Prof. Arthur Spirling has put together his thoughts on "being a (successful) graduate student" brilliantly. I recommend all PhD students to read it. He's also written on manuscript rejection and job talks, which you can also find on his webpage.  

As PhD students transition from the consumers to the producers of publication-worthy research, they first need to learn how it works. I recommend all PhD students read Prof. Sara Mitchell's excellent overview of the journal publishing process.