RNA-seq data used for gene expression

RNA-seq data used

Mixed-sex infection

Group Label Sequence Source Sample Accession Biological Replicates Reference
Gonad (testis) Te PRJEB14695 ERS420096, ERS420097, ERS420098 3 Lu et al. (2016)
Gonad (ovary) Ov PRJEB14695 ERS420090, ERS420091, ERS420092 3 Lu et al. (2016)
Egg Egg PRJNA294789 SRR2245469 1 Anderson et al. (2015)
Miracidium Mir PRJNA209511 SRR922067 1 Wang et al. (2013)
Sporocyst (48h) Spo PRJNA209511 SRR922068 1 Wang et al. (2013)
Cercaria Cerc PRJEB2350 ERR022872, ERR022877, ERR022878 3 Protasio et al. (2012)
Schistosomulum (3h) Som3h PRJEB2350 ERR022874, ERR022876 2 Protasio et al. (2012)
Schistosomulum (24h) Som24h PRJEB2350 ERR022880, ERR022881, ERR022882, ERR022883 4 Protasio et al. (2012)
Juvenile male 21d m21d PRJEB3190 – 8 Protasio et al. 2017
Juvenile female 21d f21d PRJEB3190 – 8 Protasio et al. 2017
Juvenile male 28d m28d PRJEB3190 – 8 Protasio et al. 2017
Juvenile female 28d f28d PRJEB3190 – 8 Protasio et al. 2017
Adult male 35d m35d PRJEB3190 – 6 Protasio et al. 2017
Adult female 35d f35d PRJEB3190 – 6 Protasio et al. 2017
Adult male 38d m38d PRJEB3190 – 6 Protasio et al. 2017
Adult female 38d f38d PRJEB3190 – 6 Protasio et al. 2017
Adult male >42d m42d+ PRJEB14695 ERS420093, ERS420106, ERS420107 3 Lu et al. (2016)
Adult female >42d f42d+ PRJEB14695 ERS420099, ERS420100, ERS420101 3 Lu et al. (2016)

Single-sex infection

Group Label Sequence Source Sample Accession Biological Replicates Reference
Egg Egg PRJNA294789 SRR2245469 1 Anderson et al. (2015)
Miracidium Mir PRJNA294789 SRR922067 1 Wang et al. (2013)
Sporocyst (48h) Spo PRJNA294789 SRR922068 1 Wang et al. (2013)
Cercaria male mCer PRJNA312093 – 2 Picard et al. (2016)
Cercaria female fCer PRJNA312093 – 2 Picard et al. (2016)
Somule stage #1 male mSo1 PRJNA312093 – 2 Picard et al. (2016)
Somule stage #1 female fSo1 PRJNA312093 – 2 Picard et al. (2016)
Somule stage #2 male mSo2 PRJNA312093 – 2 Picard et al. (2016)
Somule stage #2 female fSo2 PRJNA312093 – 2 Picard et al. (2016)
Somule stage #3 male mSo3 PRJNA312093 – 2 Picard et al. (2016)
Somule stage #3 female fSo3 PRJNA312093 – 2 Picard et al. (2016)
Juvenile male 18d m18d PRJEB3190 – 4 Protasio et al. 2017
Juvenile female 18d f18d PRJEB3190 – 4 Protasio et al. 2017
Juvenile male 21d m21d PRJEB3190 – 8 Protasio et al. 2017
Juvenile female 21d f21d PRJEB3190 – 10 Protasio et al. 2017
Juvenile male 28d m28d PRJEB3190 – 6 Protasio et al. 2017
Juvenile female 28d f28d PRJEB3190 – 6 Protasio et al. 2017
Adult male 35d m35d PRJEB3190 – 8 Protasio et al. 2017
Adult female 35d f35d PRJEB3190 – 6 Protasio et al. 2017
Adult male 38d m38d PRJEB3190 – 12 Protasio et al. 2017
Adult female 38d f38d PRJEB3190 – 8 Protasio et al. 2017
Adult male >42d m42d+ PRJNA312093 (1), PRJEB14695 (3) – 4 Picard et al. (2016), Lu et al. (2016)
Adult female >42d f42d+ PRJNA312093 (2), PRJEB14695 (3) – 5 Picard et al. (2016), Lu et al. (2016)

Note that there are variations in S. mansoni strain and definitive host in these studies.


Analysis pipeline

Reads were mapped to S. mansoni genome annotation v7.2 using HISAT2 (v2.1.0) for egg and STAR (v2.4.2a) for the rest samples. Counts per gene were summarised with featureCounts (v1.4.5-p1) on based on exon features. Read counts were normalised in edgeR (v3.24.3) using the TMM method. RPKM values were calculated based on TMM-normalised counts and mean values were used for biological replicates (indicated as “Normalised expression” in the charts).


Data Exploration

Multidimensional scaling by edgeR