JATS XML Generation Doesn't Respect Multiple Author Affiliations

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• searched the issue tracker for similar issues
• installed the latest version of Quarto CLI
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Bug description

When rendering a Quarto document with multiple authors having different affiliations to JATS XML format, the generated XML incorrectly handles affiliation mapping and organization details.

Steps to reproduce

Minimal Reproducible Example

Create test.qmd:

---
title: "MWE"
format: jats
author:
    - name: John Doe
      email: john.doe@example.com
      affiliations:
          - id: ue1
            orgname: University of Example
            orgdiv1: Department of Example
            city: City
            country: Country
    - name: Jane Smith
      email: jane.smith@example.com
      affiliations:
          - id: ue2
            orgname: University of Whatever
            orgdiv1: Department of Whatever
            city: City
            country: Country
---

## Content

Test content.

Render with: quarto render test.qmd

Actual behavior

The generated XML:

1. Only creates one <aff> element despite two different affiliations being defined
2. Contains empty <institution/> tags instead of organization details
3. Maps both authors to the same affiliation ID (ue1) regardless of their specified affiliations

Problematic Output

The generated XML incorrectly shows:

<contrib-group>
  <contrib contrib-type="author">
    <!-- John Doe -->
    <xref ref-type="aff" rid="ue1">a</xref>
  </contrib>
  <contrib contrib-type="author">
    <!-- Jane Smith -->
    <xref ref-type="aff" rid="ue1">a</xref>  <!-- Should be ue2 -->
  </contrib>
</contrib-group>
<aff id="ue1">
  <institution-wrap>
    <institution/>  <!-- Should contain organization name -->
  </institution-wrap>
  <city>City</city>
  <country>Country</country>
</aff>
<!-- Missing <aff id="ue2"> element -->

Expected behavior

When multiple authors have different affiliations defined in YAML frontmatter, the generated JATS XML should:

1. Create separate <aff> elements for each unique affiliation ID
2. Include complete organization information (orgname, orgdiv1, etc.)
3. Correctly map each author to their specified affiliation via xref elements

Expected Output

Should generate:

<contrib-group>
  <contrib contrib-type="author">
    <!-- John Doe -->
    <xref ref-type="aff" rid="ue1">a</xref>
  </contrib>
  <contrib contrib-type="author">
    <!-- Jane Smith -->
    <xref ref-type="aff" rid="ue2">b</xref>
  </contrib>
</contrib-group>
<aff id="ue1">
  <institution-wrap>
    <institution>University of Example</institution>
  </institution-wrap>
  <addr-line>Department of Example</addr-line>
  <city>City</city>
  <country>Country</country>
</aff>
<aff id="ue2">
  <institution-wrap>
    <institution>University of Whatever</institution>
  </institution-wrap>
  <addr-line>Department of Whatever</addr-line>
  <city>City</city>
  <country>Country</country>
</aff>

Your environment

• Quarto Version: 1.8.24
• Operating System: macOS (Darwin 24.6.0)
• IDE: CLI

Quarto check output

Quarto 1.8.24
[✓] Checking environment information...
[✓] Checking versions of quarto binary dependencies...
      Pandoc version 3.6.3: OK
      Dart Sass version 1.87.0: OK
      Deno version 2.3.1: OK
      Typst version 0.13.0: OK
[✓] Checking versions of quarto dependencies......OK
[✓] Checking Quarto installation......OK
[✓] Checking tools....................OK
[✓] Checking LaTeX....................OK
[✓] Checking Chrome Headless....................OK
[✓] Checking basic markdown render....OK