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Beginning with the origins of the universe in the Big Bang, Sagan describes the formation of different types of galaxies and anomalies such as galactic collisions and quasars. The episodes moves further into ideas about the structure of the Universe, such as different dimensions (in the imaginary Flatland and four-dimensional hypercubes), an infinite vs. a finite universe, and the idea of an oscillating Universe (similar to that in Hindu cosmology). The search into other ideas such as dark matter and the multiverse is shown, using tools such as the Very Large Array in New Mexico. Cosmos Update shows new information about the odd, irregular surfaces of galaxies and the Milky Way perhaps being a barred spiral galaxy

This episodes the nature of the cosmos on the micro and atomic scales, using the Ship of the Imagination to explore these realms. Tyson describes some of the micro-organism that live within a dew drop, demonstrating parameciums and tardigrades. He proceeds to discuss how plants use photosynthesis via their chloroplasts to convert sunlight into chemical reactions that convert carbon dioxide and water into oxygen and energy-rich sugars. Tyson then discusses the nature of molecules and atoms and how they relate to the evolution of species. He uses the example set forth by Charles Darwin postulating the existence of the long-tongued Morgan's sphinx moth based on the nature of the comet orchid with pollen far within the flower. He further demonstrates that scents from flowers are used to trigger olfactory centers in the brain, stimulating the mind to threats as to aid in the survival of the species. Tyson narrates how Greek philosophers Thales and Democritus postulated that all matter was made up of combinations of atoms in a large number of configurations, and describes how carbon forms the basic building block for life on earth due to its unique chemical nature. Tyson explains on the basic atomic structure of protons, neutrons, and electrons, and the nature of nuclear fusion that occurs in most stars. He then discusses the existence of neutrinos that are created by these nuclear processes in stars, and that detecting such sub-atomic particles which normally pass through matter require subterranean facilities like the Super-Kamiokande that were used to detect neutrinos from the supernova SN 1987A in the Large Magellanic Cloud before light from the explosion were observed due to their ability to pass through matter of the dying sun. Tyson compares how neutrinos were postulated by Wolfgang Pauli to account for the conservation of energy from nuclear reactions in the same manner as Darwin's postulate on the long-tongued moth. Tyson concludes by noting that there are neutrinos from the Big Bang still existing in the universe but due to the nature of light, there is a "wall of infinity" that cannot be observed beyond.

The German army launched Operation Barbarossa, the invasion of the East, with supreme confidence in its own superiority. High Command was sure that victory would come as quickly and as easily as in France. At the onset, the troops advanced rapidly and the Panzer forces under General Guderian were unbeatable. There were, however, far more casualties and more wear-and-tear on equipment than anticipated. The invading force got bogged down short of Moscow and the withdrawal from there was a severe psychological blow to the men. When an extremely severe winter set in, morale sank further. The soldiers were not equipped for such low temperatures and their guns and machinery could not cope. Hitler ordered his troops to stand firm.

Among the ranks of the Wehrmacht there was limited opposition to Hitler. Most officers initially felt enthusiastic about the prospect of war and were grateful to Hitler whose war-mongering had furthered their personal careers. Furthermore all soldiers had to make an oath of allegiance to the Führer and, up until the very end, there were many who felt unable to break this pledge. There were, however, some officers who opposed Hitler. For some it was on moral grounds and for others because they thought that his military tactics would lose them the war. There were plots against Hitler and attempted coups, the best known being the July bomb plot led by Claus von Stauffenberg. Some soldiers refused to bear arms and were shot, others deserted, others still carried out quiet acts of sabotage and subversion. By and large, however, the Wehrmacht carried out the orders Hitler issued, even if it involved perpetrating acts of atrocity.

Tyson describes the discovery of cosmic rays by Victor Hess through high-altitude balloon trips. Swiss Astronomer Fritz Zwicky, in studying supernovae, postulated that these cosmic rays originated from these events instead of electromagnetic radiation. Also tells how Vera Rubin observed that the rotation of stars at the edges of observable galaxies did not follow expected rotational behavior leading to consider the existence of dark matter. This further led to the discovery of dark energy to account for the increasing rate of expansion of the universe. Tyson then describes the interstellar travel of the two Voyager probes. Tyson tells the Carl Sagan's role in the Voyager program, including creating the Voyager Golden Record to encapsulate humanity and Earth's position in the universe. Tyson concludes the series by emphasizing Sagan's message on the human condition in the vastness of the cosmos, and to encourage viewers to continue to explore and discover what else the universe has to offer.

Series concludes with the focus shifting to the United States in the post-war years of the 1950s and beyond. Beginning with arguably the most notorious work of 20th century classical music, John Cage's 'silent' composition 4'33", it looks at how a series of maverick Americans re-invented the sound of classical music into a more simple form, bringing back harmonies and rhythms that made it increasingly popular with audiences across the world. It also examines how this music found its way into a spiritual realm, with the strain of pared-down religious composition that came to be known as 'holy minimalism'. From the Maverick concert hall in Woodstock, New York to an Orthodox cathedral in Estonia to a car park in Peckham, south London, the story is told by a stellar line-up of contributors including Philip Glass, Steve Reich, John Adams, Arvo Pärt and John Tavener.