WDR91 and WDR81 act in complex with Beclin1 to affect endosomal PtdIns3P levels. (A) Immunostaining of endogenous EEA1 in control (Ctrl), KO-81, and KO-91 HeLa cells treated with control siRNA (siCtrl) and Beclin1 siRNA (siBeclin1; left). Boxed regions are magnified (2×) in insets. Bars, 15 µm. Bottom left: EEA1 intensity on endosomes (arbitrary units [AU]) in ≥100 cells. ***, P < 0.001. (bottom right) Western blot of Beclin1 and EEA1 in cells treated with siBeclin1 or siCtrl. (B) Knockout of WDR91 (KO-91) or WDR81 (KO-81) increases the sizes of early endosomes in HeLa cells in a Beclin1-dependent manner. Cells were imaged 24 h after transfection with 2xFYVE-mCherry expression vector ± siBeclin1. Bars, 5 µm. (C) Colocalization (arrows) of WDR81 or WDR91 with Beclin1 in immunostained cells. Insets show magnified (1.8×) views of boxed areas. Bars, 5 µm. (D–G) Co-IP of HA-Beclin1 with Flag-WDR81 (D), HA-Beclin1 with Myc-WDR91 (E), Flag-Vps34 with Myc-WDR81 (F), and Flag-Vps34 with Myc-WDR91 (G). Flag or Myc antibodies were used for IPs. Precipitated proteins were detected with HA, Myc, or Flag antibodies.