Table 3

Genes identified as putative Pros targets and their manual annotation

Genes

symbol

Biological function in larvae (manual annotation)


Cell fate commitment (GO:0045165, p = 0.0003)


αEst1*

CG1031

Sensory neuron morphogenesis


Art3*

CG6563

Not studied in larvae


Ash2*

CG6677

Neurite outgrowth, synapse formation, growth, sensory organ development


CG10632*

CG10632

Unknown


CG10671*

CG10671

Unknown


CG3021*

CG3021

Unknown


CG31637*

CG31637

Unknown


CG31961*

CG31961

Unknown


CG31731*

CG31731

Unknown


CG6388

CG6388

Neurite outgrowth


CG7878*

CG7878

Unknown


CG8155*

CG8155

Unknown


DPAL1*

CG12130

Neuropeptide biosynthesis


FK506-bp1*

CG6226

Autophagy; growth


Ftz-F1*

CG4059

Autophagy, sensory organ formation, olfaction


Hb*

CG9786

Labial segment formation including sense organ


Iap2*

CG8293

Autophagy, sensory organ development


Inx3*

CG1448

Not studied in larvae


Keren*

CG32179

Autophagy, sensory organ development


Mbo*

CG6819

Tracheal system development


Nak*

CG10637

Not studied in larvae


Nej *

CG15319

Synaptic transmission, autophagy


Notch*

CG3936

Neurite outgrowth, nutrient sensing/growth, sense organ formation, olfaction


Pelo*

CG3959

Not studied in larvae


Psq*

CG2368

Sensory organ development, olfaction


Rac1*

CG2248

Neurite outgrowth, sensory organ development


Tollo*

CG6890

Synaptogenesis, wing development, immune response


TFIIs*

CG3710

Not studied in larvae


LK6

CG17342

Autophagy growth, nutrient sensor mechanism,


Proteasome complex (GO:0000502, p < 10-5,)


Pros 26.4

CG5289

Neuronal remodelling, Autophagy


Prosβ2

CG3329

Neuronal remodelling, Synaptic transmission, autophagy, sensory organ formation


Pros26

CG4097

Neuronal remodelling, Synaptic transmission, autophagy


Prosα6

CG18495

Neuronal remodelling, Synaptic transmission, autophagy


Prosα7

CG1519

Neuronal remodelling, Synaptic transmission, autophagy


ProsMA5

CG10938

Not studied in larvae


RPN1

CG7762

Neuronal remodelling, Autophagy


RPN2

CG11888

Neuronal remodelling, Autophagy


RPN5

CG1100

Neuronal remodelling, Autophagy


Signal transduction (GO:0004871, p = 0.0008)


Bnl

CG4608

Neurite outgrowth


CaMKI

CG1495

Synaptic transmission


CG10011

CG10011

Unknown


CG10702

CG10702

Autophagy


CG1088

CG10882

Unknown


CG31714

CG31714

Unknown


CG4839

CG4839

Unknown


CG5790

CG5790

Unknown


CG7536

CG7536

Unknown


CG7800

CG7800

Unknown


CKII α

CG17520

Sensory organ development


Dok

CG2079

Sensory organ development


EGFR

CG10079

Neurite outgrowth, synapse formation, growth, autophagy sensory organ development, olfaction


feo

CG11207

Mitotic spindle organisation


Gek

CG4012

Actin polymerisation


Gwl

CG7719

Neurite outgrowth, synaptic transmission, mitotic cell cycle


InaC

CG6518

Not studied in larvae


Kdelr

CG5183

Not studied in larvae


LimK1

CG1848

Neurite outgrowth, synaptic transmission


Lok

CG10895

Cell cycle, DNA damage checkpoint


Loco

CG5248

Not studied in larvae


Mcr

CG7586

Olfaction


PhKγ

CG1830

Not studied in larvae


Pvr

CG8222

Hemocyte formation, dorsal closure, macrochaete formation


Rh7

CG5638

Not studied in larvae


Toll-6

CG7250

Not studied in larvae


The 64 genes found highly correlated in the peak 1, 2 and 3 are grouped according to their respective GO annotation class. The most significant classes of genes enriched in our list are "Cell fate commitment", "proteasome complex" and "signal transduction". The p value indicates the probability for a given ontology to be associated at random to this cluster. The first 28 genes indicated in bold and by an asterisk share a common DNA motif (CAGCTG) in their promoter and were also found to be differentially expressed between V1 and V14 CNS.

The last column on the right specifies the known biological function (manual annotation) of these genes in the Drosophila larvae (Full references can be found in the main text and in [Additional file 5: Supplemental Tables S2-S4]). This manual annotation allowed the attribution of biological function to 37 genes. Some genes have either never been studied in larvae or their respective functions are currently unknown. By contrast to the GO annotation (mostly deduced from embryos), the use of manual annotation indicates that the dysfunction of pros leads in larvae to the misregulation of genes that mostly deal with neurite outgrowth, growth and autophagy and sensory organ formation (mainly olfactory). All genes were found to be overexpressed in the mutant V1 AMC except for the 9 genes associated with the Proteasome complex GO annotation.

Guenin et al. BMC Genomics 2010 11:47   doi:10.1186/1471-2164-11-47

Open Data