That PC Gamer article also said Cerberus is against you because they're simply working with the Reapers. Basically identical to Saren in the first game and the whole "is submission not preferable to extinction?" indoctrination thought. Kind of uninspired, although I guess it makes more sense than Cerberus is just mad at you.
Then again, the article also saw the screenshot of Ashley and said it must be a new character, so they're confirmed for dumbasses.
# Abilities such as Concussive Blast will now take into account the ammo power you have added, so you can have a Cryo Concussive Blast [PCG]
# Another reaper creature sucks life force from corpses. [PCG]
# Your weapons have three upgrade slots -scope barrel and grip, and you can change the colour and camoflage of weapons. [OXM]
# You may be able to get an eyepiece, like Garrus's, that will allow non-sniper weapons to scope in further, which also hints at armour having more of an effect on gameplay. [OXM]