Middle sporulation element gene transcriptions
Associate Editor(s)-in-Chief: Henry A. Hoff
Ndt80 is a meiosis-specific transcription factor required for successful completion of meiosis and spore formation.[1] The DNA-binding domain of Ndt80 has been isolated, and the structure reveals that this protein is a member of the Ig-fold family of transcription factors.[2] Ndt80 also competes with the repressor SUM1 for binding to promoters containing MSEs.[3]
Direct "binding of Ndt80 to the [mid sporulation element CRCAAAA/T (Ozsarac et al. 1997)] MSE is necessary for activating transcription of the middle sporulation genes."[4]
"The midsporulation gene SPR3 [...] is expressed only in sporulating cells (20), during both divisions of meiosis. It is therefore regulated in a developmentally specific manner and provides an example of a sporulation gene suited to analysis of midsporulation control. The 5'-flanking region contains several potential regulatory motifs, including an ABFI element which was shown to be essential to the regulation of SPR3 (33). [...] The HAP2 motif [CCAATCA] binds a heterotrimeric transcription factor, HAP2/3/4, involved in the derepression of respiratory genes in cells growing on nonfermentable carbon sources (34)."[5]
"The SPR3 gene contains four potential TATA boxes, with the most proximal one adjacent to the transcription start sites identified previously (33). The MSE is located 43 to 102 bp upstream of these TATA boxes, locating the sporulation-specific element very close to the site for assembly of the general transcription machinery."[5]
Human genes
Interactions
Consensus sequences
Of the midsporulation element (MSE), "a minimal element, CRCAAA(A/T), is sufficient for sporulation specificity."[5]
"These genomic sequences were analysed for the presence of [...] middle sporulation elements (MSE) motif (5'-ACACAAA-3') using the NCBI BLAST tool."[6]
Middle sporulation elements (MSE) motif has the consensus sequence 5'-ACACAAA-3'.[6]
MSE (Branco) samplings
Copying apparent core consensus sequences for the MSEs of ACACAAA and putting it in "⌘F" finds none located between ZSCAN22 and none between ZNF497 and A1BG as can be found by the computer programs.
For the Basic programs testing consensus sequence ACACAAA (starting with SuccessablesMSEB.bas) written to compare nucleotide sequences with the sequences on either the template strand (-), or coding strand (+), of the DNA, in the negative direction (-), or the positive direction (+), the programs are, are looking for, and found:
- negative strand, negative direction, looking for ACACAAA, 0.
- positive strand, negative direction, looking for ACACAAA, 0.
- positive strand, positive direction, looking for ACACAAA, 0.
- negative strand, positive direction, looking for ACACAAA, 0.
- complement, negative strand, negative direction, looking for TGTGTTT, 0.
- complement, positive strand, negative direction, looking for TGTGTTT, 0.
- complement, positive strand, positive direction, looking for TGTGTTT, 0.
- complement, negative strand, positive direction, looking for TGTGTTT, 0.
- inverse complement, negative strand, negative direction, looking for TTTGTGT, 2, TTTGTGT at 3513, TTTGTGT at 1541.
- inverse complement, positive strand, negative direction, looking for TTTGTGT, 0.
- inverse complement, positive strand, positive direction, looking for TTTGTGT, 1, TTTGTGT at 2835.
- inverse complement, negative strand, positive direction, looking for TTTGTGT, 0.
- inverse negative strand, negative direction, looking for AAACACA, 0.
- inverse positive strand, negative direction, looking for AAACACA, 2, AAACACA at 3513, AAACACA at 1541.
- inverse positive strand, positive direction, looking for AAACACA, 0.
- inverse negative strand, positive direction, looking for AAACACA, 1, AAACACA at 2835.
MSE (Branco) UTR gene transcriptions
Negative strand: TTTGTGT at 3513
MSE (Branco) distal promoters
Negative strand: TTTGTGT at 1541
Positive strand: TTTGTGT at 2835
MSE (Ozsarac) samplings
Copying a responsive elements consensus sequence C(A/G)CAAA(A/T) and putting the sequence in "⌘F" finds none between ZNF497 and A1BG or none between ZSCAN22 and A1BG as can be found by the computer programs.
For the Basic programs testing consensus sequence C(A/G)CAAA(A/T) (starting with SuccessablesMSEO.bas) written to compare nucleotide sequences with the sequences on either the template strand (-), or coding strand (+), of the DNA, in the negative direction (-), or the positive direction (+), the programs are, are looking for, and found:
- negative strand, negative direction, looking for C(A/G)CAAA(A/T), 0.
- positive strand, negative direction, looking for C(A/G)CAAA(A/T), 2, CACAAAA at 3767, CGCAAAA at 164.
- positive strand, positive direction, looking for C(A/G)CAAA(A/T), 0.
- negative strand, positive direction, looking for C(A/G)CAAA(A/T), 0.
- complement, negative strand, negative direction, looking for G(C/T)GTTT(A/T), 2, GTGTTTT at 3767, GCGGGGG at 164.
- complement, positive strand, negative direction, looking for G(C/T)GTTT(A/T), 0.
- complement, positive strand, positive direction, looking for G(C/T)GTTT(A/T), 0.
- complement, negative strand, positive direction, looking for G(C/T)GTTT(A/T), 0.
- inverse complement, negative strand, negative direction, looking for (A/T)TTTG(C/T)G, 1, TTTTGTG at 3512.
- inverse complement, positive strand, negative direction, looking for (A/T)TTTG(C/T)G, 0.
- inverse complement, positive strand, positive direction, looking for (A/T)TTTG(C/T)G, 0.
- inverse complement, negative strand, positive direction, looking for (A/T)TTTG(C/T)G, 0.
- inverse negative strand, negative direction, looking for (A/T)AAAC(A/G)C, 0.
- inverse positive strand, negative direction, looking for (A/T)AAAC(A/G)C, 1, AAAACAC at 3512.
- inverse positive strand, positive direction, looking for (A/T)AAAC(A/G)C, 0.
- inverse negative strand, positive direction, looking for (A/T)AAAC(A/G)C, 0.
MSE (Ozsarac) UTR gene transcriptions
Negative strand: TTTTGTG at 3512
Positive strand: CACAAAA at 3767
MSE (Ozsarac) distal promoters
Positive strand: CGCAAAA at 164
Acknowledgements
The content on this page was first contributed by: Henry A. Hoff.
See also
References
- ↑ Xu L, Ajimura M, Padmore R, Klein C, Kleckner N (December 1995). "NDT80, a meiosis-specific gene required for exit from pachytene in Saccharomyces cerevisiae". Molecular and Cellular Biology. 15 (12): 6572–81. doi:10.1128/MCB.15.12.6572. PMC 230910. PMID 8524222.
- ↑ Lamoureux JS, Stuart D, Tsang R, Wu C, Glover JN (November 2002). "Structure of the sporulation-specific transcription factor Ndt80 bound to DNA". The EMBO Journal. 21 (21): 5721–32. doi:10.1093/emboj/cdf572. PMC 131069. PMID 12411490.
- ↑ Hendrickson WA, Ward KB (October 1975). "Atomic models for the polypeptide backbones of myohemerythrin and hemerythrin". Biochemical and Biophysical Research Communications. 66 (4): 1349–56. doi:10.1016/0006-291x(75)90508-2. PMID 5.
- ↑ Shelley Chu and Ira Herskowitz (April 1, 1998). "Gametogenesis in Yeast Is Regulated by a Transcriptional Cascade Dependent on Ndt80". Molecular Cell. 1 (5): 685–96. doi:10.1016/S1097-2765(00)80068-4. PMID 9660952.
- ↑ 5.0 5.1 5.2 Nesrin Ozsarac, Melissa J. Straffon, Hazel E. Dalton, and Ian W. Dawes (March 1997). "Regulation of Gene Expression during Meiosis in Saccharomyces cerevisiae: SPR3 Is Controlled by both ABFI and a New Sporulation Control Element". Molecular and Cellular Biology. 17 (3): 1152–9. doi:10.1128/MCB.17.3.1152. PMC 231840. PMID 9032242.
- ↑ 6.0 6.1 J. Branco, M. Ola, R. M. Silva, E. Fonseca, N. C. Gomes, C. Martins-Cruz, A. P. Silva, A. Silva-Dias, C. Pina-Vaz, C. Erraught, L. Brennan, A. G. Rodrigues, G. Butler and I. M. Miranda (August 2017). "Impact of ERG3 mutations and expression of ergosterol genes controlled by UPC2 and NDT80 in Candida parapsilosis azole resistance". Clinical Microbiology and Infection. 23 (8): 575.e1–575.e8. doi:10.1016/j.cmi.2017.02.002. PMID 28196695. Retrieved 5 September 2020.