Hi Nate,
Some good questions. The problem right now with "online" is that the reputation has been tainted by a large number of sketchy journals that are in it for the money and do not have adequate (any?) peer review. On the other hand, at the end of the day what matters is the impact factors. In spite of some hand wringing by some over this metric, it remains the most widely accepted measure of journal quality (and along with the H index, researcher impact). I have heard some people express frustration over even the most reputable online journals like PLoS because the papers are of uneven quality - more so than print journals. This may just reflect variation in editorial practices, and with a dedicated editorial board, will improve over time. I think the best advice at this point is to mix it up. I don't think a CV with only online publications would get less attention, but it would be a good idea to submit to traditional journals too - if for nothing esle, than to support your scientific societies that often publish these journals. The other deciding factor here is cost - online journals charge between $1000 and $1500 or more per paper. Society journals often do not have page charges for members. Unless you have a source of funds to cover online publication this cost may be prohibitive.
Hope that helps.
Mitch Cruzan

On 2/27/2014 6:22 AM, Nathan Lemoine wrote:
Hey ECOLOGers,

I have a question regarding the perception of publishing in open-access 
journals. First, I really like the idea behind PLoS and PeerJ (particularly 
PeerJ, due to its more reasonable price). These journals makes science 
accessible to those who are interested but can’t afford the pricey subscription 
tag of for-profit journals,  and it does work. PLoS is cited by popular 
magazines (like Men’s Health), I hear it referred to on podcasts where the 
speaker cites an article from PLoS. I see references to PLoS everywhere in the 
popular literature, etc., much more so than traditional journals. It’s pretty 
amazing how widely read it is.

In theory, it’d be a great principle to adopt a “publish only in open-access 
journals” philosophy. I’m wondering how this would be received. If someone 
submits a post-doc, faculty, or grant application with only PLoS, PeerJ, 
Ecosphere, Scientific Reports, etc. articles, would that place them behind 
others with the same quantity of publications (and ostensibly same quality of 
work) in more established journals? I get the sense that it might, which may 
discourage grad students and other early-career individuals from publishing 
more in these journals who typically want to have high-impact and 
well-recognized publications. Am I correct on this, or are times changing?

Nate

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