Aubameyang was ruled out of the loss at Everton with a calf injury and the visit of City comes too soon.
Arteta, though, is hopeful Aubameyang will make a quick return with Chelsea to come on Boxing Day.
“He was more positive yesterday than the previous two days,” Arteta told reporters.
“He will have another scan and we will see how quickly we can get him back in the team. He knows how important he is for us.”
Arteta shuffles his pack with eight changes against City, with Martinelli deemed fit enough to start – alongside Alexandre Lacazette – after his first minutes in nine months at the weekend.
Gabriel Magalhaes is back from suspension, and is joined at the back by outcasts Sead Kolasinac and Shkrodran Mustafi.
Alex Runarsson gets the nod over Bernd Leno in goal.
Starting XI: Runarsson, Mustafi, Gabriel, Kolasinac, Maitland-Niles, Elneny, Ceballos, Cedric, Willock, Lacazette, Martinelli
Subs: Leno, Tierney, Mari, Smith Rowe, Pepe, Balogun, Nketiah
Arteta confuses fans with strange statistical breakdown
Kick-off: Tuesday 8pm GMT, Sky Sports
TV and stream: Sky Sports
Injured: Aubameyang, Partey