As cookingrobot says, gmails threading is one dimensional and super clunky when you have lots of replies. It auto collapses to far so you can't easily reply to a particular message in the thread.
Reddit has the best comment threading system of any site online. Quora is near the worst. HN is just slightly frustrating.
Reddit used be written in Lisp, but they switched to Python early on: http://blog.reddit.com/2005/12/on-lisp.html
I do agree that they look alike, Hacker News was inspired by Reddit.
No one seems to get this, not HN, not Quora, Digg (though that doesn't matter any longer...)
Its about increasing the information consumption rate and navigation rate. Collapsing is critical to navigating threads with thousands of comments, even tens of comments!
Any UX designer who does not see this, is, in my book, worthless.
> you can't reply to one person's comment
You can, but it doesn't maintain proper threading. It just groups them all together and sorts by date.
As in Gmail?