How does city in a bottle work?
According to the rule 109.3 which states:


  109.3. An object’s characteristics are name, mana cost, color, color indicator, card type, subtype,  supertype, rules text, abilities,
  power, toughness, loyalty, hand modifier, and life modifier. Objects 
  can have some or all of these characteristics. Any other information
  about an object isn’t a  characteristic. For example, characteristics
  don’t include whether a permanent is tapped, a spell’s  target, an
  object’s owner or controller, what an Aura enchants, and so on.


Which means that the expansions symbol on the card is no longer a characteristic. 

This might explain it more: https://www.wizards.com/Magic/Magazine/Article.aspx?x=mtg/daily/feature/255c&amp;page=3


  109.3
  
  Expansion symbols are no longer a characteristic. Magic cards are
  recognized as individual game pieces by their English card names. One
  of the central tenets of that system is that all cards with the same
  name are considered the same for deck building and play purposes. This
  system lets us reprint cards, print promo cards, and have cards appear
  in many languages. But three older cards referred to cards from a
  specific expansion, and that runs contrary to the system. The Arabian
  Nights Bird Maiden and the Fourth Edition version should be the same,
  but City in a Bottle says they're not. In fact, it makes the original
  version worse!
  
  So, cards will no longer refer to expansion symbol as a
  characteristic. The three cards that used to do this (City in a
  Bottle, Golgothian Sylex, and Apocalypse Chime) will receive errata in
  a future update to refer to cards "originally printed" in the Arabian
  Nights, Antiquities, and Homelands sets, respectively). This means
  that City in a Bottle no longer affects any cards named Mountain. It
  also means that those three cards can affect cards that were in the
  appropriate set and then reprinted. City in a Bottle will affect the
  aforementioned Fourth Edition Bird Maiden.