Misc notes on nanos TCE biology
nanos mRNA encodes Nanos protein whose concentration gradient provides for (?) differentiation between anterior and posterior in developing Dro embryos in an early stage (I guess also leads to abdominal segmentation?...)
- early paper on Nanos gene biology
- maybe this even earlier paper can answer some even more basic questions about Dmel morphogenesis:
- Kobayashi et al.: Essential role of the posterior morphogen nanos for germline development in Drosophila. Nature 1996;380:708-11.
- later paper, same first author:
- Kobayashi et al.: The role of mitochondrial rRNAs and nanos protein in germline formation in Drosophila embryos. Zool. Sci. 2005;22:943-54.
mRNA has a Transcription Control Element (TCE) in 3' UTR
TCE is bound by Smaug protein, which represses translation (mechanism unknown?)
most recent relevant papers I can find:
- Glorund hnRNP paper by Elizabeth R Gavis (who seems to be the #1 person on the nanos beat)
- nanos knockout experiments in mice
- 3 seed alignments, 16 full, all from Dro
nanos TCE is a multi-trick pony:
- somatic cell regulation by a Bearded box-like motif
- "...TCE has appropriated a conserved regulatory motif to expand its function to somatic tissues" - what is this "appropriated" exactly?
- is this for species outside of Dro?
- ooh, a Smaug crystal structure!
- SAM, a protein-protein domain, does the interaction - with RNA this time
SAM domain stuff:
- an NRM structure for SAM domain of Vst1 in yeast with the TCE RNA bound!
- hmm, I wonder how similar these domains are... and I wonder whose TCE it's binding?
something about ncRNA evolution - I have no idea what this is about, worth looking at maybe?
old review on RNA localization - there's probably something much newer available by now
Of course, must align and analyze nanos TCE.
But also... examine other SAM/RNA binding sites? Look at SAM conservation at the RNA-binding motif? Look at RNA motif conservation?
Examine crystal structures, esp. tertiary contacts b/ween TCE RNA and SAM, and form hypotheses about expected conservation pattern, then see how the computational phylogeny holds up.
-- Created by: Andrew Uzilov on 19 Feb 2007