Is it possible to pay IEEE transaction fees/charges by bitcoins?
I don't think so. At least for the IEEE Transactions I know of, payments are managed by RightsLink, a company external to IEEE. In the help center of this company, you can find information on how to pay:
It is there written that (bold mine)
Select your preferred payment option (invoice or credit card)
If you submit your order with the “invoice” payment method, you can pay that invoice later using a credit card, wire transfer, or check.
They want the good ol' dirty money!