Embryonic development depends on proper transcription and translation of a myriad of genes required for cell viability, morphogenesis, and induction and realization of cell fates. Transcription is a multi-step process that involves recruitment of RNA polymerase to a promoter by specific and general initiation factors, escape from the promoter, RNA chain elongation, and termination of the nascent transcript (
Lee and Young, 2000). Transcript initiation at individual loci is regulated by factors that either promote or repress transcription of genes, and a number of genes identified in genetic screens for developmental defects regulate transcript initiation. While most work has focused on regulation of transcript initiation, it has recently become clear that transcript elongation is another step at which gene expression can be developmentally regulated. Recent work in the zebrafish has shown that the transcript elongation factors
foggy/spt5 and
pandora/spt6 are required for embryo survival, gene expression, and acquisition of particular neuronal cell fates (
Guo et al., 2000;
Keegan et al., 2002).
Genetic evidence in yeast first indicated that
spt5 plays a role in transcript elongation, and biochemical analysis showed that Spt5 directly binds to the large subunit of RNA polymerase II (polII)
in vitro via four KOW homology domains (
Hartzog et al., 1998). The regulation of transcript elongation by Spt5 can be either positive or negative depending on the cellular context. For instance, Spt5 promotes transcript elongation in limiting nucleotide concentrations (
Wada et al., 1998) or in response to heat shock stimulation (
Andrulis et al., 2000;
Keegan et al., 2002;
Jennings et al., 2004). However, Spt5 is also a member of the DSIF (DRB sensitivity inducing factor) complex that is required for the elongation inhibitory activity of the ATP analogue 5,6-dichloro-1-β-D-ribofuranosylbenzimidazole (DRB) (
Wada et al., 1998;
Yamaguchi et al., 1999). While these experimental conditions reveal positive and negative elongation functions for Spt5, the
in vivo context of positive versus negative control is still unknown.
Two
in vivo studies in
Drosophila melanogaster demonstrate that Spt5 colocalizes with actively transcribing phosphorylated RNA polymerase II (Pol II) to hundreds of sites on polytene chromosomes (
Andrulis et al., 2000;
Kaplan et al., 2000). This has been considered evidence that Spt5 has a general positive effect on virtually all active transcription; however the negative elongation effect appears to be less general. The first allele of
foggy/spt5 to be described in the zebrafish, m806, a point mutant in the C terminus of the protein abolishes the negative effect on elongation
in vitro while leaving its positive function intact (
Guo et al., 2000).
foggy/spt5m806 mutant embryos have a specific reduction in dopamine-secreting neurons in the hypothalamus and related neurons in the eye, and a corresponding increase in the number of serotonin-producing neurons in the hypothalamus. Recently, a point mutation in the
Drosophila spt5 that primarily affects the negative transcript elongation function revealed a specific maternal requirement for
spt5 to repress transcription of the pair-rule genes
even-skipped and
runt (
Jennings et al., 2004).
The zebrafish
foggy/spt5 null mutant exhibits a combination of specific phenotypes including heart defects and a number of neuronal defects (
Keegan et al., 2002; this work). If
spt5 is required equivalently at all loci, then one would expect the null phenotype, which reflects loss of positive as well as negative transcript elongation, to have severe and potentially early embryonic defects. The null phenotype has led to the important question of how loss of a general transcript elongation factor can lead to specific pheonotypes. One possibility is that
spt5 is required for elongation at many or all loci; the specific phenotypes in particular tissues of zygotic
spt5 mutants may be due to different rates of cell proliferation or to varying rates of
spt5 mRNA and/or protein turnover in different tissues.
spt5 mRNA is expressed maternally, and by this model the tissues most affected in
spt5-/- embryos would be those that deplete this maternal expression the fastest. Cells lacking
spt5 function would be predicted to die from lack of transcription at loci required to maintain cellular homeostasis. A second possibility is that the requirement for the positive effect of
spt5 on elongation is not general, but is preferentially required by specific loci and specific developmental contexts. By this second hypothesis, one might expect to identify cells that require
spt5 function for distinct aspects of their development, but not for their survival.
We identified an allele of
foggy/spt5,
fh20, in a genetic screen to identify genes that control the posterior migration of facial branchiomotor neurons in the zebrafish hindbrain. In wild-type zebrafish embryos, facial branchiomotor neurons are born in rhombomere 4 (r4) of the developing hindbrain and subsequently migrate caudally to reside in r6 and r7. A number of genes have been identified that are required for this migration to take place, some of which regulate transcription of unknown target genes (reviewed in
Chandrasekhar, 2004). The identification of facial branchiomotor neuron migration defects in
foggy/spt5 mutant embryos allowed us to test the hypothesis that
spt5 is not required equivalently for production of all transcripts by addressing two processes within a single cell type. Using mosaic analysis we show that the positive effect of
foggy/spt5 on elongation is required cell-autonomously for facial branchiomotor neurons to migrate posteriorly from r4, but is not required within these same cells for their survival. These data suggest that
foggy/spt5 is not required equivalently for production of all mRNA transcripts within a cell and provides further evidence that transcript elongation via
spt5 is a step at which control of gene expression may be developmentally regulated.