vascular bundle

[Pankaj Jaiswal]

BTW, the term "vascular bundle" was never introduced to the POC anatomy 
files, despite Gramene having it. So no question of obsolete or 
un-obsolete. This is a new term request based on our mapping and new 
annotation requirements. I was the one who was doing tissue node and did 
not introduce the term at that time because, VB is not a tissue type.


One another note, we have a term called bundle sheath which is 
suggesting there is a plant structure called VB.

bundle sheath

     * Accession: PO:0006023
     * Aspect: plant structure
     * Synonyms: None
     * Definition:
            A layer or layers of cells surrounding the vascular bundles 
of leaves. It may consist of parenchyma or sclerenchyma.

-Pankaj


Pankaj Jaiswal wrote:
> 
> 
> 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