So is Agathis really a bad tonewood? It's used on lower priced basses but what, exactly, are its tonal properties?
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There's nothing wrong with it, and instruments have been made with it for years. Do a quick web search and you'll learn plenty about it.
The wood doesn't matter as much as the pickups, strings and the fingers of the guy playing it - so IMO there's not a lot to gain from worrying about it.
http://en.wikipedia.org/wiki/Agathis

It's a cheap wood used on imports. I personally haven't found a problem with it,other than it's an ugly wood which is why you'll probably never see it natural. My squier VM p bass is made of agathis,and tons of people rave about those basses so it can't be too bad. From what I've experienced through my VM i love it,because that bass is so loud and resonant.
the wood does have an effect but how much is pickups and electronics and how much is the wood (and of course, how much is the player)
...but how much is pickups and electronics and how much is the wood (and of course, how much is the player)
It varies from instrument to instrument and player to player.
I think too much emphasis is placed on the wood, to be honest. I have NEVER heard anyone say, after listening to a great song "Hey man, listen to that groove but that is obviously an Agathis bodied bass"
Exactly. In a band mix,no one is going to know if your bass is made out of walnut,or basswood.
One downfall is i believe it's a soft wood. But honestly I've found it doesnt matter when most import and modern basses in general are coated in a 1/8 of inch of poly.
Basswood got the same knee jerk "its cheap wood not good" reaction and still does among many. Yet many pros regarded as tops in their instrument,who tour the world with cds availabler worldwide choose it as their pref tonewood. I do think that with woods like basswood, agathis, & royal paulownia its even more important to have higher grade (sound peep luither pick, wise) then some other more "popular" tone woods. Where medium grade can still be concidered excellent. However agathis is also regarded as one of the most consistent and stable woods. With less variation of tonewood qaulity then most woods more accepted for instrument bodies.
To me agathis isnt as dark as mahogany but is darker then ash & alder. Its also a little less detailed in sound but has a slightly harder sound then mahogany. In the latter its more like the little tone tweak ebony givers compared to rosewood with fretboards. I'll take qaulity agathis over alder, ash, maple, & basswood. I'll also take a qaulity peice of agathis over a poor (in music instrument terms) peice of mahogany. But if given the chance Id take qaulity mahogany over qaulity agathis.
My order of pref for body wood is: Mahogany, with agathis as best alternate.
A soft wood? Nope, basswood and royal paulownia are and if poorer grade they can be problematically soft. However agathis is in the same hardness/strength area as mahogany in my experience. Its also generally regarded as a very stable & consistent wood. Ive owned several mahogany & agathis basses and guitars.
There will always the the bias that since it is not an expensive wood, it can't be all that good. Silly. Alder is a pretty common wood, and not particularly expensive. It doesn't look stunning in a natural finish, either, but I never hear people putting it down as a "cheap" wood.
And I recall someone saying that basswood was a crappy tonewood and used on cheaper basses. Then Ed Friedland deftly pointed out that the MM Bongo was made of basswood and that is certainly neith cheap, nor a bad instrument.