There are steps in the efficiency and affordability of available components right now. 5 years ago, high-current batteries were expensive and hard to get. Now...the average ebiker really has a lot of choices as to what volts and max amps to use.
Common "48V" controllers have 63V capacitors. Subtract about 5V for voltage ripple and voltage spikes (I don't know what those are, but I've heard of them mentioned elsewhere), and a long lasting and reliable system can be devised using a voltage up to 58V.
Most new lithium-based ebike battery packs right now are usually NCM or NCA chemistry. For long life, I recommend charging to 4.1V per cell (Justin suggests 4.05V is even better for long life). Most 48V labeled packs are 13 cells in series (13S), so...13 X 4.1 = 53.3V when fully charged.
If you go to a 14S pack, the fully-charged voltage (using a common 4.2V per cell charger as a worst-case scenario) would be 58.8V
If you know for certain how many watts you would like to use on a build (around 1200W is pretty common around here for a commuter)...then the more volts you use, the less amps you can get away with using to get the same watts. Lower amps means a cooler controller and motor, plus lower amp-draw will allow your battery to provide you with a little more range (compared to drawing high amps from the battery).
Theres nothing wrong with finding a controller with higher-voltage capacitors so you can run a nominal 60V system (fully-charged to 4.2V per cell is 16 X 4.2 = 67.2V, so...it might be possible to get away with using the cool-running and efficient 3077 FET, which has been rated as capable of 73V (maybe with an unlisted safety margin of a few volts?).
I don't want to start a thread-drift, but...concerning safety, 60V DC is an over/under number for safety regs, as it pertains to voltage being able to penetrate dry human skin. I know that high current is very dangerous, even at only 36V, but a 60V border for recognizing an added zone of danger is reasonable.
em3ev.com and Luna Cycle are both retailing 14S packs right now (along with 13S / 48V packs). em3ev calls the 50V and Luna calls them 52V, but...they are both 14S. The German ebike "Spitzing" is using 14S, for what its worth...
edit: if you live where its relatively flat, I've heard that commuting on 36V is more affordable to build over a 48V system, and is very adequate for most ebiking needs...