Patricia,

Using Running H/F with the <$paratext> or <$marker1/2> is no option. For a good 
reason these system variables reference only the text, no formatting at all. 

The details are here:

http://help.adobe.com/en_US/framemaker/using/WS2937A033-EFF3-4d85-BBB3-98214B54950D.html

If the scientific name in your application is always the last (or first) part 
of a heading, you can proceed like this:

[Heading:] Field Screening Aid for Bug one

Add a marker Header/Footer $1 with the first part of the heading: Field 
Screening Aid for

Add a marker Header/Footer $2 with the second part of the heading: Bug one
(fill in a space character if some headings do not have a scientific name)

Now change the variable you use on the master page (e.g. Running H/F 1) to

<$marker1> <Emphasis><$marker2></>

(with "Emphasis" being the name of a character format that applies the desired 
formatting)

[Bonus knowledge: "</>" can be used instead of <Default ? Font> to switch off 
the effect of the character format.]

Why is it so awkward? Because this requirement is very seldom and has some 
side-effects. Just think about the headings of a document turned into a 
collapsible tree in some form of online help. Those usually do not allow any 
formatting at all. Even FrameMaker?s TOC picks up very little formatting from 
the headings. 

Could this be automated? Yes, using the FDK or FrameScript or ExtendScript 
(since FM10) it is possible to automatically insert/fill the Header/Footer 
variables accordingly.

HTH,

- Michael


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