Just because wood is porous doesn't make it less sanitary than glass, metal or plastic. While I know of no research on cheese vats in particular, there have been several studies on the safety of wooden vs plastic/glass cutting boards. Specifically, attention was paid to how bacteria hides in the cuts and crevices of used cutting boards. This should be analogous to how bacteria might behave in a barrel.
Short version: When Salmonella, Listeria and Escherichia coli were applied to wooden cutting boards, the bacteria died within three minutes while none died on the plastic cutting boards. When incubated overnight at room temperature, no bacteria were found on the wooden cutting boards while the bacterial counts on plastic cutting boards actually increased. Source:
http://www.nytimes.com/1993/02/10/health/wooden-cutting-boards-found-safer-than-plastic.htmlIt is unknown why the wood is so bactericidal. While the porous nature of wood does allow some bacteria to penetrate below the surface, it is very difficult of the bacteria to ever be released again. Washing the wood with a quaternary ammonium detergent (spray cleaner) preserves its antibacterial properties. Plastic requires chlorine bleach. Source:
https://news.ncsu.edu/2014/09/cutting-boards-food-safety/Finally, the research page of the UC Davis Food Safety Lab concerning wooden cutting boards:
http://faculty.vetmed.ucdavis.edu/faculty/docliver/Research/cuttingboard.htm Dean Cliver started this research project to see what kind of sterilization was needed to make wooden cutting boards as "almost as safe" as plastic ones, but it turns out wood was the best choice all along. Quote from the above link: "... we regard it as the best epidemiological evidence available to date that wooden cutting boards are not a hazard to human health, but plastic cutting boards may be."
Wash your wooden barrel with hot, soapy water and then let it dry thoroughly. Yes, the barrel will shrink and you'll have to swell it again before it will hold water/whey next time, but there's little chance in anything bad carrying over.
One last quote from my favorite TV chef, Gareth Blackstock: "That's what cheese is - gone-off milk with bugs and mold! That's why it tastes so good!"
Cheerio,
Brochis