title: Multiple bookdown/rmarkdown/knitr issues around kable-tables
body: <p>In RStudio I'm trying to use rmarkdown in conjunction with <a href="https://bookdown.org/yihui/bookdown/" rel="nofollow noreferrer" title="Bookdown">bookdown</a> (mostly for the capabilitites to reference tables and figures) and am running into trouble with the formatting in tables and captions. Please consider the following example:</p>
  <pre><code>---
  title: &quot;Test&quot;
  knit: &quot;bookdown::render_book&quot;
  output:
    bookdown::pdf_book:
      keep_tex: yes
  link-citations: true
  references:
  - type: article-journal
    id: WatsonCrick1953
    author:
    - family: Watson
      given: J. D.
    - family: Crick
      given: F. H. C.
    issued:
      1953
    title: 'Molecular structure of nucleic acids: a structure for     deoxyribose
  nucleic acid'
    container-title: Nature
    volume: 171
    issue: 4356
    page: 737-738
  ---
  ```{r setup, include=FALSE}
  library(knitr)
  opts_chunk$set(echo = TRUE)
  ```
  @WatsonCrick1953
  ```{r test-table, tidy=FALSE, echo = FALSE}
  kable(
    data.frame(
      Citation = c(&quot;@WatsonCrick1953&quot;),
      Formatted.String = c(&quot;Some--Thing^2^&quot;)),
    caption = &quot;*Bold* in a caption;&quot;#, booktabs = TRUE
  )
  ```
  </code></pre>
  <p>A detail of the resulting product is:
  <a href="https://i.stack.imgur.com/tZNDo.png" rel="nofollow noreferrer"><img src="https://i.stack.imgur.com/tZNDo.png" alt="enter image description here" /></a></p>
  <p>This has multiple issues:</p>
  <ol>
  <li>&quot;Bold&quot; in the caption isn't rmarkdown formatted</li>
  <li>&quot;^2^&quot; does not produce the expected superscripting (particularly strange, as &quot;--&quot; is understood as en-dash)</li>
  <li>The citation is not understood within the table (in the text, above the table code, it works just fine but is not included in the screen shot)</li>
  </ol>
  <p>A further issue is that the currently produced latex does not produce a reference to the &quot;booktabs&quot; package, which is presumably needed to properly use the &quot;booktabs = TRUE&quot; argument to kable (which comes directly from the booktabs documentation and thus ought to work).</p>
  <p>Please let me know how I may achieve what I am trying ...</p>
  <p>Joh</p>