G box gene transcriptions: Difference between revisions
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'''Editor-In-Chief:''' Henry A. Hoff | '''Editor-In-Chief:''' Henry A. Hoff | ||
"Two distinct sequence elements, the H-box (consensus CCTACC(N)<sub>7</sub>CT) and the G-box (CACGTG), are required for stimulation of the ''chsl5'' promoter by [p-coumaric acid] 4-CA."<ref name=Loake>{{ cite journal | |||
|author=Gary J. Loake, Ouriel Faktor, Christopher J. Lamb, and Richard A. Dixon | |||
|title=Combination of H-box [CCTACC(N)<sub>7</sub>CT] and G-box (CACGTG) cis elements is necessary for feed-forward stimulation of a chalcone synthase promoter by the phenylpropanoid-pathway intermediate ''p''-coumaricacid | |||
|journal=Proceedings of the National Academy of Sciences USA | |||
|date=October 1992 | |||
|volume=89 | |||
|issue= | |||
|pages=9230-4 | |||
|url=https://www.pnas.org/content/pnas/89/19/9230.full.pdf | |||
|arxiv= | |||
|bibcode= | |||
|doi= | |||
|pmid= | |||
|accessdate=5 May 2020 }}</ref> | |||
==G boxes== | |||
{{main|G box gene transcriptions}} | |||
The "perfect palindrome 5'-GCCACGTGGC-3' which is also known as the G-box motif."<ref name=Oeda>{{ cite journal | The "perfect palindrome 5'-GCCACGTGGC-3' which is also known as the G-box motif."<ref name=Oeda>{{ cite journal | ||
|author=K Oeda, J Salinas, and N H Chua | |author=K Oeda, J Salinas, and N H Chua | ||
|title=A tobacco bZip transcription activator (TAF-1) binds to a G-box-like motif conserved in plant genes | |title=A tobacco bZip transcription activator (TAF-1) binds to a G-box-like motif conserved in plant genes | ||
|journal=The EMBO Journal | |journal=The EMBO Journal | ||
| | |date=July 1991 | ||
|volume=10 | |volume=10 | ||
|issue=7 | |issue=7 | ||
| Line 14: | Line 30: | ||
|bibcode= | |bibcode= | ||
|doi= | |doi= | ||
|pmid= | |pmid=2050116 | ||
|accessdate=2017-02-13 }}</ref> | |accessdate=2017-02-13 }}</ref> | ||
| Line 21: | Line 37: | ||
"A G-box-related motif, containing the core sequence CACGTG is also present in the 5' regions of two other classes of light-responsive genes".<ref name=Oeda/> | "A G-box-related motif, containing the core sequence CACGTG is also present in the 5' regions of two other classes of light-responsive genes".<ref name=Oeda/> | ||
Most bZIP proteins show high binding affinity for the ACGT motifs, which include CACGTG (G box) [...].<ref name=Landschulz>{{ cite journal | |||
|author= | | vauthors = Landschulz WH, Johnson PF, McKnight SL | title = The leucine zipper: a hypothetical structure common to a new class of DNA binding proteins | journal = Science | volume = 240 | issue = 4860 | pages = 1759–64 | date = June 1988 | pmid = 3289117 | ||
|title= | | doi = 10.1126/science.3289117 | bibcode = 1988Sci...240.1759L | ||
|journal= | | url = https://semanticscholar.org/paper/3a61c172ddfa79ce9f4909ca6bea2f6f40f7893e }}</ref><ref name=Zhang>{{ cite journal | ||
|date= | | vauthors = Z G E, Zhang YP, Zhou JH, Wang L | ||
|volume= | | title = Mini review roles of the bZIP gene family in rice | ||
|issue= | | journal = Genetics and Molecular Research | ||
|pages= | | volume = 13 | ||
|url= | | issue = 2 | ||
| pages = 3025–36 | |||
| date = April 2014 | |||
| pmid = 24782137 | |||
| doi = 10.4238/2014.April.16.11 }}</ref><ref name=Nijhawan>{{ cite journal | vauthors = Nijhawan A, Jain M, Tyagi AK, Khurana JP | |||
| title = Genomic survey and gene expression analysis of the basic leucine zipper transcription factor family in rice | |||
| journal = Plant Physiology | |||
| volume = 146 | |||
| issue = 2 | |||
| pages = 333–50 | |||
| date = February 2008 | |||
| pmid = 18065552 | |||
| doi = 10.1104/pp.107.112821 }}</ref> | |||
Binding "activity to the G-box of the light-responsive unit 1 (U1) region of the parsley (''Petroselinum crispum'') ''CHS'' promoter (CHS-U1: TCCACGTGGC; Schulze-Lefert et al., 1989) or the G-box of ''GmAux28'' (TCCACGTGTC) was much weaker than to the PA G-box [...]."<ref name=Song>{{ cite journal | |||
|author=Young Hun Song, Cheol Min Yoo, An Pio Hong, Seong Hee Kim, Hee Jeong Jeong, Su Young Shin, Hye Jin Kim, Dae-Jin Yun, Chae Oh Lim, Jeong Dong Bahk, Sang Yeol Lee, Ron T. Nagao, Joe L. Key, and Jong Chan Hong | |||
|title=DNA-Binding Study Identifies C-Box and Hybrid C/G-Box or C/A-Box Motifs as High-Affinity Binding Sites for STF1 and LONG HYPOCOTYL5 Proteins | |||
|journal=Plant Physiology | |||
|date=April 2008 | |||
|volume=146 | |||
|issue=4 | |||
|pages=1862–1877 | |||
|url=http://www.plantphysiol.org/content/plantphysiol/146/4/1862.full.pdf | |||
|arxiv= | |arxiv= | ||
|bibcode= | |bibcode= | ||
|doi= | |doi=10.1104/pp.107.113217 | ||
|pmid= | |pmid=18287490 | ||
|accessdate= | |accessdate=26 March 2019 }}</ref> | ||
==Samplings== | ==Samplings== | ||
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[[Category:Gene project/Lectures]] | [[Category:Gene project/Lectures]] | ||
[[Category:Resources last modified in | [[Category:Resources last modified in September 2020]] | ||
Revision as of 00:45, 30 September 2020
Editor-In-Chief: Henry A. Hoff
"Two distinct sequence elements, the H-box (consensus CCTACC(N)7CT) and the G-box (CACGTG), are required for stimulation of the chsl5 promoter by [p-coumaric acid] 4-CA."[1]
G boxes
The "perfect palindrome 5'-GCCACGTGGC-3' which is also known as the G-box motif."[2]
"TAF-1 can bind to the G-box and related motifs and that it functions as a transcription activator."[2]
"A G-box-related motif, containing the core sequence CACGTG is also present in the 5' regions of two other classes of light-responsive genes".[2]
Most bZIP proteins show high binding affinity for the ACGT motifs, which include CACGTG (G box) [...].[3][4][5]
Binding "activity to the G-box of the light-responsive unit 1 (U1) region of the parsley (Petroselinum crispum) CHS promoter (CHS-U1: TCCACGTGGC; Schulze-Lefert et al., 1989) or the G-box of GmAux28 (TCCACGTGTC) was much weaker than to the PA G-box [...]."[6]
Samplings
For the Basic programs (starting with SuccessablesGbox.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 (+), including extending the number of nts from 958 to 4445, the programs are, are looking for, and found:
- negative strand in the negative direction (from ZSCAN22 to A1BG) is SuccessablesGbox--.bas, looking for 3'-GCCACGTGGC-5', 0,
- negative strand in the positive direction (from ZNF497 to A1BG) is SuccessablesGbox-+.bas, looking for 3'-GCCACGTGGC-5', 0,
- positive strand in the negative direction is SuccessablesGbox+-.bas, looking for 3'-GCCACGTGGC-5', 0,
- positive strand in the positive direction is SuccessablesGbox++.bas, looking for 3'-GCCACGTGGC-5', 0,
- complement, negative strand, negative direction is SuccessablesGboxc--.bas, looking for 3'-CGGTGCACCG-5', 0,
- complement, negative strand, positive direction is SuccessablesGboxc-+.bas, looking for 3'-CGGTGCACCG-5', 0,
- complement, positive strand, negative direction is SuccessablesGboxc+-.bas, looking for 3'-CGGTGCACCG-5', 0,
- complement, positive strand, positive direction is SuccessablesGboxc++.bas, looking for 3'-CGGTGCACCG-5', 0,
- inverse complement, negative strand, negative direction is SuccessablesGboxci--.bas, looking for 3'-GCCACGTGGC-5', 0,
- inverse complement, negative strand, positive direction is SuccessablesGboxci-+.bas, looking for 3'-GCCACGTGGC-5', 0,
- inverse complement, positive strand, negative direction is SuccessablesGboxci+-.bas, looking for 3'-GCCACGTGGC-5', 0,
- inverse complement, positive strand, positive direction is SuccessablesGboxci++.bas, looking for 3'-GCCACGTGGC-5', 0,
- inverse, negative strand, negative direction, is SuccessablesGboxi--.bas, looking for 3'-CGGTGCACCG-5', 0,
- inverse, negative strand, positive direction, is SuccessablesGboxi-+.bas, looking for 3'-CGGTGCACCG-5', 0,
- inverse, positive strand, negative direction, is SuccessablesGboxi+-.bas, looking for 3'-CGGTGCACCG-5', 0,
- inverse, positive strand, positive direction, is SuccessablesGboxi++.bas, looking for 3'-CGGTGCACCG-5', 0.
Acknowledgements
The content on this page was first contributed by: Henry A. Hoff.
Initial content for this page in some instances came from Wikiversity.
See also
References
- ↑ Gary J. Loake, Ouriel Faktor, Christopher J. Lamb, and Richard A. Dixon (October 1992). "Combination of H-box [CCTACC(N)7CT] and G-box (CACGTG) cis elements is necessary for feed-forward stimulation of a chalcone synthase promoter by the phenylpropanoid-pathway intermediate p-coumaricacid" (PDF). Proceedings of the National Academy of Sciences USA. 89: 9230–4. Retrieved 5 May 2020.
- ↑ 2.0 2.1 2.2 K Oeda, J Salinas, and N H Chua (July 1991). "A tobacco bZip transcription activator (TAF-1) binds to a G-box-like motif conserved in plant genes". The EMBO Journal. 10 (7): 1793–1802. PMID 2050116. Retrieved 2017-02-13.
- ↑ Landschulz WH, Johnson PF, McKnight SL (June 1988). "The leucine zipper: a hypothetical structure common to a new class of DNA binding proteins". Science. 240 (4860): 1759–64. Bibcode:1988Sci...240.1759L. doi:10.1126/science.3289117. PMID 3289117.
- ↑ Z G E, Zhang YP, Zhou JH, Wang L (April 2014). "Mini review roles of the bZIP gene family in rice". Genetics and Molecular Research. 13 (2): 3025–36. doi:10.4238/2014.April.16.11. PMID 24782137. Vancouver style error: name (help)
- ↑ Nijhawan A, Jain M, Tyagi AK, Khurana JP (February 2008). "Genomic survey and gene expression analysis of the basic leucine zipper transcription factor family in rice". Plant Physiology. 146 (2): 333–50. doi:10.1104/pp.107.112821. PMID 18065552.
- ↑ Young Hun Song, Cheol Min Yoo, An Pio Hong, Seong Hee Kim, Hee Jeong Jeong, Su Young Shin, Hye Jin Kim, Dae-Jin Yun, Chae Oh Lim, Jeong Dong Bahk, Sang Yeol Lee, Ron T. Nagao, Joe L. Key, and Jong Chan Hong (April 2008). "DNA-Binding Study Identifies C-Box and Hybrid C/G-Box or C/A-Box Motifs as High-Affinity Binding Sites for STF1 and LONG HYPOCOTYL5 Proteins" (PDF). Plant Physiology. 146 (4): 1862–1877. doi:10.1104/pp.107.113217. PMID 18287490. Retrieved 26 March 2019.