Conduits are used for grouping signals.
For example, lets say I have a bunch of control registers with a Qsys interface, and those control registers go off and control *different* things. For the sake of discussion, lets say my control registers implement a bit-banged SPI interface and a bit-banged I2C interface. The signals for those respective interfaces would be
SPI = spi_selN, spi_sck, spi_mosi, spi_miso
I2C = i2c_scl, i2c_sda_oe, i2s_sda_in
In the _hw.tcl file, to group these interfaces, I would create two conduits, one called spi and the other called i2c. In a Qsys system, when you export these conduits, if you name them spi and i2c, then they retain that text as the signal prefix, i.e., the top-level Qsys ports will be named nicely.
So, whether or not you use a single conduit or multiple is up to you.
The fact that your conduit names are "conduit_end_0", "conduit_end_1" implies that your _hw.tcl was probably automatically generated. I'd recommend reading more about _hw.tcl scripts, and writing your own.
Cheers,
Dave