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<p class=MsoNormal><font size=2 color=blue face=Arial><span style='font-size:
11.0pt;font-family:Arial;color:blue'>Hi Toby, Pankaj (& others),<o:p></o:p></span></font></p>
<p class=MsoNormal><font size=2 color=blue face=Arial><span style='font-size:
11.0pt;font-family:Arial;color:blue'><o:p> </o:p></span></font></p>
<p class=MsoNormal><font size=2 color=blue face=Arial><span style='font-size:
11.0pt;font-family:Arial;color:blue'>It would seem essential that these terms
be brought back. I provide the detailed definitions for these terms from the
Zea mays ontology. If you’d like me to offer tweaked definitions for the
definitions offered by Toby, based on my Zea definitions, I could attempt those.<o:p></o:p></span></font></p>
<p class=MsoNormal><font size=2 color=blue face=Arial><span style='font-size:
11.0pt;font-family:Arial;color:blue'><o:p> </o:p></span></font></p>
<p class=MsoNormal><font size=2 color=blue face=Arial><span style='font-size:
11.0pt;font-family:Arial;color:blue'>Crown roots - The crown roots are the
predominant component of the adventitious root system. They are termed crown
roots because they originate from the basal portion of the growing stem known
as the crown. The crown roots are subterranean in origin. The first crown roots
(4-5), arranged in a whorl, appear at the base of the second internode about as
soon as the tip of the coleoptile reaches the soil surface. A few of the
subsequent higher internodes may have a similar number of crown roots (in
whorls), after which the successive internodes have more and larger crown
roots. The crown roots are usually extensively branched, via the production of
numerous lateral adventitious roots. Note that the adventitious roots which
arise from 2-3 internodes immediately above the soil surface (aerial in origin)
are a separate component of the adventitious root system, called 'prop' or
'brace roots'. (Feldman in Freeling & Walbot (eds), 1994. The Maize
Handbook, ID#60920; Kiesselbach, ID#59445; Poethig in Sheridan, WF (ed), 1982.
Maize for Biological Research, ID#25744; <st1:place w:st="on"><st1:City w:st="on">Vincent</st1:City>,
<st1:State w:st="on">ID</st1:State></st1:place>#165572, 2002)<o:p></o:p></span></font></p>
<p class=MsoNormal><font size=2 color=blue face=Arial><span style='font-size:
11.0pt;font-family:Arial;color:blue'><o:p> </o:p></span></font></p>
<p class=MsoNormal><font size=2 color=blue face=Arial><span style='font-size:
11.0pt;font-family:Arial;color:blue'>Seminal root system - The seminal root
system consists of the adventitious lateral roots which are present in the
ungerminated caryopsis (kernel, seed) - they are formed during embryogenesis.
The adventitious seminal lateral roots arise from 3 to 7 seminal root
primordia. These primordia originate 30-40 days post-anthesis, and emerge
between the scutellum and the first internode. The adventitious seminal lateral
root system, the primary root and its associated adventitious lateral roots,
forms a small part of the total root system of the plant. These roots are of
greatest importance during the early growth of the seedling before the
adventitious crown roots of higher internodes become well established. (Feldman
in Freeling & Walbot (eds), 1994. The Maize Handbook, ID#60920;
Kiesselbach, ID#59445; Poethig in Sheridan, WF (ed), 1982. Maize for Biological
Research, ID#25744; Vincent ID#165572, 2002)<o:p></o:p></span></font></p>
<p class=MsoNormal><font size=2 color=blue face=Arial><span style='font-size:
11.0pt;font-family:Arial;color:blue'><o:p> </o:p></span></font></p>
<p class=MsoNormal><font size=2 color=blue face=Arial><span style='font-size:
11.0pt;font-family:Arial;color:blue'>- Leszek<o:p></o:p></span></font></p>
<p class=MsoNormal><font size=2 color=blue face=Arial><span style='font-size:
11.0pt;font-family:Arial;color:blue'><o:p> </o:p></span></font></p>
<div>
<div class=MsoNormal align=center style='text-align:center'><font size=3
face="Times New Roman"><span style='font-size:12.0pt'>
<hr size=2 width="100%" align=center tabindex=-1>
</span></font></div>
<p class=MsoNormal><b><font size=2 face=Tahoma><span style='font-size:10.0pt;
font-family:Tahoma;font-weight:bold'>From:</span></font></b><font size=2
face=Tahoma><span style='font-size:10.0pt;font-family:Tahoma'> owner-po-dev@brie4.cshl.org
[mailto:owner-po-dev@brie4.cshl.org] <b><span style='font-weight:bold'>On
Behalf Of </span></b>kellogge<br>
<b><span style='font-weight:bold'>Sent:</span></b> Tuesday, May 03, 2005 11:02
AM<br>
<b><span style='font-weight:bold'>To:</span></b> Pankaj Jaiswal;
po-dev@plantontology.org<br>
<b><span style='font-weight:bold'>Subject:</span></b> Re: Nodal root innstances
(crown and seminal roots)</span></font><o:p></o:p></p>
</div>
<p class=MsoNormal><font size=3 face="Times New Roman"><span style='font-size:
12.0pt'><o:p> </o:p></span></font></p>
<div>
<p class=MsoNormal><font size=3 face="Times New Roman"><span style='font-size:
12.0pt'>Seems reasonable to me to bring these back. <o:p></o:p></span></font></p>
</div>
<div>
<p class=MsoNormal><font size=3 face="Times New Roman"><span style='font-size:
12.0pt'>How about: <o:p></o:p></span></font></p>
</div>
<div>
<p class=MsoNormal><font size=3 face="Times New Roman"><span style='font-size:
12.0pt'>crown root (definition): adventitious root initiating from one of the
earliest-formed nodes on the plant. (Comment: these roots are normally formed
at or just above ground level.) <o:p></o:p></span></font></p>
</div>
<div>
<p class=MsoNormal><font size=3 face="Times New Roman"><span style='font-size:
12.0pt'>seminal root (definition): adventitious root initiating from the
scutellar node in a grass. <o:p></o:p></span></font></p>
</div>
<div>
<p class=MsoNormal><font size=3 face="Times New Roman"><span style='font-size:
12.0pt'>Toby <o:p></o:p></span></font></p>
</div>
<p class=MsoNormal><font size=3 face="Times New Roman"><span style='font-size:
12.0pt'><o:p> </o:p></span></font></p>
<div>
<p class=MsoNormal><font size=3 face="Times New Roman"><span style='font-size:
12.0pt'>On Apr 27, 2005, at 12:40 PM, Pankaj Jaiswal wrote: <o:p></o:p></span></font></p>
</div>
<blockquote style='margin-top:5.0pt;margin-bottom:5.0pt'>
<p class=MsoNormal><font size=3 face="Times New Roman"><span style='font-size:
12.0pt'><o:p> </o:p></span></font></p>
<p class=MsoNormal><font size=3 face="Times New Roman"><span style='font-size:
12.0pt'><o:p> </o:p></span></font></p>
<div>
<p class=MsoNormal><font size=3 face="Times New Roman"><span style='font-size:
12.0pt'><http://www.plantontology.org/amigo/go.cgi?view=details&show_associations=terms&search_constraint=terms&depth=0&query=PO:0003005>
<o:p></o:p></span></font></p>
</div>
<p class=MsoNormal><font size=3 face="Times New Roman"><span style='font-size:
12.0pt'><o:p> </o:p></span></font></p>
<div>
<p class=MsoNormal><font size=3 face="Times New Roman"><span style='font-size:
12.0pt'>Can we bring back the two instances of the nodal root, <o:p></o:p></span></font></p>
</div>
<p class=MsoNormal><font size=3 face="Times New Roman"><span style='font-size:
12.0pt'><o:p> </o:p></span></font></p>
<div>
<p class=MsoNormal><font size=3 face="Times New Roman"><span style='font-size:
12.0pt'>nodal root ; <st1:place w:st="on">PO</st1:place>:0003005 <o:p></o:p></span></font></p>
</div>
<div>
<p class=MsoNormal><font size=3 face="Times New Roman"><span style='font-size:
12.0pt'>---%crown root ; <st1:place w:st="on">PO</st1:place>:0003008 <o:p></o:p></span></font></p>
</div>
<div>
<p class=MsoNormal><font size=3 face="Times New Roman"><span style='font-size:
12.0pt'>---seminal root ; <st1:place w:st="on">PO</st1:place>:0003009 <o:p></o:p></span></font></p>
</div>
<p class=MsoNormal><font size=3 face="Times New Roman"><span style='font-size:
12.0pt'><o:p> </o:p></span></font></p>
<div>
<p class=MsoNormal><font size=3 face="Times New Roman"><span style='font-size:
12.0pt'>These terms were merged to nodal root (<st1:place w:st="on">PO</st1:place>:0003005)
as synonyms. They were introduced to the anatomy.ontology in version 1.11 <o:p></o:p></span></font></p>
</div>
<p class=MsoNormal><font size=3 face="Times New Roman"><span style='font-size:
12.0pt'><o:p> </o:p></span></font></p>
<div>
<p class=MsoNormal><font size=3 face="Times New Roman"><span style='font-size:
12.0pt'>Their development is genetically controlled <o:p></o:p></span></font></p>
</div>
<div>
<p class=MsoNormal><font size=3 face="Times New Roman"><span style='font-size:
12.0pt'>http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=14980975
<o:p></o:p></span></font></p>
</div>
<p class=MsoNormal><font size=3 face="Times New Roman"><span style='font-size:
12.0pt'><o:p> </o:p></span></font></p>
<div>
<p class=MsoNormal><font size=3 face="Times New Roman"><span style='font-size:
12.0pt'>Also I need these terms for annotating the genes expressed in them <o:p></o:p></span></font></p>
</div>
<p class=MsoNormal style='margin-bottom:12.0pt'><font size=3
face="Times New Roman"><span style='font-size:12.0pt'><o:p> </o:p></span></font></p>
<div>
<p class=MsoNormal><font size=3 face="Times New Roman"><span style='font-size:
12.0pt'>#1 <o:p></o:p></span></font></p>
</div>
<div>
<p class=MsoNormal><font size=3 face="Times New Roman"><span style='font-size:
12.0pt'>cDNA-AFLP analysis of inducible gene expression in rice <o:p></o:p></span></font></p>
</div>
<div>
<p class=MsoNormal><font size=3 face="Times New Roman"><span style='font-size:
12.0pt'>seminal root tips under a water deficit <o:p></o:p></span></font></p>
</div>
<div>
<p class=MsoNormal><font size=3 face="Times New Roman"><span style='font-size:
12.0pt'>doi:10.1016/S0378-1119(03)00713-3 <o:p></o:p></span></font></p>
</div>
<div>
<p class=MsoNormal><font size=3 face="Times New Roman"><span style='font-size:
12.0pt'>http://www.paper.edu.cn/scholar/download.jsp?file=wuping-5 <o:p></o:p></span></font></p>
</div>
<p class=MsoNormal style='margin-bottom:12.0pt'><font size=3
face="Times New Roman"><span style='font-size:12.0pt'><o:p> </o:p></span></font></p>
<div>
<p class=MsoNormal><font size=3 face="Times New Roman"><span style='font-size:
12.0pt'>#2 <o:p></o:p></span></font></p>
</div>
<div>
<p class=MsoNormal><font size=3 face="Times New Roman"><span style='font-size:
12.0pt'>The Crown rootless1 Gene in Rice Is Essential for Crown Root Formation
and Is a Target of an AUXIN RESPONSE FACTOR in Auxin Signaling. <o:p></o:p></span></font></p>
</div>
<div>
<p class=MsoNormal><font size=3 face="Times New Roman"><span style='font-size:
12.0pt'>Plant Cell. 2005 Apr 13 <o:p></o:p></span></font></p>
</div>
<div>
<p class=MsoNormal><font size=3 face="Times New Roman"><span style='font-size:
12.0pt'>http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=15829602
<o:p></o:p></span></font></p>
</div>
<p class=MsoNormal style='margin-bottom:12.0pt'><font size=3
face="Times New Roman"><span style='font-size:12.0pt'><o:p> </o:p></span></font></p>
<div>
<p class=MsoNormal><font size=3 face="Times New Roman"><span style='font-size:
12.0pt'>-- <o:p></o:p></span></font></p>
</div>
<div>
<p class=MsoNormal><font size=3 face="Times New Roman"><span style='font-size:
12.0pt'>************************ <o:p></o:p></span></font></p>
</div>
<div>
<p class=MsoNormal><font size=3 face="Times New Roman"><span style='font-size:
12.0pt'>Pankaj Jaiswal, PhD <o:p></o:p></span></font></p>
</div>
<div>
<p class=MsoNormal><font size=3 face="Times New Roman"><span style='font-size:
12.0pt'>G15-Bradfield Hall <o:p></o:p></span></font></p>
</div>
<div>
<p class=MsoNormal><font size=3 face="Times New Roman"><span style='font-size:
12.0pt'>Dept. of Plant Breeding <o:p></o:p></span></font></p>
</div>
<div>
<p class=MsoNormal><st1:place w:st="on"><st1:PlaceName w:st="on"><font size=3
face="Times New Roman"><span style='font-size:12.0pt'>Cornell</span></font></st1:PlaceName>
<st1:PlaceType w:st="on">University</st1:PlaceType></st1:place> <o:p></o:p></p>
</div>
<div>
<p class=MsoNormal><font size=3 face="Times New Roman"><span style='font-size:
12.0pt'>Ithaca, NY-14853, <st1:country-region w:st="on"><st1:place w:st="on">USA</st1:place></st1:country-region>
<o:p></o:p></span></font></p>
</div>
<p class=MsoNormal><font size=3 face="Times New Roman"><span style='font-size:
12.0pt'><o:p> </o:p></span></font></p>
<div>
<p class=MsoNormal><font size=3 face="Times New Roman"><span style='font-size:
12.0pt'>Tel: +1-607-255-3103 <o:p></o:p></span></font></p>
</div>
<div>
<p class=MsoNormal><font size=3 face="Times New Roman"><span style='font-size:
12.0pt'>+1-607-255-4109 <o:p></o:p></span></font></p>
</div>
<div>
<p class=MsoNormal><font size=3 face="Times New Roman"><span style='font-size:
12.0pt'>Fax: +1-607-255-6683 <o:p></o:p></span></font></p>
</div>
<div>
<p class=MsoNormal><font size=3 face="Times New Roman"><span style='font-size:
12.0pt'>http://www.gramene.org <o:p></o:p></span></font></p>
</div>
<div>
<p class=MsoNormal><font size=3 face="Times New Roman"><span style='font-size:
12.0pt'>************************ <o:p></o:p></span></font></p>
</div>
<p class=MsoNormal style='margin-bottom:12.0pt'><font size=3
face="Times New Roman"><span style='font-size:12.0pt'><o:p> </o:p></span></font></p>
</blockquote>
<div>
<p class=MsoNormal><font size=2 face="Times New Roman"><span style='font-size:
10.0pt'>Elizabeth A. Kellogg <o:p></o:p></span></font></p>
</div>
<div>
<p class=MsoNormal><font size=2 face="Times New Roman"><span style='font-size:
10.0pt'>E. Desmond Lee and Family Professor of Botanical Studies <o:p></o:p></span></font></p>
</div>
<div>
<p class=MsoNormal><font size=2 face="Times New Roman"><span style='font-size:
10.0pt'>Department of Biology <o:p></o:p></span></font></p>
</div>
<div>
<p class=MsoNormal><font size=2 face="Times New Roman"><span style='font-size:
10.0pt'>University of Missouri-St. Louis <o:p></o:p></span></font></p>
</div>
<div>
<p class=MsoNormal><st1:place w:st="on"><st1:City w:st="on"><font size=2
face="Times New Roman"><span style='font-size:10.0pt'>St. Louis</span></font></st1:City><font
size=2><span style='font-size:10.0pt'>, <st1:State w:st="on">MO</st1:State> <st1:PostalCode
w:st="on">63121</st1:PostalCode></span></font></st1:place><font size=2><span
style='font-size:10.0pt'> <o:p></o:p></span></font></p>
</div>
<div>
<p class=MsoNormal><font size=2 face="Times New Roman"><span style='font-size:
10.0pt'>Tel: 314-516-6217 <o:p></o:p></span></font></p>
</div>
<div>
<p class=MsoNormal><font size=2 face="Times New Roman"><span style='font-size:
10.0pt'>FAX: 314-516-6233 <o:p></o:p></span></font></p>
</div>
<div>
<p class=MsoNormal><font size=2 face="Times New Roman"><span style='font-size:
10.0pt'>http://www.umsl.edu/divisions/artscience/biology/Kellogg/Kellogg/home.html</span></font>
<o:p></o:p></p>
</div>
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