In reply to wild_nomad: From the UIAA website.
"Notification Concerning the Marking of Ropes
Tests done by the UIAA Safety Commission and some rope manufacturers have shown that marking ropes with liquids such as those provided by felt-tipped pens can damage them; even with those markers, sold specifically for marking ropes. The test results have shown a decrease of up to 50% of the
rope strength, more correctly: of the energy absorption capacity of the rope (expressed by the number of falls in the standard test method in accordance with the UIAA Standard101).
Therefore the UIAA Safety Commission warns against marking a rope with any substance that has not been specifically approved by the rope manufacturer of that rope. It is not possible for the UIAA Safety Commission to test all markers that are commercially available and can be used for marking ropes. Furthermore it would be impossible for the UIAA Safety Commission to keep such information up-to-date. In addition, the effect of any rope marker seems to vary with the make of rope. Hence, all the UIAA Safety Commission can do is to warn mountaineers and climbers.
Issued: April 2002"
After reading this I wouldn't use food colouring, felt pens, markers, or even tape. Just buy a new rope if you need a middle marker that much, I don't think it's worth the risk of a 50% reduction in rope strength.