vascular bundle

Mon Aug 30 09:32:39 EDT 2004

Kellogg, Elizabeth A. wrote:

> Isn't "vascular bundle" simply the term applied to a vein when viewed in cross section?  

 > I agree with Katica's earlier message that the term vascular bundle 
should remain obsolete.
> The gene in question can be annotated to vein or vascular tissue if it can't be 
 > annotated to one of the parts of the vein.  I haven't checked the 
publication myself, but I'd be pretty
 > surpirsed if it were actually expressed in every cell of the vein.
> 
I don't think so. As a curator I would be very cautious on making such a 
statement and extrapolating the information provided by the author. In 
the first instance, I would go by the authors suggestions. This is also 
a sort of leverage given to the curator since he/she may not be an 
expert in plant anatomy and by having a term like this the curator still 
has an option of doing the correct annotation as well as the user 
finding the right query term. Another argument is that from the top, 
(intact tissue) and not the section, it is hard to tell whether the 
location of the expressed gene as we are suggesting to annotate to vein 
(only for leaf) is actually expressed in bundle sheath/surrounding 
bundle sheath extensions or anywhere inside the leaf VB.

This was just a case of leaf VB/vein, but in other parts, I doubt if 
people call it veins. Its either Vascular bundle/tissue/strand.

> If the group decides to un-obsolete (great verb!) the term, then the ontology would
 > have to be considerably more complex than Pankaj outlined earlier.  I 
think it would be more like:
> 
> Sporophyte
> --p--vascular bundle
> -----i--leaf VB
> -----i--stem VB
> -----i--root VB
> -----i--stamen VB
> -----i--petal VB
> -----i--sepal VB
> -----i---etc., one each for every organ

I agree on this, the example I gave was just a simple representation.

> -----p--xylem
> -----p--phloem
> -----p--cambium
> -----p--bundle sheath
> ---------i--mestome sheath
> ---------i--parenchyma sheath
> -----p--parenchyma
> -----p--schlerenchyma
> --p--shoot
> -----p--stem
> --------p--stem VB
> -----p--leaf
> --------p--root VB
> --p--root
> -----p--root VB
> 
> Finally, to respond to an earlier message in this thread - veins (vascular bundles) are present in all plants, not just C4s.   
> Toby
> 
> 
> -----Original Message-----
> From:	owner-po-dev at brie4.cshl.org on behalf of Pankaj Jaiswal
> Sent:	Fri 8/27/2004 9:55 AM
> To:	po-dev at plantontology.org
> Cc:	
> Subject:	Re: vascular bundle
> 
> The purpose for asking this term was, that they are present in all kinds 
> of organs and not just limited to the leaves.
> 
> In leaves mid veins are representing the vasculature and the leaf VB is 
> a part of that network of vasculature and as Dave pointed out there are 
> many other parts as well.
> 
> My suggestion is to include this term. If agreed, the other question 
> would be, where should we place it, it's not just a tissue, but contains 
> a lot of tissue types. Thus it is an organized structure or a region in 
> an organ.
> 
> The proposed structure is
> i = instance of
> p = part of
> 
> 
> Sporophyte
> --p--vascular bundle
> -----i--leaf VB
> -----i--stem VB
> -----i--root VB
> -----i--stamen VB
> -----p--xylem
> -----p--phloem
> -----p--cambium
> --p--shoot
> -----p--stem
> --------p--stem VB
> -----p--leaf
> --------p--root VB
> --p--root
> -----p--root VB
> 
> I am not sure....
> 
> #1
> Its true that that the three terms xylem, phloem and cambium are not 
> always part of VB.
> 
> But as we know the PART of relationship we have suggests that, a child 
> is a partof but not always a partof parent term. Thus this lineage seems 
> correct.
> 
> #2
> Do gametophytes also have VB?
> 
> 
> 
> Suggested definitions for VB are
> 
> by Fahn: A strand of conducting tissue
> 
> By Essau: A strand like part of the vascular system composed of xylem 
> and phloem. occurs in stem, leaf and flower.
> 
> By Dickison: A strand like association of primary xylem and phloem that 
> extends throughout the plant body.
> 
> http://www.cogsci.princeton.edu/cgi-bin/webwn?stage=1&word=vascular+bundle
> a unit strand of the vascular system in stems and leaves of higher 
> plants consisting essentially of xylem and phloem
> 
> 
> 
> If that is an accepted structure then we may need a further 
> instantiation of the terms xylem, phloem and cambium, because as of now 
> these are the generic terms. But that is a topic for another request to 
> be sent on the mailing list.
> 
> 
> Thanks
> Pankaj
> 
> 
> 
> 
> Anuradha Pujar wrote:
> 
> 
>>Hello,
>>
>>These are just a couple of references, please have a look.
>>
>>
>>http://www.plantphysiol.org/cgi/content/full/129/3/1019
>>
>>http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=14630956
>>
>>http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=15258165
>>http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=14614507
>>http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=12615934
>>http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=2102372
>>
>>anu
>>
>>
> 
> 

-- 
************************
Pankaj Jaiswal, PhD
G15-Bradfield Hall
Dept. of Plant Breeding
Cornell University
Ithaca, NY-14853, USA

Tel: +1-607-255-3103
      +1-607-255-4109
Fax: +1-607-255-6683
http://www.gramene.org
************************