Atmosphere Abuse

The discerning overlord works smarter, not harder. When the need arises to kill everyone, why tear a world into its constituent particles? Everyone on the planet is equally in its atmosphere: that fragile, wispy shell that can be blown away like seeds from a dandelion, or reconstituted in a number of creative ways. This takes a fraction of the time and effort, and need not deplete precious stores of Applied Phlebotinum at all, yet in skilled hands produces all the spectacle and excitement of antimatter bombs.

Certainly, paranoid bunkers and deep-sea habitats might survive. But then, what about the astronauts? Efforts at complete annihilation must, by their nature, include steps to be thorough.

Abusive atmosphere alteration is not solely for the Omnicidal Maniac, either. An Alien Invasion might combine conquest and colonization into one elegant package. Even the good guys may find themselves performing one, once a seemingly empty planet's catacombs open, sleepers waken, etc. The Apocalypse How score of such an act varies, though it's hard for one to not have one.

Anime & Manga

 * ability in the Part 6 of JoJo's Bizarre Adventure can actually manipulate the ozone layer of Earth itself which is the reason why  It Got Worse.

Film
"In one of the countless billions of galaxies in the universe lies a medium-size star. And one of its satellites, a green and insignificant planet, is now dead."
 * Sky Captain and The World of Tomorrow. If Dr. Totenkopf's space ship reaches 100 kilometers above ground and its booster engines ignite, the Earth's atmosphere will be destroyed.
 * Spaceballs. Planet Spaceball is out to steal planet Druidia's atmosphere.
 * The Matrix, specifically the Dark Storm Effect blotting out all sunlight in the real world. Although we don't know whether it was the humans or machines who struck first, it was the humans who scorched the sky.
 * An example of the "nukes ignite the atmosphere" idea: at the end of Beneath the Planet of the Apes, the astronauts note that the detonation of a cobalt bomb could "set off a chain reaction in the whole atmosphere. Burn the planet to a cinder." After the bomb detonates:


 * Since the ozone layer is part of the atmosphere, it's probably relevant that one of the alien criminals in Men in Black 2 was convicted of stealing some of it to sell on the black market.

Literature
"Ax: If the Yeerks wished to kill a lot of humans they could simply use their Dracon beams from orbit to ignite the atmosphere and incinerate all life on the planet.
 * Mack Reynolds' novel Dawnman Planet. A race of aliens has the power to instantly convert the oxygen-nitrogen atmosphere of a planet to methane-hydrogen-ammonia, killing all of the inhabitants.
 * In Animorphs #28, the team is trying to figure out the latest Yeerk plot. On guessing that the latest agenda might be to poison a food supply and kill humans, Ax disagrees with very specific reasoning...

Marco: Well. There's a happy thought."

"Rincewind: Ah. This is going to be one of the times when the atmosphere catches fire. I hate those."
 * The Science of Discworld. Paraphrased:


 * John Christopher's The Tripods series.

Live Action TV

 * Star Trek: The Original Series episodes.
 * "Return to Tomorrow''. The Enterprise finds a planet whose atmosphere was ripped away by a cataclysm half a million years earlier.
 * "Obsession". At the end of the episode, a matter/antimatter explosion rips away half of a planet's atmosphere.
 * Averted in Star Trek: The Next Generation episode "A Matter of Time", where the Enterprise fires an ionizing phaser blast into the upper atmosphere of a planet to clear away some volcanic dust. If the blast was imperfect, it would burn away the atmosphere. Needless to say, the Enterprise saved the day.
 * Quatermass II had a chemical plant run by humans under alien control, which was manufacturing gases in which the aliens could live. They were horribly corrosive to human flesh, and IIRC the plan was ultimately for the aliens to manufacture enough to replace the Earth's atmosphere.
 * Doctor Who: The two-parter "The Sontaran Stratagem/The Poison Sky," in which devices fitted to engine exhausts turned out to be atmospheric converters. The gas they give off is deadly to humans and manna to Sontaran young.
 * The New Twilight Zone episode "Voices in the Earth". At some point in the past the oxygen in the Earth's atmosphere was changed to methane.

Music
"Picture the two of us alone inside my golden submarine While above the waves my doomsday squad ignites the atmosphere And all the fools who live their foolish lives may find it quite... explosive But it won't mean half as much to me if I don't have you here"
 * "Skullcrusher Mountain", by Jonathan Coulton:

Tabletop Game

 * Warhammer 40000 has this as the end stage of separate methods of Exterminatus. Cyclonic torpedoes ignite the atmosphere as well as most things on the surface. In the case of virus bombing, the gasses released by the virus reducing most of the planet's biomass into inflammable mulch, resulting in a planet-wide firestorm. Technically it doesn't burn the atmosphere, just the flammable gasses released there, but close enough. Cyclonic torpedoes play this completely

Tabletop RPG

 * Dungeons and Dragons adventure OA7 Test of the Samurai. An evil magician named Za-Jikku is trying to change the planet's atmosphere. He kills people and turns them into evil butterflies, which breathe in normal air (t'ien ch'i) and change it to a deadly gas (yun ch'i). If he succeeds, he'll be able to breathe the yun ch'i and live forever but every other living creature will die.
 * Traveller Adventure 4 Leviathan. In the backstory, a series of nuclear explosions caused the planet Ganulf to lose its atmosphere, killing all of the inhabitants.

Video Games
""Look, mistakes happen. Don't get so bent out of shape!" "The Spathi once used a similar excuse after an unfortunate incident at their base on Algol IV. They didn't like the climate there so they decided to make `just a few minor, climatic adjustments.' Their equipment went haywire, they panicked and fled and the entire atmosphere was stripped off the planet much to the native Algolites sincere though short-lived regret.""
 * Traffic Department 2192. The rebellion kills The Emperor's daughter, so the Emperor floods the atmosphere with flammable gases and takes a match to the planet.
 * Conquest: Frontier Wars has this in video, with a nice low-angle shot.
 * Star Control 2:


 * Homeworld and Homeworld 2 have the Low-Orbit Atmosphere Deprivation Weapon, and using one is the fastest way to get put down for the sake of all living things.
 * It rains acid in Iji. The protagonist is protected, but trails clouds of smoke. The question of whether the Earth's atmosphere is irreparably damaged brought up a few times.
 * The strategy of the Scrin in the Command & Conquer Tiberium Series of games might be better described as Biosphere Abuse, but aims for the same effect - making the planet inhospitable to everything, so there's no resistance once their fleet shows up.
 * The terraforming tools in Spore can also be used to damage a planet's ecosystem, which can destroy buildings in colonies on that planet.

Web Original

 * The Everything 2 story Valuable Humans in Transit.

Western Animation

 * In Gargoyles, the titular 'goyles had a problem with a curse that would not end "Until the skies burned." Earlier, they had been bound in stone until their castle rose above the clouds, and David Xanatos had arranged that... so it comes as no surprise that he's got a solution this time, too. Figuring that they only need a very localized phenomenon, he helps them distribute a flammable gas above New York and sets it on fire, causing the heavens to burn (briefly and harmlessly), breaking the curse.

Real Life

 * During the creation of the atomic bomb and the lead up to the first tests, some scientists had expressed concern that detonating an atomic bomb might cause the atmosphere to ignite. They detonated it anyway.
 * That was done during a bet before Trinity, guessing what the yield would be. IIRC, only one bet that it would ignite all the oxygen in the Earth's atmosphere, and the rest bet between "nothing" and "about the size of the Tsar Bomba", although not in those terms.
 * There is no real concern when it comes to igniting the atmosphere with a nuclear weapon due to the atmosphere's ingredients. N2 (roughly 78%) and O2 (roughly 21%) combining with each other makes for an endothermic reaction, meaning it takes more energy to get going then it gives out in the end—its like to try using a non-profitable organization to make more money. Once the calculations were done, it was quickly realized that the atmosphere cannot be so easily set aflame. A more realistic concern is detonating a thermonuclear device in the ocean and sparking a chain fusion reaction with all the hydrogen, though it too has proved unfounded.
 * A couple of the solar system's moons have an atmosphere which, if not for their lack of oxygen, would be extremely explosive.