Gene pie-1 BioInformaticsJudith HollandApril 28, 2008

Pharynx and Intestine in Excesspie-1 or pic-1Y49E10.14 Gene Y49E10.14.1/2 Transcripts

(Ensembl)

WBGene00004027 (WormBase)

Physical Characteristics

Size: 335 Amino Acids

Exons: 5 1116 bp Introns: 4 1187 bp

Location: Chromosome III 12,426,742-12,429,055(Ensembl)

Wormbase Exon Predictions

● Gene model confirmed by cDNA● mRNA1096 bp● derived from an annotated

genomic sequence from Y49E10.14

How Discovered?

● Genetic Screen 1992 by Mello and Priess (5)

● Based on previous techniques of Priess 1987(10) and

● Kemphues 1988 (6)● Work leads to Nobel Prize in

Physiology 2006 for Mello and Fire for gene silencing by double stranded RNA interference

OSTR154H11, CK585182, yk637d9.3,ECO13237, CK582493, CK585183,ECO17587, yk712c8.3, ECO27143,yk613c12.5, yk613c12.3, U62896,

OSTF154H11_2, yk276e3.3, yk637d9.5, yk712c8.5

cDNA/EST: 16

zu-154* and zu-127*: Embryonic Lethal, Excess Pharyngeal or Intestinal Cells

zu-127*: Cell Fate Transformation, muscle excess, P granule localization abnormaland equal in both daughter cells

niDf71(III)(poss deletion), pas49287 (deletion AT), pas31245 (sub A/T), t1682 *, zu-177*(WB)* Unknown mutation

Mutations (Alleles)

BLASTP Matches● C. briggsae BP:CBP22586 E= 6.3e-60 L=88%● C. remanei RP05838 E= 7.2e-47 L= 39%

(pred)● C. elegans pos-1 E= 9.8e-11 L= 30.4%● M. musculus TTP E= 8e-10 L= 42.4%● H. sapiens ENSG00000128016 E=8.2e-10

L=38.2%● Possibly related Zinc Finger Protein Family

Protein Function -1● Encodes protein PIE-1 contains 2 -C3H1 Zinc

finger (99-123, 185-208)● Essential for Cell Fate Determination● Stops germline cell from differentiating into

somatic cells● Blocks mRNA transcription until about 100 cell

level in germline cell● Blocks phosphorylation of RNA polymerase of

RNA polymerase II● Eliminates remaining PIE-1 in somatic cells ZF1● Batchelor et al (1)

Required for efficient expression of nos-2

Promotes primordial germ cell development

Possible action of ZF2

Tenenhaus, et al (2)

Protein Function -2

Zinc Finger motif

Large super family of protein domains bind dna (regulatory proteins, transcription factors).

Contains 2 anti parallel β strands, 1 α helix2 Cysteine and 2 Histidine residues bind Zn.

If looses zinc it unfolds

(Wikipedia)

Wallenfang(7) Polarization of PIE-1

Mello (12) Hubbard (9)

Mello Lab: GLP Tagged PIE-1 (8)and Monoclonal Antibody (8)

DataBases Used● Wormbase http://www.wormbase.org● Ensembl http://www.ensembl.org/index.html● Embl http://www.ebi.ac.uk/embl/● Entrez http://www.ncbi.nlm.nih.gov/sites/entrez● UniGene

http://www.ncbi.nlm.nih.gov/sites/entrez

References

1. Transcriptional repression by the Caenorhabditis elegans germ-line protein PIE-1, Ceri Batchelder, Melanie A. Dunn, Bob Choy, Yong Suh, Conrad Cassie, Eun Yong Shim, Tae Ho Shin, Craig Mello, Geraldine Seydoux and T. Keith Blackwell, Genes & Dev. 1999 13: 202-212.

2. PIE-1 is a bifunctional protein that regulates maternal and zygotic gene expression in the embryonic germ line of Caenorhabditis elegansm Christina Tenenhaus, Kuppuswamy Subramaniam, Melanie A. Dunn and Geraldine Seydoux, Genes & Dev. 2001 15: 1031-1040.

3. Asymmetric Segregation of PIE-1 in C. elegans Is Mediated by Two Complementary Mechanisms that Act through Separate PIE-1 Protein Domains,Kimberly J. Reese, Melanie A. Dunn, James A. Waddle, Geraldine Seydoux, Molecular Cell, Vol. 6, August, 2000, 445–455.

4. http://www.Wormbook.org

5. The pie-1 and mex-1 Genes and Maternal Control of Blastomere Identity In Early C. elegans Embryos, Craig C. Mello, Bruce W. Draper, Michael Krause, Harold Weintraub, James R. Priess, Cell, Vol. 70, 1992, 163-176.

References- Cont.

6. Identification of genes required for cytoplasmic localization in early C. elegans embryos, Kemphues, KJ, Priess, JR, Morton, DG, Cheng, NS, Cell, 1988,Feb12;52(3):311-20.

7. Polarization of the anterior–posterior axis of C. elegans is a microtubule-directed process, Matthew R. Wallenfang & Geraldine Seydoux, NATURE , VOL 408 , 2 NOVEMBER 2000 |www.nature.com, 89-92.

8. http://www.umassmed.edu/pmm/faculty/mello.cfm

9. Introduction To The Germline, E. Jane Albert Hubbard, David Greenstein, WormBook.org, 2005.

10. Cellular Interactions in early C. elegans embryos, Priess, JR, Thomson, JN, Cell, 48, 1987, 241-250.

11. Repression of Gene Expression in embryonic germ lineage of C. elegans, G Seydoux, C Mello, J Pettitt, WB Wood, JR Priess , A Fire, Nature, 382, 22 August 1996, 713-716.

12. The PIE-1 protein and germline specification in C. elegans embryos, Letters to Nature, Nature, Vol 382, 22 August 1996, 710-712.

Quick Time MovieReese (3)