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This is indeed a bit on the short side. However, in your test this should hurt mCherry even more than mRuby2; tdtomato should be favored (emission: mCherry 610 vs mRuby2 600 vs. tdtomato 580).
I use this filter:
http://www.semrock.com/FilterDetails.aspx?id=FF01-607/70-25
Tobias
-----Original Message-----
From: Confocal Microscopy List [mailto:[log in to unmask]] On Behalf Of Steven Henle
Sent: Tuesday, July 02, 2013 18:10
To: [log in to unmask]
Subject: Re: Red fluorescent proteins suitable for two-color two-photon microscopy and protein tagging
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I did use the same mRuby2 construct from addgene, and like you started and the normal GFP start site. I just rechecked the sequence too and everything looks perfect. I am setting up to test it again on the 2-photon. Part of the issue may be the filter I am using (565-610), which is probably not far enough red to be optimal, but should catch over half of the signal. What filter do you use?
Steve