In cardiac ischemia-reperfusion injury, reactive oxygen species (ROS) generation and upregulation of the hypoxia-inducible protein BNIP3 result in mitochondrial permeabilization, but impairment in autophagic removal of damaged mitochondria provokes programmed cardiomyocyte death. BNIP3 expression and ROS generation result in upregulation of beclin-1, a protein associated with transcriptional suppression of autophagy-lysosome proteins and reduced activation of transcription factor EB (TFEB), a master regulator of the autophagy-lysosome machinery. Partial beclin-1 knockdown transcriptionally stimulates lysosome biogenesis and autophagy via mTOR inhibition and activation of TFEB, enhancing removal of depolarized mitochondria. TFEB activation concomitantly stimulates mitochondrial biogenesis via PGC1␣ induction to restore normally polarized mitochondria and attenuate BNIP3-and hypoxia-reoxygenation-induced cell death. Conversely, overexpression of beclin-1 activates mTOR to inhibit TFEB, resulting in declines in lysosome numbers and suppression of PGC1␣ transcription. Importantly, knockdown of endogenous TFEB or PGC1␣ results in a complete or partial loss, respectively, of the cytoprotective effects of partial beclin-1 knockdown, indicating a critical role for both mitochondrial autophagy and biogenesis in ensuring cellular viability. These studies uncover a transcriptional feedback loop for beclin-1-mediated regulation of TFEB activation and implicate a central role for TFEB in coordinating mitochondrial autophagy with biogenesis to restore normally polarized mitochondria and prevent ischemia-reperfusion-induced cardiomyocyte death. P reservation of healthy mitochondria is essential for energy generation and maintenance of contractile function in cardiac myocytes (1). In cardiac ischemia-reperfusion (IR) injury, mitochondrial permeabilization results in activation of programmed cell death pathways and cardiomyocyte loss (2). Removal of damaged mitochondria by macroautophagy, a lysosomal degradative pathway, is essential to prevent cardiomyocyte death and limit myocardial infarct size (3, 4). Cardiomyocyte autophagy is upregulated with IR injury (5), but autophagosome processing is impaired early after reperfusion, which prevents autophagic removal of damaged mitochondria (6). The hypoxic insult also provokes transcriptional induction of BNIP3 (Bcl2 and nineteen-kilodalton interacting protein 3), a prodeath Bcl2 family protein (7, 8) which is targeted to and permeabilizes mitochondria (9-11) and triggers cardiomyocyte death in IR injury (12). While BNIP3 has been suggested to facilitate mitochondrial autophagy by functioning as an adaptor to sequester damaged mitochondria within autophagosomes (13,14), increased BNIP3 expression provokes declines in lysosome numbers, with impaired autophagic flux, resulting in accumulation of damaged mitochondria and cardiomyocyte death (15). These observations implicate a failure of the autophagy-lysosome machinery to clear damaged mitochondria as a cause of cell death with IR inju...