At E3, Konami released two different trailers of Metal Gear Solid V: The Phantom Pain, but we all know Hideo Kojima, and the fact that he loves to hide little interesting details in his work.
Normally, a trailer would be made with stock footage of the game, and a short version of a video would be made by using the same footage, but including only the highlighs. This isn't true in this case.
The same scenes have indeed been used in some areas of the trailers, but they are actually shot in different conditions, highlighting the game's dynamic day/night cycle, weather and the in-engine cutscenes, carrying over certain elements from gameplay.
Long Trailer - Night
Short Trailer - Day
Long Trailer - Sunny - Bloodied - Different Outfit
Short Trailer - Cloudy - Clean - Different Outfit
Long Trailer - Bloodied + Rocket launcher
Short Trailer - Clean + Different Weapon
After all, we shouldn't be too surprised. We're talking about Hideo Kojima here, and hiding examples of some of his game's most prominent features across two different trailers is perfectly fitting to his style.