Growth&Dev Curation ATTN Anu, Katica, Leszek

[Anuradha Pujar]

Hi Mary, Marty,

Maize mappings provided by Leszek gives considerable flexibility to
accomodate different varieties described by Marty.

The list below are the maize synonyms (growth stage) that came up for
Mary's terms: I would map to the PO term that has the synonym that comes
closest to the description in the paper being curated. If not, we could
ask for the addition of a more suitable synonym. Which after a round of
discussion, has to be added to the maize-mapping file first and then to
the ontology file.

However, literature describing  plant growth stages in weeks or days will
remain a problem. And will depend on cuators knowledge about the plant. At
gramene-rice curators choose a higher level term such as vegetative growth
or reproductive growth.


1. For immature ear
>   PO:0007046   IL.01 1/4 inflorescence length reached

PO:0007123: LP.06 six leaves visible
Syn: 3.01-ear initiation in maize, 3.1 ear initiation/mid-whorl stage in
maize, ear initiation in maize, early whorl stage in maize

PO:0007063 : LP.07 seven leaves visible
Syn; 3.01-ear initiation, 3.1 ear initiation/mid-whorl stage in maize, ear
initiation in maize

PO:0007095: LP.08 eight leaves visible
Syn: 3.01-ear initiation in Maize, 3.1 ear initiation/mid-whorl stage in
maize, ear initiation in maize

2. For Immature tassel
>   same as for immature ear.

PO:0007115: LP.04 four leaves visible
Syn: 2 tassel initiation/early whorl stage in maize, early whorl stage in
maize

LP.05 five leaves visible
Syn: tassel initiation/early whorl stage in maize, early whorl stage in maize

PO:0007025: IE.00 inflorescence tip just visible above flag leaf sheath
Syn: beginning of tassel emergence in maize

PO:0007041: PO:0007041 : inflorescence emergence from flag leaf sheath
Syn:tasseling

3. >For immature seek or kernel
>    PO:0007001   early stage of fruit ripening

PO:0007001   early stage of fruit ripening
Syn: 7 linear grain-filling in maize, 7.03-early dough in maize, 7.3 early
dough stage/embryo 3 in maize, R4 in maize, early dough, kernel content
soft, about 45% dry matter


4. >For 3-4 week leaf primordium
>    PO:0007123 LP.06 six leaves visible
 I am not sure if this goes to a whole plant growth stage term..


Thanks
anu


> Mary,
>
> The problem is trying to relate developmental programs that aren't
> necessarily related.  We've discussed this many times before.  The
> number of leaves a plant has doesn't give an indication of where that
> plant is in terms of floral development.  Gaspe Flint is fully mature
> and has flowered with only 5 leaves.  Tropical varieties won't flower
> until the plant has more than 20 leaves.
>
> The fact that corn-belt hybrids flower with a certain number of
> leaves only reflects their particular background.  Nothing general
> can be said about this.
>
> 	-Marty
>
> At 3:24 PM -0500 4/24/06, Mary (Polacco) Schaeffer wrote:
>>Anu and I have discussed the vagueness some folks use in describing
>>developmental stages as presenting a major curation challenge.  I am
>> asking
>>for some insight into making the calls in matching a precise PO term,
>> with a
>>vague literature or GenBank description, just to be sure I am not out in
>>left field with the intentions of this group. Some example calls are
>> below.
>>
>>In all cases, each gets also a plant anatomy term. Basically I am trying
>> to
>>make a statement that would not be wrong, eg at least 6 leaves (maybe
>> more)
>>should be visible in most 3-4 week maize plants. An immature ear might be
>>considered to be smaller or bigger that 1/4 inflorescence length, etc.
>>
>>So is there a better call for the below?
>>
>>For immature ear
>>   PO:0007046   IL.01 1/4 inflorescence length reached
>>For Immature tassel
>>   same as for immature ear.
>>For immature seek or kernel
>>    PO:0007001   early stage of fruit ripening
>>For 3-4 week leaf primordium
>>    PO:0007123 LP.06 six leaves visible
>>For juvenile shoot
>>    PO:0006339  juvenile leaf
>>
>>
>>
>>Thanks,
>>  mary
>>
>>
>
>