Supplementary table S3
LUKASSEN, Soeren, et al. Characterization of germ cell differentiation in the male mouse through single-cell RNA sequencing. Scientific reports, 2018, 8. Jg., Nr. 1, S. 6521-6521.
Publication: https://doi.org/10.1038/s41598-018-24725-0
Description
K-means clustering with K = 9. Cell types were assigned through the expression of representative marker genes (Supplementary data Table S3, subfigure c).
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The publication Characterization of germ cell differentiation in the male mouse through single-cell RNA sequencing by S. Lukassen, E. Bosch , A. B. Ekici & A. Winterpacht is published under an open access license: https://creativecommons.org/licenses/by/4.0/. Permits to share, copy and redistribute the material in any medium or format and to adapt, remix, transform, and build upon the material for any purpose, even commercially.
Curation by the MFGA team
Pie chart of selected column
Table
| GENE | Method | Source | Earlyspermatogonia | Latespermatogonia | Earlyspermatocytes | Latespermatocytes | Roundspermatids | Laterspermatids | Sertoli | Leydig |
|---|---|---|---|---|---|---|---|---|---|---|
| Hsd3b6 | In situ | Baker; P. J. et al. Expression of 3β‐hydroxysteroid dehydrogenase type I and type VI isoforms in the mouse testis during development. The FEBS Journal 260; 911-917 (1999). | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 1 |
| Hsd17b11 | In situ | O’Shaughnessy; P.; Baker; P.; Heikkila; M.; Vainio; S. & McMahon; (2000). | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 1 |
| Cyp17a1 | IHC | Le Goascogne; C. et al. Immunoreactive cytochrome P-45017α in rat and guineapig gonads; adrenal glands and brain. Journal of reproduction and fertility 93; 609-622 (1991). | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 1 |
| Vcam1 | IHC | Sainio-Pöllänen; S. et al. CD106 (VCAM-1) in testicular immunoregulation. Journal of reproductive immunology 33; 221-238 (1997). | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 1 |
| Wt1 | In situ | Pelletier; J. et al. Expression of the Wilms tumor gene WT1 in the murine urogenital system. Genes & development 5; 1345-1356 (1991). | 0 | 0 | 0 | 0 | 0 | 0 | 1 | 0 |
| Rhox5 | In situ | Lindsey; J. S. & Wilkinson; M. F. Pem: a testosterone-and LH-regulated homeobox gene expressed in mouse Sertoli cells and epididymis. Developmental biology 179; 471-484 (1996). | 0 | 0 | 0 | 0 | 0 | 0 | 1 | 0 |
| Kitl | In situ | Manova; K. et al. The expression pattern of the c-kit ligand in gonads of mice supports a role for the c-kit receptor in oocyte growth and in proliferation of spermatogonia. Developmental biology 157; 85-99 (1993). | 0 | 0 | 0 | 0 | 0 | 0 | 1 | 0 |
| Kitl | IHC | Manova; K. et al. The expression pattern of the c-kit ligand in gonads of mice supports a role for the c-kit receptor in oocyte growth and in proliferation of spermatogonia. Developmental biology 157; 85-99 (1993). | 0 | 0 | 0 | 0 | 0 | 0 | 1 | 0 |
| Sox8 | RNASeq | Roumaud; P.; Hache; J. & Martin; L. J. Expression profiles of Sox transcription factors within the postnatal rodent testes. Molecular and cellular biochemistry; doi:10.1007/s11010-018- 3302-3 (2018). | 0 | 0 | 0 | 0 | 0 | 0 | 1 | 0 |
| Stra8 | In situ | Oulad-Abdelghani; M. et al. Characterization of a premeiotic germ cell-specific cytoplasmic protein encoded by Stra8; a novel retinoic acid-responsive gene. The Journal of cell biology 135; 469-477 (1996). | 1 | 1 | 0 | 0 | 0 | 0 | 0 | 0 |
| Stra8 | IHC | Oulad-Abdelghani; M. et al. Characterization of a premeiotic germ cell-specific cytoplasmic protein encoded by Stra8; a novel retinoic acid-responsive gene. The Journal of cell biology 135; 469-477 (1996). | 1 | 1 | 0 | 0 | 0 | 0 | 0 | 0 |
| Crabp1 | IHC | Zheng; W.; Bucco; R. A.; Schmitt; M. C.; Wardlaw; S. A. & Ong; D. E. Localization of cellular retinoic acid-binding protein (CRABP) II and CRABP in developing rat testis. Endocrinology 137; 5028-5035 (1996). | 1 | 1 | 0 | 0 | 0 | 0 | 0 | 0 |
| Crabp1 | Northern | Zheng; W.; Bucco; R. A.; Schmitt; M. C.; Wardlaw; S. A. & Ong; D. E. Localization of cellular retinoic acid-binding protein (CRABP) II and CRABP in developing rat testis. Endocrinology 137; 5028-5035 (1996). | 1 | 1 | 0 | 0 | 0 | 0 | 0 | 0 |
| Hist1h1a | In situ | Rabini; S. et al. Spermatogenesis in mice is not affected by histone H1. 1 deficiency. Experimental cell research 255; 114-124 (2000). | 0 | 0 | 1 | 1 | 0 | 0 | 0 | 0 |
| Hist1h1a | IHC | Rabini; S. et al. Spermatogenesis in mice is not affected by histone H1. 1 deficiency. Experimental cell research 255; 114-124 (2000). | 0 | 0 | 1 | 1 | 0 | 0 | 0 | 0 |
| Hist1h1a | In situ | Sun; R. & Qi; H. Dynamic expression of combinatorial replication-dependent histone variant genes during mouse spermatogenesis. Gene Expression Patterns 14; 30-41 (2014). | 1 | 1 | 0 | 0 | 0 | 0 | 0 | 0 |
| Dazl | In situ | Niederberger; C.; Agulnik; A. I.; Cho; Y.; Lamb; D. & Bishop; C. E. In situ hybridization shows that Dazla expression in mouse testis is restricted to premeiotic stages IV-VI of spermatogenesis. Mammalian genome 8; 277-278 (1997). | 1 | 1 | 0 | 0 | 0 | 0 | 0 | 0 |
| Dazl | IHC | Ruggiu; M. et al. The mouse Dazla gene encodes a cytoplasmic protein essential for gametogenesis. Nature 389; 73 (1997). | 1 | 1 | 1 | 1 | 0 | 0 | 0 | 0 |
| Gpat2 | In situ | Garcia-Fabiani; M. B. et al. Methylation of the Gpat2 promoter regulates transient expression during mouse spermatogenesis. Biochemical Journal 471; 211-220 (2015). | 0 | 0 | 1 | 0 | 0 | 0 | 0 | 0 |
| Meiob | In situ | Souquet; B. et al. (2010). | 0 | 0 | 1 | 0 | 0 | 0 | 0 | 0 |
| Hist1h1t | qPCR | Wang; P. J.; Page; D. C. & McCarrey; J. R. Differential expression of sex-linked and autosomal germ-cell-specific genes during spermatogenesis in the mouse. Human molecular genetics 14; 2911-2918 (2005). | 0 | 0 | 1 | 1 | 1 | 1 | ||
| Hist1h1t | In situ | Drabent; B.; Bode; C.; Bramlage; B. & Doenecke; D. Expression of the mouse testicular histone gene H1t during spermatogenesis. Histochemistry and cell biology 106; 247-251 (1996). | 0 | 0 | 1 | 1 | 0 | 0 | 0 | 0 |
| Hist1h1t | IHC | Drabent; B.; Bode; C.; Bramlage; B. & Doenecke; D. Expression of the mouse testicular histone gene H1t during spermatogenesis. Histochemistry and cell biology 106; 247-251 (1996). | 0 | 0 | 1 | 1 | 1 | 1 | 0 | 0 |
| Hormad1 | IHC | Wojtasz; L. et al. Mouse HORMAD1 and HORMAD2; two conserved meiotic chromosomal proteins; are depleted from synapsed chromosome axes with the help of TRIP13 AAA-ATPase. PLoS genetics 5; e1000702 (2009). | 0 | 0 | 1 | 1 | 0 | 0 | 0 | 0 |
| Hormad2 | IHC | Wojtasz; L. et al. Mouse HORMAD1 and HORMAD2; two conserved meiotic chromosomal proteins; are depleted from synapsed chromosome axes with the help of TRIP13 AAA-ATPase. PLoS genetics 5; e1000702 (2009). | 0 | 0 | 1 | 1 | 0 | 0 | 0 | 0 |
| Meioc | IHC | Soh; Y. S. et al. Meioc maintains an extended meiotic prophase I in mice. PLoS genetics 13; e1006704 (2017). | 0 | 0 | 1 | 1 | 0 | 0 | 0 | 0 |
| Piwil2 | qPCR | Wang; P. J.; Page; D. C. & McCarrey; J. R. Differential expression of sex-linked and autosomal germ-cell-specific genes during spermatogenesis in the mouse. Human molecular genetics 14; 2911-2918 (2005). | 1 | 1 | 1 | 1 | 0 | 0 | ||
| Piwil2 | IHC | Kuramochi-Miyagawa; S. et al. Mili; a mammalian member of piwi family gene; is essential for spermatogenesis. Development 131; 839-849 (2004). | 0 | 0 | 1 | 1 | 0 | 0 | 0 | 0 |
| Pou5f2 | In situ | Andersen; B. et al. Sperm 1: a POU-domain gene transiently expressed immediately before meiosis I in the male germ cell. Proceedings of the National Academy of Sciences 90; 11084-11088 (1993). | 0 | 0 | 0 | 1 | 0 | 0 | 0 | 0 |
| Prss42 | In situ | Yoneda; R. et al. Three testis-specific paralogous serine proteases play different roles in murine spermatogenesis and are involved in germ cell survival during meiosis. Biology of reproduction 88 (2013). | 0 | 0 | 1 | 1 | 0 | 0 | 0 | 0 |
| Prss42 | IHC | Yoneda; R. et al. Three testis-specific paralogous serine proteases play different roles in murine spermatogenesis and are involved in germ cell survival during meiosis. Biology of reproduction 88 (2013). | 0 | 0 | 0 | 0 | 1 | 1 | 0 | 0 |
| Prss43 | In situ | Yoneda; R. et al. Three testis-specific paralogous serine proteases play different roles in murine spermatogenesis and are involved in germ cell survival during meiosis. Biology of reproduction 88 (2013). | 0 | 0 | 1 | 1 | 0 | 0 | 0 | 0 |
| Prss43 | IHC | Yoneda; R. et al. Three testis-specific paralogous serine proteases play different roles in murine spermatogenesis and are involved in germ cell survival during meiosis. Biology of reproduction 88 (2013). | 0 | 0 | 1 | 1 | 1 | 1 | 0 | 0 |
| Prss44 | In situ | Yoneda; R. et al. Three testis-specific paralogous serine proteases play different roles in murine spermatogenesis and are involved in germ cell survival during meiosis. Biology of reproduction 88 (2013). | 0 | 0 | 1 | 1 | 0 | 0 | 0 | 0 |
| Tdrd1 | qPCR | Wang; P. J.; Page; D. C. & McCarrey; J. R. Differential expression of sex-linked and autosomal germ-cell-specific genes during spermatogenesis in the mouse. Human molecular genetics 14; 2911-2918 (2005). | 1 | 1 | 1 | 1 | 1 | 1 | ||
| Tdrd1 | In situ | Chuma; S. et al. Mouse Tudor Repeat-1 (MTR-1) is a novel component of chromatoid bodies/nuages in male germ cells and forms a complex with snRNPs. Mechanisms of development 120; 979-990 (2003). | 0 | 0 | 1 | 1 | 0 | 0 | 0 | 0 |
| Tdrd1 | IHC | Chuma; S. et al. Mouse Tudor Repeat-1 (MTR-1) is a novel component of chromatoid bodies/nuages in male germ cells and forms a complex with snRNPs. Mechanisms of development 120; 979-990 (2003). | 0 | 0 | 1 | 1 | 1 | 1 | 0 | 0 |
| Zfp35 | Northern | Cunliffe; V.; Koopman; P.; McLaren; A. & Trowsdale; J. A mouse zinc finger gene which is transiently expressed during spermatogenesis. The EMBO journal 9; 197-205 (1990). | 0 | 0 | 1 | 1 | 0 | 0 | 0 | 0 |
| Klf17 | In situ | Yan; W.; Burns; K. H.; Ma; L. & Matzuk; M. M. Identification of Zfp393; a germ cell-specific gene encoding a novel zinc finger protein. Mechanisms of development 118; 233-239 (2002). | 0 | 0 | 0 | 0 | 1 | 0 | 0 | 0 |
| Rad21 | In situ | Lee; J.; Yokota; T. & Yamashita; M. Analyses of mRNA expression patterns of cohesin subunits Rad21 and Rec8 in mice: Germ cell-specific expression of rec8 mRNA in both male and female mice. Zoological science 19; 539-544 (2002). | 1 | 1 | 0 | 0 | 1 | 1 | 1 | 1 |
| Esx1 | In situ | Branford; W. W. et al. Spx1; a novel X-linked homeobox gene expressed during spermatogenesis. Mechanisms of development 65; 87-98 (1997). | 1 | 1 | 0 | 0 | 1 | 0 | 0 | 0 |
| Dyrk4 | In situ | Sacher; F.; Möller; C.; Bone; W.; Gottwald; U. & Fritsch; M. (2007). | 0 | 0 | 0 | 0 | 0 | 1 | 0 | 0 |
| Prm1 | qPCR | Wang; P. J.; Page; D. C. & McCarrey; J. R. Differential expression of sex-linked and autosomal germ-cell-specific genes during spermatogenesis in the mouse. Human molecular genetics 14; 2911-2918 (2005). | 0 | 0 | 0 | 0 | 1 | 1 | ||
| Prm1 | In situ | Caldwell; K. A. & Handel; M. A. Protamine transcript sharing among postmeiotic spermatids. Proceedings of the National Academy of Sciences 88; 2407-2411 (1991). | 0 | 0 | 0 | 0 | 0 | 1 | 0 | 0 |
| Hspa1l | In situ | Tsunekawa; N.; Matsumoto; M.; Tone; S.; Nishida; T. & Fujimoto; H. The Hsp70 homolog gene; Hsc70t; is expressed under translational control during mouse spermiogenesis. Molecular reproduction and development 52; 383-391 (1999). | 0 | 0 | 0 | 0 | 0 | 1 | 0 | 0 |
| Hspa1l | IHC | Tsunekawa; N.; Matsumoto; M.; Tone; S.; Nishida; T. & Fujimoto; H. The Hsp70 homolog gene; Hsc70t; is expressed under translational control during mouse spermiogenesis. Molecular reproduction and development 52; 383-391 (1999). | 0 | 0 | 0 | 0 | 1 | 1 | 0 | 0 |
| Tnp1 | In situ | Heidaran; M. A.; Showman; R. M. & Kistler; (1988). | 0 | 0 | 0 | 0 | 1 | 1 | 0 | 0 |
| Tnp1 | IHC | Heidaran; M. A.; Showman; R. M. & Kistler; W. S. A (1988). | 0 | 0 | 0 | 0 | 0 | 1 | 0 | 0 |
| Tnp2 | In situ | Shih; D. & Kleene; K. A (1992). | 0 | 0 | 0 | 0 | 1 | 1 | 0 | 0 |