https://wiki.wormbase.org/index.php?title=UserGuide:Nomenclature_nematode&feed=atom&action=historyUserGuide:Nomenclature nematode - Revision history2024-03-29T10:42:28ZRevision history for this page on the wikiMediaWiki 1.33.0https://wiki.wormbase.org/index.php?title=UserGuide:Nomenclature_nematode&diff=11263&oldid=prevTharris: Protected "UserGuide:Nomenclature nematode": This page has been migrated to the new website ([edit=sysop] (indefinite) [move=sysop] (indefinite))2011-06-14T19:43:34Z<p>Protected "<a href="/index.php/UserGuide:Nomenclature_nematode" title="UserGuide:Nomenclature nematode">UserGuide:Nomenclature nematode</a>": This page has been migrated to the new website ([edit=sysop] (indefinite) [move=sysop] (indefinite))</p>
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<td colspan="1" style="background-color: #fff; color: #222; text-align: center;">Revision as of 19:43, 14 June 2011</td>
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</td></tr></table>Tharrishttps://wiki.wormbase.org/index.php?title=UserGuide:Nomenclature_nematode&diff=6214&oldid=prevCgrove at 18:30, 17 August 20102010-08-17T18:30:51Z<p></p>
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</tr><tr><td colspan="2" class="diff-lineno" id="mw-diff-left-l63" >Line 63:</td>
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<tr><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div># In cases where the molecular identity is unknown and the mutant phenotype does not correspond to a known ''C. elegans'' mutant phenotype, a new gene class name can be established, following consultation with '''genenames@wormbase.org''' in order to ensure that the new name is available and appropriate. e.g.</div></td><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div># In cases where the molecular identity is unknown and the mutant phenotype does not correspond to a known ''C. elegans'' mutant phenotype, a new gene class name can be established, following consultation with '''genenames@wormbase.org''' in order to ensure that the new name is available and appropriate. e.g.</div></td></tr>
<tr><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>#* ''cov'' = Competence and/or centering Of Vulva abnormal.</div></td><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>#* ''cov'' = Competence and/or centering Of Vulva abnormal.</div></td></tr>
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</table>Cgrovehttps://wiki.wormbase.org/index.php?title=UserGuide:Nomenclature_nematode&diff=492&oldid=prevMatuli: /* Gene naming: Forward Genetics */2008-01-11T07:32:24Z<p><span dir="auto"><span class="autocomment">Gene naming: Forward Genetics</span></span></p>
<table class="diff diff-contentalign-left" data-mw="interface">
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<td colspan="2" style="background-color: #fff; color: #222; text-align: center;">Revision as of 07:32, 11 January 2008</td>
</tr><tr><td colspan="2" class="diff-lineno" id="mw-diff-left-l59" >Line 59:</td>
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<tr><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div># In cases where the molecular identity is not initially known, but the mutant phenotype corresponds to a known ''C. elegans'' mutant phenotype, it is recommended that the mutant gene be temporarily defined using the relevant gene class name and the mutation number, in parentheses. e.g.</div></td><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div># In cases where the molecular identity is not initially known, but the mutant phenotype corresponds to a known ''C. elegans'' mutant phenotype, it is recommended that the mutant gene be temporarily defined using the relevant gene class name and the mutation number, in parentheses. e.g.</div></td></tr>
<tr><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>#* mutation ''s1270'' isolated in ''C. briggsae'' confers an uncoordinated phenotype, so the gene is temporarily called ''unc(s1270)'' or ''Cbr-unc(s1270)''.</div></td><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>#* mutation ''s1270'' isolated in ''C. briggsae'' confers an uncoordinated phenotype, so the gene is temporarily called ''unc(s1270)'' or ''Cbr-unc(s1270)''.</div></td></tr>
<tr><td class='diff-marker'>−</td><td style="color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #ffe49c; vertical-align: top; white-space: pre-wrap;"><div> </div></td><td class='diff-marker'>+</td><td style="color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div><ins class="diffchange diffchange-inline"><br></ins></div></td></tr>
<tr><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>Once the molecular identity becomes known, the gene can be given an approved ''unc-'' number, using the number of the ''C. elegans'' ortholog (if this exists) or a new number (if there is no suitable ''C. elegans'' ortholog).</div></td><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>Once the molecular identity becomes known, the gene can be given an approved ''unc-'' number, using the number of the ''C. elegans'' ortholog (if this exists) or a new number (if there is no suitable ''C. elegans'' ortholog).</div></td></tr>
<tr><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div># In cases where the molecular identity is unknown and the mutant phenotype does not correspond to a known ''C. elegans'' mutant phenotype, a new gene class name can be established, following consultation with '''genenames@wormbase.org''' in order to ensure that the new name is available and appropriate. e.g.</div></td><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div># In cases where the molecular identity is unknown and the mutant phenotype does not correspond to a known ''C. elegans'' mutant phenotype, a new gene class name can be established, following consultation with '''genenames@wormbase.org''' in order to ensure that the new name is available and appropriate. e.g.</div></td></tr>
<tr><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>#* ''cov'' = Competence and/or centering Of Vulva abnormal.</div></td><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>#* ''cov'' = Competence and/or centering Of Vulva abnormal.</div></td></tr>
</table>Matulihttps://wiki.wormbase.org/index.php?title=UserGuide:Nomenclature_nematode&diff=491&oldid=prevMatuli: /* Gene naming: Forward Genetics */2008-01-11T07:31:43Z<p><span dir="auto"><span class="autocomment">Gene naming: Forward Genetics</span></span></p>
<table class="diff diff-contentalign-left" data-mw="interface">
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<td colspan="2" style="background-color: #fff; color: #222; text-align: center;">Revision as of 07:31, 11 January 2008</td>
</tr><tr><td colspan="2" class="diff-lineno" id="mw-diff-left-l59" >Line 59:</td>
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<tr><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div># In cases where the molecular identity is not initially known, but the mutant phenotype corresponds to a known ''C. elegans'' mutant phenotype, it is recommended that the mutant gene be temporarily defined using the relevant gene class name and the mutation number, in parentheses. e.g.</div></td><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div># In cases where the molecular identity is not initially known, but the mutant phenotype corresponds to a known ''C. elegans'' mutant phenotype, it is recommended that the mutant gene be temporarily defined using the relevant gene class name and the mutation number, in parentheses. e.g.</div></td></tr>
<tr><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>#* mutation ''s1270'' isolated in ''C. briggsae'' confers an uncoordinated phenotype, so the gene is temporarily called ''unc(s1270)'' or ''Cbr-unc(s1270)''.</div></td><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>#* mutation ''s1270'' isolated in ''C. briggsae'' confers an uncoordinated phenotype, so the gene is temporarily called ''unc(s1270)'' or ''Cbr-unc(s1270)''.</div></td></tr>
<tr><td colspan="2"> </td><td class='diff-marker'>+</td><td style="color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div><ins style="font-weight: bold; text-decoration: none;"></ins></div></td></tr>
<tr><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>Once the molecular identity becomes known, the gene can be given an approved ''unc-'' number, using the number of the ''C. elegans'' ortholog (if this exists) or a new number (if there is no suitable ''C. elegans'' ortholog).</div></td><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>Once the molecular identity becomes known, the gene can be given an approved ''unc-'' number, using the number of the ''C. elegans'' ortholog (if this exists) or a new number (if there is no suitable ''C. elegans'' ortholog).</div></td></tr>
<tr><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div># In cases where the molecular identity is unknown and the mutant phenotype does not correspond to a known ''C. elegans'' mutant phenotype, a new gene class name can be established, following consultation with '''genenames@wormbase.org''' in order to ensure that the new name is available and appropriate. e.g.</div></td><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div># In cases where the molecular identity is unknown and the mutant phenotype does not correspond to a known ''C. elegans'' mutant phenotype, a new gene class name can be established, following consultation with '''genenames@wormbase.org''' in order to ensure that the new name is available and appropriate. e.g.</div></td></tr>
<tr><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>#* ''cov'' = Competence and/or centering Of Vulva abnormal.</div></td><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>#* ''cov'' = Competence and/or centering Of Vulva abnormal.</div></td></tr>
</table>Matulihttps://wiki.wormbase.org/index.php?title=UserGuide:Nomenclature_nematode&diff=490&oldid=prevMatuli: /* Gene naming: Forward Genetics */2008-01-11T07:31:33Z<p><span dir="auto"><span class="autocomment">Gene naming: Forward Genetics</span></span></p>
<table class="diff diff-contentalign-left" data-mw="interface">
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<td colspan="2" style="background-color: #fff; color: #222; text-align: center;">Revision as of 07:31, 11 January 2008</td>
</tr><tr><td colspan="2" class="diff-lineno" id="mw-diff-left-l57" >Line 57:</td>
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<tr><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div># In cases where the molecular identity is known and orthology is obvious, it is recommended that the ''C. elegans'' name be used, with the appropriate species identifier prefix. e.g.</div></td><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div># In cases where the molecular identity is known and orthology is obvious, it is recommended that the ''C. elegans'' name be used, with the appropriate species identifier prefix. e.g.</div></td></tr>
<tr><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>#* ''Ppa-mab-5'' is the ''Pristionchus pacificus'' ortholog of ''C. elegans mab-5''.</div></td><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>#* ''Ppa-mab-5'' is the ''Pristionchus pacificus'' ortholog of ''C. elegans mab-5''.</div></td></tr>
<tr><td class='diff-marker'>−</td><td style="color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #ffe49c; vertical-align: top; white-space: pre-wrap;"><div><del style="font-weight: bold; text-decoration: none;"></del></div></td><td colspan="2"> </td></tr>
<tr><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div># In cases where the molecular identity is not initially known, but the mutant phenotype corresponds to a known ''C. elegans'' mutant phenotype, it is recommended that the mutant gene be temporarily defined using the relevant gene class name and the mutation number, in parentheses. e.g.</div></td><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div># In cases where the molecular identity is not initially known, but the mutant phenotype corresponds to a known ''C. elegans'' mutant phenotype, it is recommended that the mutant gene be temporarily defined using the relevant gene class name and the mutation number, in parentheses. e.g.</div></td></tr>
<tr><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>#* mutation ''s1270'' isolated in ''C. briggsae'' confers an uncoordinated phenotype, so the gene is temporarily called ''unc(s1270)'' or ''Cbr-unc(s1270)''.</div></td><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>#* mutation ''s1270'' isolated in ''C. briggsae'' confers an uncoordinated phenotype, so the gene is temporarily called ''unc(s1270)'' or ''Cbr-unc(s1270)''.</div></td></tr>
</table>Matulihttps://wiki.wormbase.org/index.php?title=UserGuide:Nomenclature_nematode&diff=489&oldid=prevMatuli at 07:31, 11 January 20082008-01-11T07:31:13Z<p></p>
<table class="diff diff-contentalign-left" data-mw="interface">
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<td colspan="2" style="background-color: #fff; color: #222; text-align: center;">← Older revision</td>
<td colspan="2" style="background-color: #fff; color: #222; text-align: center;">Revision as of 07:31, 11 January 2008</td>
</tr><tr><td colspan="2" class="diff-lineno" id="mw-diff-left-l60" >Line 60:</td>
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<tr><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div># In cases where the molecular identity is not initially known, but the mutant phenotype corresponds to a known ''C. elegans'' mutant phenotype, it is recommended that the mutant gene be temporarily defined using the relevant gene class name and the mutation number, in parentheses. e.g.</div></td><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div># In cases where the molecular identity is not initially known, but the mutant phenotype corresponds to a known ''C. elegans'' mutant phenotype, it is recommended that the mutant gene be temporarily defined using the relevant gene class name and the mutation number, in parentheses. e.g.</div></td></tr>
<tr><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>#* mutation ''s1270'' isolated in ''C. briggsae'' confers an uncoordinated phenotype, so the gene is temporarily called ''unc(s1270)'' or ''Cbr-unc(s1270)''.</div></td><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>#* mutation ''s1270'' isolated in ''C. briggsae'' confers an uncoordinated phenotype, so the gene is temporarily called ''unc(s1270)'' or ''Cbr-unc(s1270)''.</div></td></tr>
<tr><td class='diff-marker'>−</td><td style="color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #ffe49c; vertical-align: top; white-space: pre-wrap;"><div><del style="font-weight: bold; text-decoration: none;"></del></div></td><td colspan="2"> </td></tr>
<tr><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>Once the molecular identity becomes known, the gene can be given an approved ''unc-'' number, using the number of the ''C. elegans'' ortholog (if this exists) or a new number (if there is no suitable ''C. elegans'' ortholog).</div></td><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>Once the molecular identity becomes known, the gene can be given an approved ''unc-'' number, using the number of the ''C. elegans'' ortholog (if this exists) or a new number (if there is no suitable ''C. elegans'' ortholog).</div></td></tr>
<tr><td class='diff-marker'>−</td><td style="color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #ffe49c; vertical-align: top; white-space: pre-wrap;"><div><del style="font-weight: bold; text-decoration: none;"></del></div></td><td colspan="2"> </td></tr>
<tr><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div># In cases where the molecular identity is unknown and the mutant phenotype does not correspond to a known ''C. elegans'' mutant phenotype, a new gene class name can be established, following consultation with '''genenames@wormbase.org''' in order to ensure that the new name is available and appropriate. e.g.</div></td><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div># In cases where the molecular identity is unknown and the mutant phenotype does not correspond to a known ''C. elegans'' mutant phenotype, a new gene class name can be established, following consultation with '''genenames@wormbase.org''' in order to ensure that the new name is available and appropriate. e.g.</div></td></tr>
<tr><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>#* ''cov'' = Competence and/or centering Of Vulva abnormal.</div></td><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>#* ''cov'' = Competence and/or centering Of Vulva abnormal.</div></td></tr>
</table>Matulihttps://wiki.wormbase.org/index.php?title=UserGuide:Nomenclature_nematode&diff=160&oldid=prevTharris: New page: = Genetic Nomenclature for Nematodes = == Curation and Supervision == An accepted system of gene nomenclature was established for the nematode ''Caenorhabditis elegans'' in the nineteen ...2007-09-24T12:06:37Z<p>New page: = Genetic Nomenclature for Nematodes = == Curation and Supervision == An accepted system of gene nomenclature was established for the nematode ''Caenorhabditis elegans'' in the nineteen ...</p>
<p><b>New page</b></p><div>= Genetic Nomenclature for Nematodes =<br />
<br />
== Curation and Supervision ==<br />
<br />
An accepted system of gene nomenclature was established for the nematode ''Caenorhabditis elegans'' in the nineteen seventies (see Horvitz ''et al''., 1979 ''Mol. Gen. Genet.'' '''175'''<nowiki>: 129-133). This system has been refined and consistently used by the many laboratories (currently over 500, world-wide) engaged in active </nowiki>''C. elegans'' research. The guidelines and recommendations for ''C. elegans'' genetic nomenclature are posted on [[Nomenclature|WormBase]] and are also available from the [http://www.cbs.umn.edu/CGC/ CGC].<br />
<br />
Increasing amounts of genomic and genetic information have become available for other nematode species. Draft complete genome sequences have been generated for several of these other nematodes, some of which are being curated by WormBase. For these organisms, gene naming will also be supervised by WormBase, in order to maximize consistency with ''C. elegans.''<br />
<br />
It is recommended that nomenclature in general should follow the principles used for ''C. elegans'', as far as possible.<br />
<br />
== How to Register a New Gene Class or Gene Name ==<br />
<br />
Investigators wishing to register new gene names for ''C. elegans'' should note the summary guidelines below and apply online via the WormBase online [http://minerva.caltech.edu/~azurebrd/cgi-bin/forms/gene_name.cgi Submission Form] or by email application to '''genenames@wormbase.org'''<br />
<br />
== Species Prefixes ==<br />
<br />
In order to unambiguously specify the nematode species-of-origin, a 3-letter standard prefix and hyphen can be added to the gene name. Examples: the ''C. briggsae'' and ''Pristionchus pacificus'' orthologs of ''C. elegans tra-1'' are called ''Cbr-tra-1'' and ''Ppa-tra-1'', respectively.<br />
<br />
Prefixes so far used include:<br />
<br />
* ''Cel-'' = ''Caenorhabditis elegans''<br />
* ''Cbr-'' = ''Caenorhabditis briggsae''<br />
* ''Cre-'' = ''Caenorhabditis remanei''<br />
* ''Cbn-'' = ''Caenorhabditis brenneri''<br />
* ''Cjp-'' = ''Caenorhabditis japonica''<br />
* ''Hba-'' = ''Heterorhabditis bacteriophora''<br />
* ''Oti-'' = ''Oscheius tipulae''<br />
* ''Ppa-'' = ''Pristionchus pacificus''<br />
<br />
== Gene naming: Homologous Genes ==<br />
<br />
Genes predicted from whole genome sequences in other nematode species will, in most cases, have identifiable close homologs in'' C. elegans'', for which approved names already exist. In these cases, the same name should be used as in ''C. elegans'', with the relevant species identifier.<br />
<br />
=== Possible Scenarios ===<br />
<br />
* '''One-to-one'''<nowiki>: Where one gene in </nowiki>''C. elegans'' corresponds to a single gene in another nematode species, ortholog naming can be applied automatically. e.g.<br />
** ''thoc-1'' in ''C. elegans'' has a ''C. briggsae'' ortholog, ''Cbr-thoc-1''.<br />
<br />
* '''One-to-many'''<nowiki>: Where one gene in </nowiki>''C. elegans ''is related to multiple genes ('''paralogs''') in another nematode species, these paralogs can be named using additional decimal numbers. e.g.<br />
** ''thoc-3'' in ''C. elegans'' has two ''C. briggsae'' paralogs, ''Cbr-thoc-3.1'' and ''Cbr-thoc-3.2''.<br />
<br />
* '''Many-to-one'''<nowiki>: Where multiple genes exist in </nowiki>''C. elegans'', but only a single gene in another nematode species, it is recommended that either the most closely similar, or the lowest numbered ''C. elegans'' gene, be used to name the single gene, as appropriate.<br />
<br />
* '''Many-to-many'''<nowiki>: Where multiple closely related genes can be identified in both species, but the phylogenetic relationships of the two sets are complex, new gene numbers can be assigned to the set of genes in the other nematode species, after consultation with </nowiki>'''genenames@wormbase.org.'''<br />
<br />
* In cases where a standard gene name has not yet been assigned in ''C. elegans'', the gene can be referred to using the cosmid.number identifier for the ''C. elegans gene'', preceded by a species prefix. e.g.<br />
** the ortholog of ''C. elegans W01B11.3'' in ''Heterorhabditis bacteriophora'' can be referred to as ''Hba-W01B11.3''. However, in such cases it will usually be both feasible and desirable to assign a standard name to the ''C. elegans'' gene as well, at the same time.<br />
<br />
== Gene Naming: Non-homologous Genes ==<br />
<br />
It is expected that many genes in other nematode species will lack obvious close homologs in ''C. elegans'', because of loss or substantial divergence during the evolution of ''C. elegans''. These genes can be given new gene numbers, if they belong to an identifiable named class in ''C. elegans'', or else new gene name classes can be established for them. In either case, assignment of an approved name should be made after consultation with '''genenames@wormbase.org.'''<br />
<br />
== Gene naming: Forward Genetics ==<br />
<br />
A significant amount of mutation-based forward genetic analysis is being pursued in nematodes other than ''C. elegans'', in particular using other species of ''Caenorhabditis (C. briggsae, C. remanei, C. brenneri'' and others), as well as species of ''Oscheius'' and ''Pristionchus''. It is expected that most, but not all, of the mutationally-defined genes discovered in these species will prove to have orthologs with equivalent or similar function in ''C. elegans'', and hence that standard genetic names will have been approved already. Several situations can arise:<br />
<br />
# In cases where the molecular identity is known and orthology is obvious, it is recommended that the ''C. elegans'' name be used, with the appropriate species identifier prefix. e.g.<br />
#* ''Ppa-mab-5'' is the ''Pristionchus pacificus'' ortholog of ''C. elegans mab-5''.<br />
<br />
# In cases where the molecular identity is not initially known, but the mutant phenotype corresponds to a known ''C. elegans'' mutant phenotype, it is recommended that the mutant gene be temporarily defined using the relevant gene class name and the mutation number, in parentheses. e.g.<br />
#* mutation ''s1270'' isolated in ''C. briggsae'' confers an uncoordinated phenotype, so the gene is temporarily called ''unc(s1270)'' or ''Cbr-unc(s1270)''.<br />
<br />
Once the molecular identity becomes known, the gene can be given an approved ''unc-'' number, using the number of the ''C. elegans'' ortholog (if this exists) or a new number (if there is no suitable ''C. elegans'' ortholog).<br />
<br />
# In cases where the molecular identity is unknown and the mutant phenotype does not correspond to a known ''C. elegans'' mutant phenotype, a new gene class name can be established, following consultation with '''genenames@wormbase.org''' in order to ensure that the new name is available and appropriate. e.g.<br />
#* ''cov'' = Competence and/or centering Of Vulva abnormal.</div>Tharris