Daphnia's "best" model organism genome for homology.

Fruitfly, Mouse, Human and other well studied genomes
offer useful homology/orthology evidence for Daphnia.  
Which may be best?

    MOD Gene Ontology evidence codes, and Daphnia homology
  
                               In Daphnia   Daphnia Daphnia Daphnia 
    GO-Experimental/Computed      N (MOD%)   Unique  "Best" bitscore
       
  Mouse:     10475 / 16344     10522 (55.5%)  1297    1743   135
  Human:      8647 / 29989     12429 (55.9%)    na      na   137 
  Fruitfly:   3898 /  8818      7965 (59.1%)  1648    2282   146 
  Zebrafish:   998 / 12150     15172 (64.5%)    na      na   132 
  Worm:       6850 / 20247      6453 (32.6%)    na     547   117
  Yeast:      5582 /  1601      2244 (38.8%)    na      97   118
  ------------------------------------------------------------------
  
    GO Computed genes have only these evidence codes (IEA|ISS|NAS|ND|NR)
    "In Daphnia" is MOD gene with tBLASTn e-value < 1e-10.
    Daphnia Unique  is MOD gene count with no other organism match.
    Daphnia Best is MOD gene count where match is notably better than others.
    Insects fruitfly, mosquito and bee show similar gene homology score.
    Daphnia compu-genes with 2+ MOD organisms:          15,883 
    Daphnia compu-genes with no MOD gene but EST match:  6,376

 See also this summary of model genes found:
 http://wfleabase.org/prerelease/summaries/daphnia-foundgenes-aug06.html

The insect genes are more closely related to Daphnia than the
vertebrates.  So Fruitfly is a good model choice from a homology
perspective.  However flies have fewer known genes to match; in fact
I've found evidence for a 1000 Daphnia genes hiding in the
uncharacterized Fruitfly genome.

Mouse is a good model organism whose experimentally determined gene
functions are of stronger value than human genes. Mouse and human
genes are fairly closely paired in number, homology to each other, and
homology to Daphnia.  Of human and mouse gene names, 13,000 are the
same, 3000 are different. 

Zebrafish has the most matching genes.  It is a model organism with
growing experimental data on gene function, although it trails the
others in this now.

-- Don Gilbert,  2007 March