8 Praziquantel 900 mg/Kg 49 whole organism pooled male and female whole parasites Puerto Rican-1 (PR-1)

SRP212141: Schistosoma mansoni response to in vivo FPL-64176 exposure

Medical College of Wisconsin

Design: 2 conditions

Condition num. replicates Treatment Developmental stage Organism part Sex Strain
DMSO 5 DMSO Sexually mature adult whole organism pooled male and female NMRI
FPL-64176 5 FPL-64176 Sexually mature adult whole organism pooled male and female NMRI

SRP238922: Transcriptional response of Schistosoma mansoni to in vivo praziquantel exposure

Medical College of Wisconsin

Design: 4 conditions

Condition num. replicates Developmental stage Treatment Organism part Sex Strain
Adult control 5 7 weeks CTRL whole organism pooled male and female NMRI
Adult praziquantel 5 7 weeks PZQ whole organism pooled male and female NMRI
Juvenile control 5 4 weeks CTRL whole organism pooled male and female NMRI
Juvenile praziquantel 5 4 weeks PZQ whole organism pooled male and female NMRI

SRP243831: Time course of Schistosoma mansoni transcriptional response to in vivo praziquantel exposure

Medical College of Wisconsin

Design: 10 conditions

Condition num. replicates Timepoint Treatment Developmental stage Organism part Sex Strain
PZQ 12h 1 12 h PZQ 7 weeks whole organism pooled male and female NMRI
PZQ 15 min 1 15 min PZQ 7 weeks whole organism pooled male and female NMRI
PZQ 1h 1 1 h PZQ 7 weeks whole organism pooled male and female NMRI
PZQ 24h 1 24 h PZQ 7 weeks whole organism pooled male and female NMRI
PZQ 3h 1 3 h PZQ 7 weeks whole organism pooled male and female NMRI
PZQ 48h 1 48 h PZQ 7 weeks whole organism pooled male and female NMRI
PZQ 6h 1 6 h PZQ 7 weeks whole organism pooled male and female NMRI
PZQ 96h 1 96 h PZQ 7 weeks whole organism pooled male and female NMRI
PZQ 9h 1 9 h PZQ 7 weeks whole organism pooled male and female NMRI
no drug 1 0 h no drug 7 weeks whole organism pooled male and female NMRI

Other

These studies are available in ENA, and the reads successfully align to our genomes.
We have decided not to include them in our analysis.
Either they failed to meet minimal criteria for inclusion, we've been asked to exclude them for data quality reasons, or we were unable to interpret the metadata.

ERP003608: STUDY THE EFFECT OF TGF beta ON SCHISTOSOME ADULT WORMS

Wellcome Sanger Institute

37 runs in ENA

SRP026308: Functional genomic characterization of germinal cells in larval Schistosoma mansoni

SRP032348: Genetic and molecular basis of drug resistance and species-specific drug action in Schistosome parasites

SRP035537: SL trans-splicing in Schistosoma mansoni

UFMG

2 runs in ENA

SRP035609: Schistosoma mansoni strain:BRE Transcriptome or Gene expression

University of Perpignan/CNRS

5 runs in ENA

SRP042222: Schistosoma mansoni Transcriptome or Gene expression

The Genome Institute

3 runs in ENA

SRP162361: Schistosoma mansoni strain:LE Transcriptome or Gene expression

Rene Rachou Institute

4 runs in ENA

SRP251773: S mansoni in vivo 5wk old sporocysts & adult worms.

Case Western Reserve

3 runs in ENA

SRP252193: Large-scale RNAi screening uncovers new therapeutic targets in the human parasite Schistosoma mansoni

Pharmacology, University of Texas Southwestern Medical Center

12 runs in ENA