Table 1.
Markers and cre lines:
| Cell lineage | Cell type | Marker Genes# | Surface Protein Genes# | Antibodies | Cre lines* |
|---|---|---|---|---|---|
| Epithelium | Basal cell | TP63, KRT5 | NGFRH ,TRPC6H | TRP63, KRT5 | Trp63creERT2(Lee, et al., 2014) Krt5creERT2(Van Keymeulen, et al., 2011) |
| Epithelium | Secretory cell |
SCGB1A1, SCGB3A2 |
SLC4A7H, SCUBE2H |
SCGB1A1 | Scgb1a1creERT2(Rawlins, et al., 2009b) |
| Epithelium | Ciliated cell | FOXJ1, RSPH1 | CDHR3, CDHR4 | FOXJ1, Acetylated- Tubulin | Foxj1creERT2(Rawlins and Hogan, 2008) |
| Epithelium | Goblet cell | MUC5AC, SPDEF | PCDH7H , SLC4A 11H | MUC5AC, AGR2 | |
| Epithelium | Pulmonary neuroendocrine cell | ASCL1, GRPH , Calca M |
NRXN1H, CDH18H |
GRPH/Bombesin, CGRPM |
Ascl1creERT2(Km, et al., 2011) Ca/cacreERT2(Song, et al., 2012) |
| Epithelium | Tuft cell | POU2F3, ASCL2, Dclk1 M | TRPM5 M | POU2F3, DCLKM | Dc/k1creERT2(Westphalen, et al., 2014) Pou2f3creERT2(McGinty, et al., 2020) |
| Epithelium | lonocyte | FOXI1, ASCL3, Cftr M | CFTRM | Asc/3EGFP-Cre(Bullard, et al., 2008) | |
| Epithelium | Bronchoalveolar stem cell | Co-express low level SFTPC and SCGB1A1 | Dual recombinases or split cre effector (Liu, et al., 2019; Salwig, et al., 2019) | ||
| Epithelium | Alveolar type 1 cell | AGERH, RTKN2, Hopx M | AGER, SEMA3B HTI-56H (MAB) | AGER, HOPX | HopxcreERT2(Jain, et al., 2015) AgercreERT2(Chung and Hogan, 2018) Aqp5cre(Flodby, et al., 2010) |
| Epithelium | Alveolar type 2 cell | SFTPC, LAMP3 | KCNJ15 HTII-280H (MAB) | SFTPC, ABCA3 | SftpccreERT2(Chapman, et al., 2011 ; Rock, et al., 2011) |
| Epithelium | Ductal basal cell | VIM, SOX9 | TRP63, KRT5 | Trp63creERT2(Lee, et al., 2014) Krt5creERT2(Van Keymeulen, et al., 2011) | |
| Epithelium | Myoepithelial cell | KRT14, MYH11 | ACTA2/SMA |
Acta2creERT2 (Anderson, et al., 2017; Lynch, et al., 2018; Tata, et al., 2018) Myh11-creERT2 (Anderson, et al., 2017). (Both are also active in smooth muscles and myofibroblasts.) |
|
| Epithelium | Mucous cell | MUC5B, SPDEF | MUC5B | ||
| Epithelium | Serous cell | LYZ, LTF | |||
| Mesenchyme | Airway smooth muscle cell | ACTA2, DES, LGR6 | LGR6 | ACTA2/SMA | Lgr6creERT2(Snippert, et al., 2010) Acta2creERT2(Moiseenko, et al., 2017; Zepp, et al., 2021) |
| Mesenchyme | Vascular smooth muscle cell | NTRK3, ITGA7, Cnn1 M | ITGA7, NTRK3 | ACTA2/SMA | Acta2creERT2(Moiseenko, et al., 2017; Zepp, et al., 2021) |
| Mesenchyme | Chondrocytes | COL2A1, HAPLN1 | SOX9 | Co/2a1creERT2(Zhu, et al., 2008) | |
| Mesenchyme | Alveolar fibroblast 1 | TCF21, WNT2 | PCDH15H | PLIN2/ADRP | Tcf21mercremer (Park, et al., 2019) Wt2creERT2(Zepp, et al., 2021) |
| Mesenchyme | Alveolar Fibroblast 2 | MFAP5, SCARA5 | CDON | ||
| Mesenchyme | Secondary crest myofibroblast cell | DACH2H , Fgf18 M | ITGBL1H | ACTA2/SMA | Fgf18creERT2(Hagan, et al., 2019a) PdgfrartTA(Li, et al., 2018) PdgfracreERT2 (Chung, et al., 2018) Acta2creERT2(Moiseenko, et al., 2017; Zepp, et al., 2021) |
| Mesenchyme | Pericyte | TRPC6. LAMC3 | TRPC6 | CSPG4/NG2 PDGFRb |
PdgfrbcreERT2 (Cuervo, et al., 2017) |
| Mesenchyme | Mesothelium | WT1, UPK3B, FREM2 | WT1 | Wt1creERT2(Zhou, et al., 2008) | |
| Endothelium | Arterial endothelial cell | DKK2, GJA5 | EFNB2 | VWF (also vein) | BmxcreERT2 (not active in small arterioles) (Ehling, et al., 2013) Sox17creERT2 (also labels capillaries) (Liao, et al., 2009) |
| Endothelium | Venous endothelial cell | ACKR1H, HDAC9H Slc6a2M | ACKR1 | VWF (also artery) Endomucin (also capillaries, but not artery) | |
| Endothelium | Lymphatic endothelial cell | PROX1, MMRN1 | LYVE1, NRP2 | LYVE1 | Prox1creERT2 (Bazigou et al., 2011) |
| Endothelium | Capillary cell 1 | IL7RH , Aplnr M , Gpihbp1 M | IL7RH , Aplnr M | AplnicreERT2 (Gillich, et al., 2020) | |
| Endothelium | Capillary cell 2 | EDNRB, HPGDH , Apln M , Car4 M | EDNRB | EDNRB, CA4M | AplncreERT2 (Gillich, et al., 2020) |