Since they rely on the presence of trees, they are most threatened by the destruction of their habitat from deforestation. Even though they face threats to their environment, according to the International Union for Conservation of Nature, they are considered to be "least concern" for extinction. However, with many other glass frogs declining in population, bare-hearted glass frogs are also at risk. Global warming is also a threat to bare-hearted glass frogs. They need moisture and rain in order to not dry out, and lack of rain or warmer conditions can be dangerous. Biologists are interested in further researching and observing bare-hearted glass frogs as they can be good bio-indicators of how global warming is affecting, not only frogs, but other species in rainforests. Along with global warming concerns, studies have shown that predation events of Hyalinobatrachium colymbiphylum are become more widely documented and understood. Scientists are now documenting new sites of Ornate Cat-eyed snake species predation on the glass frogs in Costa Rica, where they feed on the glass frogs, toads, eggs and larvae, and small lizards (Escalante and Acuña).
