Avoiding publishing in a particular journal without bringing up politics As part of the PhD programme I am enrolled in, we're encouraged to publish a review paper within our first two years. After talking to my advisors, a suitable topic related to the area was agreed and I set about writing. 

From the beginning, we had a particular journal in mind, but toward the end of the writing process my supervisor was invited to contribute a review to a different journal for a special edition, and suggested that my paper could be submitted there as the topic was in-keeping with the topic of the special edition. 

The journal in question is an Israeli journal, though has contributions from researchers worldwide. 

Personally, while not entirely supporting an academic boycott of Israel (I don't see this as being productive), I don't wish to publish there – I have significant concerns over Israeli policy and their handling of the Palestine conflict and don't want my name associated with the journal. 

Clearly this is a very sensitive topic, and I don't wish to bring up politics with my supervisor - he hasn't ever expressed any political opinions and isn't Jewish, so I'm not concerned about offending him (we're in the UK, so generally the mood here is far less pro-Israel than in the USA). 

I have tried to suggest that I would generally just prefer the paper to go into the original journal given that we've already formatted it for that journal etc, but without much luck. 

How would I best go about dealing with the situation?
The other answers are focusing on OP's particular ethical stance, but I think this question deserves a somewhat general answer, so here goes:

You are essentially asking how to take a political stand without involving politics. This is impossible unless you hide your motivations for wanting to avoid this journal--as you've already tried without success.

You just have to decide whether you feel strongly enough to state your beliefs out loud, at least to your advisor. If you don't want to publish in this journal under any circumstances, even if it means taking your name off the paper, so be it, but be prepared to face the consequences of that. If your priority is not rocking the boat with your advisor, so be it, but be prepared to have your name associated (at least a little bit) with the journal. It's up to you how much that matters. A middle ground would be raising your objections with your advisor but leaving the decision up to him. This is about your personal ethics, so no one can tell you what the right choice is.