共 55 条
Genome-wide natural antisense transcription: coupling its regulation to its different regulatory mechanisms
被引:218
作者:

Lapidot, Michal
论文数: 0 引用数: 0
h-index: 0
机构:
Weizmann Inst Sci, Dept Mol Genet, IL-76100 Rehovot, Israel Weizmann Inst Sci, Dept Mol Genet, IL-76100 Rehovot, Israel

论文数: 引用数:
h-index:
机构:
机构:
[1] Weizmann Inst Sci, Dept Mol Genet, IL-76100 Rehovot, Israel
来源:
关键词:
natural antisense transcript (NAT);
regulatory RNA;
RNA interference;
tile array;
noise dampening;
D O I:
10.1038/sj.embor.7400857
中图分类号:
Q5 [生物化学];
Q7 [分子生物学];
学科分类号:
071010 ;
081704 ;
摘要:
Many genomic loci contain transcription units on both strands, therefore two oppositely oriented transcripts can overlap. Often, one strand codes for a protein, whereas the transcript from the other strand is non-encoding. Such natural antisense transcripts (NATs) can negatively regulate the conjugated sense transcript. NATs are highly prevalent in a wide range of species-for example, around 15% of human protein-encoding genes have an associated NAT. The regulatory mechanisms by which NATs act are diverse, as are the means to control their expression. Here, we review the current understanding of NAT function and its mechanistic basis, which has been gathered from both individual gene cases and genome-wide studies. In parallel, we survey findings about the regulation of NAT transcription. Finally, we hypothesize that the regulation of antisense transcription might be tailored to its mode of action. According to this model, the observed relationship between the expression patterns of NATs and their targets might indicate the regulatory mechanism that is in action.
引用
收藏
页码:1216 / 1222
页数:7
相关论文
共 55 条
[1]
Double-stranded RNA-mediated silencing of genomic tandem repeats and transposable elements in the D-melanogaster germline
[J].
Aravin, AA
;
Naumova, NM
;
Tulin, AV
;
Vagin, VV
;
Rozovsky, YM
;
Gvozdev, VA
.
CURRENT BIOLOGY,
2001, 11 (13)
:1017-1027

Aravin, AA
论文数: 0 引用数: 0
h-index: 0
机构: Inst Mol Genet, Dept Anim Mol Genet, Moscow 123182, Russia

Naumova, NM
论文数: 0 引用数: 0
h-index: 0
机构: Inst Mol Genet, Dept Anim Mol Genet, Moscow 123182, Russia

Tulin, AV
论文数: 0 引用数: 0
h-index: 0
机构: Inst Mol Genet, Dept Anim Mol Genet, Moscow 123182, Russia

Vagin, VV
论文数: 0 引用数: 0
h-index: 0
机构: Inst Mol Genet, Dept Anim Mol Genet, Moscow 123182, Russia

Rozovsky, YM
论文数: 0 引用数: 0
h-index: 0
机构: Inst Mol Genet, Dept Anim Mol Genet, Moscow 123182, Russia

Gvozdev, VA
论文数: 0 引用数: 0
h-index: 0
机构:
Inst Mol Genet, Dept Anim Mol Genet, Moscow 123182, Russia Inst Mol Genet, Dept Anim Mol Genet, Moscow 123182, Russia
[2]
OVERLAPPING GENES IN BACTERIOPHAGE-PSIX174
[J].
BARRELL, BG
;
AIR, GM
;
HUTCHISON, CA
.
NATURE,
1976, 264 (5581)
:34-41

BARRELL, BG
论文数: 0 引用数: 0
h-index: 0
机构:
MRC,MOLEC BIOL LAB,CAMBRIDGE CB2 2QH,ENGLAND MRC,MOLEC BIOL LAB,CAMBRIDGE CB2 2QH,ENGLAND

AIR, GM
论文数: 0 引用数: 0
h-index: 0
机构:
MRC,MOLEC BIOL LAB,CAMBRIDGE CB2 2QH,ENGLAND MRC,MOLEC BIOL LAB,CAMBRIDGE CB2 2QH,ENGLAND

HUTCHISON, CA
论文数: 0 引用数: 0
h-index: 0
机构:
MRC,MOLEC BIOL LAB,CAMBRIDGE CB2 2QH,ENGLAND MRC,MOLEC BIOL LAB,CAMBRIDGE CB2 2QH,ENGLAND
[3]
RNA editing by adenosine deaminases that act on RNA
[J].
Bass, BL
.
ANNUAL REVIEW OF BIOCHEMISTRY,
2002, 71
:817-846

Bass, BL
论文数: 0 引用数: 0
h-index: 0
机构:
Univ Utah, Sch Med, Dept Biochem, Salt Lake City, UT 84132 USA Univ Utah, Sch Med, Dept Biochem, Salt Lake City, UT 84132 USA
[4]
Global identification of human transcribed sequences with genome tiling arrays
[J].
Bertone, P
;
Stolc, V
;
Royce, TE
;
Rozowsky, JS
;
Urban, AE
;
Zhu, XW
;
Rinn, JL
;
Tongprasit, W
;
Samanta, M
;
Weissman, S
;
Gerstein, M
;
Snyder, M
.
SCIENCE,
2004, 306 (5705)
:2242-2246

Bertone, P
论文数: 0 引用数: 0
h-index: 0
机构: Yale Univ, Dept Mol Cellular & Dev Biol, New Haven, CT 06520 USA

Stolc, V
论文数: 0 引用数: 0
h-index: 0
机构: Yale Univ, Dept Mol Cellular & Dev Biol, New Haven, CT 06520 USA

Royce, TE
论文数: 0 引用数: 0
h-index: 0
机构: Yale Univ, Dept Mol Cellular & Dev Biol, New Haven, CT 06520 USA

Rozowsky, JS
论文数: 0 引用数: 0
h-index: 0
机构: Yale Univ, Dept Mol Cellular & Dev Biol, New Haven, CT 06520 USA

Urban, AE
论文数: 0 引用数: 0
h-index: 0
机构: Yale Univ, Dept Mol Cellular & Dev Biol, New Haven, CT 06520 USA

Zhu, XW
论文数: 0 引用数: 0
h-index: 0
机构: Yale Univ, Dept Mol Cellular & Dev Biol, New Haven, CT 06520 USA

Rinn, JL
论文数: 0 引用数: 0
h-index: 0
机构: Yale Univ, Dept Mol Cellular & Dev Biol, New Haven, CT 06520 USA

Tongprasit, W
论文数: 0 引用数: 0
h-index: 0
机构: Yale Univ, Dept Mol Cellular & Dev Biol, New Haven, CT 06520 USA

Samanta, M
论文数: 0 引用数: 0
h-index: 0
机构: Yale Univ, Dept Mol Cellular & Dev Biol, New Haven, CT 06520 USA

Weissman, S
论文数: 0 引用数: 0
h-index: 0
机构: Yale Univ, Dept Mol Cellular & Dev Biol, New Haven, CT 06520 USA

Gerstein, M
论文数: 0 引用数: 0
h-index: 0
机构:
Yale Univ, Dept Mol Cellular & Dev Biol, New Haven, CT 06520 USA Yale Univ, Dept Mol Cellular & Dev Biol, New Haven, CT 06520 USA

Snyder, M
论文数: 0 引用数: 0
h-index: 0
机构: Yale Univ, Dept Mol Cellular & Dev Biol, New Haven, CT 06520 USA
[5]
Endogenous siRNAs derived from a pair of natural cis-antisense transcripts regulate salt tolerance in Arabidopsis
[J].
Borsani, O
;
Zhu, JH
;
Verslues, PE
;
Sunkar, R
;
Zhu, JK
.
CELL,
2005, 123 (07)
:1279-1291

Borsani, O
论文数: 0 引用数: 0
h-index: 0
机构: Univ Calif Riverside, Inst Integrat Genome Biol, Riverside, CA 92521 USA

Zhu, JH
论文数: 0 引用数: 0
h-index: 0
机构: Univ Calif Riverside, Inst Integrat Genome Biol, Riverside, CA 92521 USA

Verslues, PE
论文数: 0 引用数: 0
h-index: 0
机构: Univ Calif Riverside, Inst Integrat Genome Biol, Riverside, CA 92521 USA

Sunkar, R
论文数: 0 引用数: 0
h-index: 0
机构: Univ Calif Riverside, Inst Integrat Genome Biol, Riverside, CA 92521 USA

Zhu, JK
论文数: 0 引用数: 0
h-index: 0
机构:
Univ Calif Riverside, Inst Integrat Genome Biol, Riverside, CA 92521 USA Univ Calif Riverside, Inst Integrat Genome Biol, Riverside, CA 92521 USA
[6]
The transcriptional landscape of the mammalian genome
[J].
Carninci, P
;
Kasukawa, T
;
Katayama, S
;
Gough, J
;
Frith, MC
;
Maeda, N
;
Oyama, R
;
Ravasi, T
;
Lenhard, B
;
Wells, C
;
Kodzius, R
;
Shimokawa, K
;
Bajic, VB
;
Brenner, SE
;
Batalov, S
;
Forrest, ARR
;
Zavolan, M
;
Davis, MJ
;
Wilming, LG
;
Aidinis, V
;
Allen, JE
;
Ambesi-Impiombato, X
;
Apweiler, R
;
Aturaliya, RN
;
Bailey, TL
;
Bansal, M
;
Baxter, L
;
Beisel, KW
;
Bersano, T
;
Bono, H
;
Chalk, AM
;
Chiu, KP
;
Choudhary, V
;
Christoffels, A
;
Clutterbuck, DR
;
Crowe, ML
;
Dalla, E
;
Dalrymple, BP
;
de Bono, B
;
Della Gatta, G
;
di Bernardo, D
;
Down, T
;
Engstrom, P
;
Fagiolini, M
;
Faulkner, G
;
Fletcher, CF
;
Fukushima, T
;
Furuno, M
;
Futaki, S
;
Gariboldi, M
.
SCIENCE,
2005, 309 (5740)
:1559-1563

Carninci, P
论文数: 0 引用数: 0
h-index: 0

Kasukawa, T
论文数: 0 引用数: 0
h-index: 0

Katayama, S
论文数: 0 引用数: 0
h-index: 0

Gough, J
论文数: 0 引用数: 0
h-index: 0

Frith, MC
论文数: 0 引用数: 0
h-index: 0

Maeda, N
论文数: 0 引用数: 0
h-index: 0

Oyama, R
论文数: 0 引用数: 0
h-index: 0

Ravasi, T
论文数: 0 引用数: 0
h-index: 0

Lenhard, B
论文数: 0 引用数: 0
h-index: 0

Wells, C
论文数: 0 引用数: 0
h-index: 0

Kodzius, R
论文数: 0 引用数: 0
h-index: 0

Shimokawa, K
论文数: 0 引用数: 0
h-index: 0

Bajic, VB
论文数: 0 引用数: 0
h-index: 0

Brenner, SE
论文数: 0 引用数: 0
h-index: 0

Batalov, S
论文数: 0 引用数: 0
h-index: 0

Forrest, ARR
论文数: 0 引用数: 0
h-index: 0

Zavolan, M
论文数: 0 引用数: 0
h-index: 0

Davis, MJ
论文数: 0 引用数: 0
h-index: 0

Wilming, LG
论文数: 0 引用数: 0
h-index: 0

Aidinis, V
论文数: 0 引用数: 0
h-index: 0

Allen, JE
论文数: 0 引用数: 0
h-index: 0

Ambesi-Impiombato, X
论文数: 0 引用数: 0
h-index: 0

Apweiler, R
论文数: 0 引用数: 0
h-index: 0

Aturaliya, RN
论文数: 0 引用数: 0
h-index: 0

Bailey, TL
论文数: 0 引用数: 0
h-index: 0

Bansal, M
论文数: 0 引用数: 0
h-index: 0

Baxter, L
论文数: 0 引用数: 0
h-index: 0

Beisel, KW
论文数: 0 引用数: 0
h-index: 0

Bersano, T
论文数: 0 引用数: 0
h-index: 0

Bono, H
论文数: 0 引用数: 0
h-index: 0

Chalk, AM
论文数: 0 引用数: 0
h-index: 0

Chiu, KP
论文数: 0 引用数: 0
h-index: 0

Choudhary, V
论文数: 0 引用数: 0
h-index: 0

Christoffels, A
论文数: 0 引用数: 0
h-index: 0

Clutterbuck, DR
论文数: 0 引用数: 0
h-index: 0

Crowe, ML
论文数: 0 引用数: 0
h-index: 0

Dalla, E
论文数: 0 引用数: 0
h-index: 0

Dalrymple, BP
论文数: 0 引用数: 0
h-index: 0

de Bono, B
论文数: 0 引用数: 0
h-index: 0

Della Gatta, G
论文数: 0 引用数: 0
h-index: 0

di Bernardo, D
论文数: 0 引用数: 0
h-index: 0

Down, T
论文数: 0 引用数: 0
h-index: 0

Engstrom, P
论文数: 0 引用数: 0
h-index: 0

Fagiolini, M
论文数: 0 引用数: 0
h-index: 0

Faulkner, G
论文数: 0 引用数: 0
h-index: 0

Fletcher, CF
论文数: 0 引用数: 0
h-index: 0

Fukushima, T
论文数: 0 引用数: 0
h-index: 0

Furuno, M
论文数: 0 引用数: 0
h-index: 0

Futaki, S
论文数: 0 引用数: 0
h-index: 0

Gariboldi, M
论文数: 0 引用数: 0
h-index: 0
[7]
Tagging mammalian transcription complexity
[J].
Carninci, Piero
.
TRENDS IN GENETICS,
2006, 22 (09)
:501-510

Carninci, Piero
论文数: 0 引用数: 0
h-index: 0
机构: RIKEN, Wako Inst, Genome Sci Lab, Discovery & Res Inst, Wako, Saitama 3510198, Japan
[8]
Selection for short introns in highly expressed genes
[J].
Castillo-Davis, CI
;
Mekhedov, SL
;
Hartl, DL
;
Koonin, EV
;
Kondrashov, FA
.
NATURE GENETICS,
2002, 31 (04)
:415-418

Castillo-Davis, CI
论文数: 0 引用数: 0
h-index: 0
机构: Natl Ctr Biotechnol Informat, NIH, Bethesda, MD 20894 USA

Mekhedov, SL
论文数: 0 引用数: 0
h-index: 0
机构: Natl Ctr Biotechnol Informat, NIH, Bethesda, MD 20894 USA

Hartl, DL
论文数: 0 引用数: 0
h-index: 0
机构: Natl Ctr Biotechnol Informat, NIH, Bethesda, MD 20894 USA

Koonin, EV
论文数: 0 引用数: 0
h-index: 0
机构: Natl Ctr Biotechnol Informat, NIH, Bethesda, MD 20894 USA

Kondrashov, FA
论文数: 0 引用数: 0
h-index: 0
机构: Natl Ctr Biotechnol Informat, NIH, Bethesda, MD 20894 USA
[9]
Unbiased mapping of transcription factor binding sites along human chromosomes 21 and 22 points to widespread regulation of noncoding RNAs
[J].
Cawley, S
;
Bekiranov, S
;
Ng, HH
;
Kapranov, P
;
Sekinger, EA
;
Kampa, D
;
Piccolboni, A
;
Sementchenko, V
;
Cheng, J
;
Williams, AJ
;
Wheeler, R
;
Wong, B
;
Drenkow, J
;
Yamanaka, M
;
Patel, S
;
Brubaker, S
;
Tammana, H
;
Helt, G
;
Struhl, K
;
Gingeras, TR
.
CELL,
2004, 116 (04)
:499-509

Cawley, S
论文数: 0 引用数: 0
h-index: 0
机构: Affymetrix, Santa Clara, CA 95051 USA

Bekiranov, S
论文数: 0 引用数: 0
h-index: 0
机构: Affymetrix, Santa Clara, CA 95051 USA

Ng, HH
论文数: 0 引用数: 0
h-index: 0
机构: Affymetrix, Santa Clara, CA 95051 USA

Kapranov, P
论文数: 0 引用数: 0
h-index: 0
机构: Affymetrix, Santa Clara, CA 95051 USA

Sekinger, EA
论文数: 0 引用数: 0
h-index: 0
机构: Affymetrix, Santa Clara, CA 95051 USA

Kampa, D
论文数: 0 引用数: 0
h-index: 0
机构: Affymetrix, Santa Clara, CA 95051 USA

Piccolboni, A
论文数: 0 引用数: 0
h-index: 0
机构: Affymetrix, Santa Clara, CA 95051 USA

Sementchenko, V
论文数: 0 引用数: 0
h-index: 0
机构: Affymetrix, Santa Clara, CA 95051 USA

Cheng, J
论文数: 0 引用数: 0
h-index: 0
机构: Affymetrix, Santa Clara, CA 95051 USA

Williams, AJ
论文数: 0 引用数: 0
h-index: 0
机构: Affymetrix, Santa Clara, CA 95051 USA

Wheeler, R
论文数: 0 引用数: 0
h-index: 0
机构: Affymetrix, Santa Clara, CA 95051 USA

Wong, B
论文数: 0 引用数: 0
h-index: 0
机构: Affymetrix, Santa Clara, CA 95051 USA

Drenkow, J
论文数: 0 引用数: 0
h-index: 0
机构: Affymetrix, Santa Clara, CA 95051 USA

Yamanaka, M
论文数: 0 引用数: 0
h-index: 0
机构: Affymetrix, Santa Clara, CA 95051 USA

Patel, S
论文数: 0 引用数: 0
h-index: 0
机构: Affymetrix, Santa Clara, CA 95051 USA

Brubaker, S
论文数: 0 引用数: 0
h-index: 0
机构: Affymetrix, Santa Clara, CA 95051 USA

Tammana, H
论文数: 0 引用数: 0
h-index: 0
机构: Affymetrix, Santa Clara, CA 95051 USA

Helt, G
论文数: 0 引用数: 0
h-index: 0
机构: Affymetrix, Santa Clara, CA 95051 USA

Struhl, K
论文数: 0 引用数: 0
h-index: 0
机构: Affymetrix, Santa Clara, CA 95051 USA

Gingeras, TR
论文数: 0 引用数: 0
h-index: 0
机构: Affymetrix, Santa Clara, CA 95051 USA
[10]
Over 20% of human transcripts might form sense-antisense pairs
[J].
Chen, JJ
;
Sun, M
;
Kent, WJ
;
Huang, XQ
;
Xie, HQ
;
Wang, WQ
;
Zhou, GL
;
Shi, RZ
;
Rowley, JD
.
NUCLEIC ACIDS RESEARCH,
2004, 32 (16)
:4812-4820

Chen, JJ
论文数: 0 引用数: 0
h-index: 0
机构: Univ Chicago, Dept Med, Chicago, IL 60637 USA

Sun, M
论文数: 0 引用数: 0
h-index: 0
机构: Univ Chicago, Dept Med, Chicago, IL 60637 USA

Kent, WJ
论文数: 0 引用数: 0
h-index: 0
机构: Univ Chicago, Dept Med, Chicago, IL 60637 USA

Huang, XQ
论文数: 0 引用数: 0
h-index: 0
机构: Univ Chicago, Dept Med, Chicago, IL 60637 USA

Xie, HQ
论文数: 0 引用数: 0
h-index: 0
机构: Univ Chicago, Dept Med, Chicago, IL 60637 USA

Wang, WQ
论文数: 0 引用数: 0
h-index: 0
机构: Univ Chicago, Dept Med, Chicago, IL 60637 USA

Zhou, GL
论文数: 0 引用数: 0
h-index: 0
机构: Univ Chicago, Dept Med, Chicago, IL 60637 USA

Shi, RZ
论文数: 0 引用数: 0
h-index: 0
机构: Univ Chicago, Dept Med, Chicago, IL 60637 USA

Rowley, JD
论文数: 0 引用数: 0
h-index: 0
机构: Univ Chicago, Dept Med, Chicago, IL 60637 USA