- 3 restoration categories: F, G, I.
- On each treatment, there is a fertilization treatment: +/-
- Because I am interested in the main effects of both restoration, fertilization, and the interaction, I believe this is 3x2 design.
- Three randomly selected sites were sampled for each restoration+fertilization treatment, for a total of 18 sites.
- These 18 sites were sampled immediately following the restoration implementation, and then the same sites were sampled repeatedly over a year, for a total of 5 sampling events.
- Samples were sediment cores that were divided into depth horizons; I am treating sediment depth as a covariable

Whereas the site factor is not my primary interest, I would like to know if there are significant site effects.

I am having difficulty in defining the model terms and in particular any nesting that should involve site and/or time. I have seen repeated sampling designs with terms of time, treatment, and site nested in treatment, but I haven't been able to find examples of a 4-way example.

I am using Primer/Permanova for multivariate hypothesis testing, modeling, and ordination.

Many thanks for any advice!