Thank you for your help.
indexFormat(x) solved the problem nicely.
> head(a)
2011-03-04 09:30:00.0 22.10
2011-03-04 09:30:00.1 22.09
2011-03-04 09:30:00.2 22.10
2011-03-04 09:30:00.3 22.09
2011-03-04 09:30:00.4 22.10
2011-03-04 09:30:00.5 22.09
> indexFormat(a) <- "%H:%M:%OS3"
> head(a)
09:30:00.000 22.10
09:30:00.100 22.09
09:30:00.200 22.10
09:30:00.300 22.09
09:30:00.400 22.10
09:30:00.500 22.09
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