Regulatory RNAs

Cellular and Molecular Life Sciences

Volumn 58, Issue 7, 2001, Pages 960-977

  Erdmann, V A ^a   Barciszewska, M Z ^b   Hochberg, A ^c   De Groot, Nathan ^c   Barciszewski, J ^b  

^a FREIE UNIVERSITÄT BERLIN   (Germany)

^b INSTITUTE OF BIOORGANIC CHEMISTRY   (Poland)

^c HEBREW UNIVERSITY OF JERUSALEM   (Israel)

Author keywords

Antisense RNA; Non coding RNA; Regulatory RNA

Indexed keywords

COMPLEMENTARY RNA; MESSENGER RNA; RIBOSOME RNA; RNA; TRANSFER RNA; UNCLASSIFIED DRUG; UNTRANSLATED RNA;

BASE PAIRING; CELL DIFFERENTIATION; CELL GROWTH; COGNITION; DEVELOPMENTAL DISORDER; ENZYME MECHANISM; EUKARYOTE; GENE EXPRESSION; GENETIC COMPLEMENTATION; NONHUMAN; OPEN READING FRAME; PROKARYOTE; REVIEW; RNA ANALYSIS; RNA STRUCTURE; RNA TRANSCRIPTION; TRANSCRIPTION REGULATION;

EID: 0034958516     PISSN: 1420682X     EISSN: None     Source Type: Journal    
DOI: 10.1007/PL00000913     Document Type: Review

References (183)

1. The non-coding RNAs as riboregulators
2. Non-coding RNA genes
3. Genomic imprinting: Parental influence on the genome
4. RNA-directed DNA methylation
5. Genomic imprinting, mammalian evolution and the mystery of egg-laying mammals
6. A maternally methylated CpG island in KvLQT1 is associated with an antisense paternal transcript and loss of imprinting in Beckwith-Wiedemann syndrome
7. Developmentally regulated Xist promoter switch mediates initiation of X-inactivation
8. X-inactivation by chromosomal pairing events
9. RNA and the epigenetic regulation of X-chromosome inactivation
10. New insight into the function of noncoding RNA and its potential role in disease pathogenesis
11. Disruption of imprinted X inactivation by parent-of-origin effects at Tsix
12. The role of chromosomal RNAs in marking the X for dosage compensation
13. Noncoding RNA genes in dosage compensation and imprinting
14. X-chromosome inactivation: Counting, choice and initiation
15. A revision of the human XIST gene organization and structural comparison with mouse Xist
16. A new structural for the murine Xist gene and its relationship to chromosome choice/counting during X-chromosome inactivation
17. Role of the region 3′ to Xist exon 6 in the counting process of X-chromosome inactivation
18. Dosage compensation: Making 1X equal 2X
19. Promoter-specific hypoacetylation of X inactivated genes
20. A tail of histone acetylation and DNA recombination
21. Acetylation and chromosomal functions
22. Further examination of the Xist promoter-switch hypothesis in X inactivation: Evidence against the existence and function of a P(0) promoter
23. Compact chromatin packaging of inactive X chromosome involves the actively transcribed Xist gene
24. LINE-1 elements and X chromosome inactivation: A function for "junk"DNA?
25. X-chromosome inactivation: A repeat hypothesis
26. Mechanisms of Igf2/H19 imprinting: DNA methylation, chromatin and long-distance gene regulation
27. Molecular evidence for a relationship between LINE-1 elements and X-chromosome inactivation: The Lyon repeat hypothesis
28. Do all SINEs lead to LINEs?
29. Accelerated telomere shortening in the human inactive X chromosome
30. Tsix, a gene antisense to Xist at the X-inactivation centre
31. Molecular cloning of antisense transcript of the mouse Xist gene
32. Targeted mutagenesis of Tsix leads to nonrandom X inactivation
33. Chromatin structure analysis of the mouse Xist locus
34. Xist RNA exhibits a banded localisation on the inactive X-chromosome and is excluded from autosomal material in cis
35. H4 acetylation, Xist RNA and replication timing are coincident and define X; autosome boundaries in two abnormal X-chromosomes
36. A developmental switch in H4 acetylation upstream of Xist plays a role in X-chromosome inactivation
37. Disruption of imprinted X inactivation by parent-of-origin effects at Tsix
38. Epigenetic spreading of the Drosophila dosage compensation complex from roXRNA genes into flanking chromatin
39. Chromodomains are protein-RNA interaction modules
40. Stabilisation and localisation of Xist RNA are controlled by separate mechanisms and are not sufficient for X-inactivation
41. The rox1 and rox2 RNAs are essential components of the compensasome, which mediates dosage compensation in Drosophila
42. Dosage compensation rox
43. Ordered assembly of roX RNAs into MSL complexes on the dosage-compensated X chromosome in Drosophila
44. A 2.9 kilobase non-coding nuclear RNA functions in the establishment of persistent Hz-1 viral infection
45. The sins of the fathers and mothers: Genomic imprinting in mammalian development
46. Mechanisms of genomic imprinting
47. H19 over-expression in breast adenocarcinoma stromal cells is associated with tumor values and steroid receptor status but independent of p53 and Ki-67 expression
48. The product of the imprinted H19 gene is an oncofetal RNA
49. The expression of the H19 gene and its function in human bladder carcinoma cell lines
50. Expression of the imprinted H19 oncofetal RNA in epithelial ovarian cancer
51. Imprinted H19 gene expression in embryogenesis and human cancer: The oncofetal connection
52. The hows and whys of imprinting
53. A potential imprint control element identification of conserved 42 bp sequence upstream of H19
54. The 5′ flank of mouse H19 in an unusual chromatin conformation undirectionally blocks enhancer-promoter communication
55. Role of a 461-bp G-rich repetitive element in H19 transgene imprinting
56. Establishment of the paternal methylation imprint of the human H19 and MEST/PEG1 genes during spermatogenesis
57. Molecular evolutionary evidence that H19 mRNA is functional
58. H19 RNA binds four molecules of IGF-II mRNA-binding protein
59. Evidence for evolutionarily conserved secondary structure in the H19 tumor suppressor RNA
60. The H19 transcript is associated with polysomes and may regulate IGF-2 expression in trans
61. Evidence for evolutionarily conserved secondary structure in the H19 tumor suppressor RNA
62. Methylation of a CTCF-dependent boundary controls imprinted expression of the Igf2 gene
63. CTCF mediates methylation-sensitive enhancer-blocking activity at the H19/Igf2 locus
64. Mothers setting boundaries
65. H19 sense and antisense transgenes modify insulin like growth factor-II mRNA levels
66. H19 and Igf2 monoallelic expression is regulated in two distinct ways by a shared cis acting regulatory region upstream of H19
67. Science across the border
68. Transcriptional control: Imprinting insulation
69. Functional association of CTCF with the insulator upstream of the H19 gene is parent of origin-specific and methylation sensitive
70. Pausing for thought on the boundaries of imprinting
71. Steroid hormones modulate H19 gene expression in both mammary gland and uterus
72. An imprinted mouse transcript homologous to the human imprinted in Prader-Willi syndrome (IPW) gene
73. The human NTT gene: Identification of a novel 17 kb non-coding nuclear RNA expressed in activated CD+ T cells
74. Identification of a novel transcript disrupted by a balanced translocation associated with DiGeorge syndrome
75. Cloning and comparative mapping of the DiGeorge syndrome critical region in the mouse
76. Relaxation of insulin-like growth factor 2 imprinting and discordant methylation at-KvDMR1 in two first cousins affected by Beckwith-Wiedemann and Klippel-Trenaunay-Weber syndromes
77. LIT1, an imprinted antisense RNA in the human KvLQT1 locus identified by screening for differentially expressed transcripts using monochromosomal hybrids
78. Loss of imprinting of a paternally expressed transcript, with antisense orientation to KVLQT1, occurs frequently in Beckwith-Wiedemann syndrome and is independent of insulin-like growth factor II imprinting
79. An imprinted transcript, antisense to Nesp, adds complexity to the cluster of imprinted genes at the mouse Gnas locus
80. An imprinted anti-sense transcript at the human GNAS1 locus
81. A cluster of oppositely imprinted transcripts at the Gnas locus in the distal imprinting region of mouse chromosome 2
82. The SCA8 transcript is an antisense RNA to a brain-specific transcript encoding a novel actin-binding protein
83. Drosophila kelch is an oligomeric ring canal actin organizer
84. SCA8 CTG repeat: En masse contractions in sperm and intergenerational sequence changes may play a role in reduced penetrance
85. Isolation of a testis-specific cDNA on chromosome 17q from a region adjacent to the breakpoint of t(12,17) observed in a patient with acampomelic campomelic dysplasia and sex reversal
86. The 21-nucleotide let-7 RNA regulates developmental timing in Caenorhabditis elegans
87. The lin-4 regulatory RNA controls developmental timing in Caenorhabditis elegans by blocking LIN-14 protein synthesis after the initiation of translation
88. Control of developmental timing in Caenorhabditis elegans
89. The lin-41 RBCC gene acts in the C. elegans heterochronic pathway between the let-7 regulatory RNA and the LIN-29 transcription factor
90. The timing of lin-4 RNA accumulation controls the timing of postembryonic developmental events in Caenorhabditis elegans
91. The C. elegans heterochronic gene lin-4 encodes small RNAs with anti-sense complementarity to lin-14
92. A bulged lin-4/lin-14 RNA duplex is sufficient for Caenorhabditis elegans lin-14 temporal gradient formation
93. The cold shock domain protein LIN-28 controls developmental timing in C. elegans and is regulated by the lin-4 RNA
94. Non-coding RNAs: Lightning strikes twice
95. Small but mighty timekeepers
96. Conservation of the sequence and temporal expression of let-7 heterochronic regulatory RNA
97. Overlapping but distinct RNA elements control repression and activation of nanos translation
98. Parental imprinting and Angelman syndrome
99. An imprinted antisense RNA overlaps UDE3A and a second maternally expressed transcript
100. Imprinting of a RING zinc-finger encoding gene in the mouse chromosome region homologous to the Prader-Willi syndrome genetic region
101. A novel imprinted gene, encoding a RING zinc-finger protein, and overlapping antisense transcript in the Prader-Willi syndrome critical region
102. Disruption of two novel genes by a translocation co-segregating with schizophrenia
103. A maternal RNA localized in the yellow crescent is segregated to the larval muscle cells during ascidian development
104. PCNA mRNA has a 3′ UTR antisense to yellow crescent RNA and is localized in ascidian eggs and embryos
105. Multiple hok genes on the chromosome of Escherichia coli
106. Ribonuclease III processing of coaxially stacked RNA helices
107. Metastable structures and refolding kinetics in hok mRNA of plasmid R1
108. Secondary structure analysis of RepA mRNA leader transcript involved in control of plasmid replication
109. An unsusual structure formed by antisense-target RNA binding involves an extended kissing complex with a four way junction and side-by-side helical alignment
110. Complexes formed by complementary RNA stem-loops: Their formations, structures and interactions with ColE1 Rom protein
111. The solution structure of an RNA loop-loop complex: The ColE1 inverted loop sequence
112. Crystal structure of two plasmid copy control related RNA duplexes: An 18 base pair duplex at 1.2 Å resolution and a 19 base pair duplex at 1.55 Å resolution
113. Antisense regulation in prokaryotes: Rapid RNA/RNA interaction facilitated by a general U-turn loop structure
114. A novel DNA damage-inducible transcript, gadd7, inhibits cell growth, but lacks a protein product
115. adap33, a novel oxidant inducible RNA from hamster HA-1 cells
116. Oxidant-inducible adapl5 RNA is associated with growth arrest- and DNA damage-inducible gaddl53 and gadd45
117. C-terminal end of v-src protein interacts with peptide coded by gadd7/adaptl5-like RNA in two-hybrid system
118. Unusual behaviour of the cytoplasmic transcript of hsrω: An abundant stress-inducible RNA that is translated but yields no detectable protein product
119. The 93 D (hsr-omega) locus of Drosophila: Non-coding gene with house-keeping functions
120. RNA metabolism in situ at the 93D heat shock locus in polytene nuclei of Drosophila melanogaster after various treatments
121. Both allelic variation and expression of nuclear and cytoplasmic transcripts of Hsr-omega are closely associated with thermal phenotype in Drosophila
122. Identification and characterisation of G90, a novel mouse RNA that lacks an extensive open reading frame
123. Interplay of global regulators and cell physiology in the general response of Escherichia coli
124. Post transcriptional control by global regulators ofgene expression in bacteria
125. Switching on and off with RNA
126. fhlA repression by OxyS RNA: Kissing complex formation at two sites results in a stable antisense-target RNA complex
127. A small, stable RNA induced by oxidative stress: Role as a pleiotropic regulator and antimutator
128. The OxyS regulatory RNA represses rpoS translation and binds the Hfg (HF-1) protein
129. The Escherichia coli OxyS regulatory RNA represses fhlA translation by blocking ribosome binding
130. Regulation in rpoS regulon of Escherichia coli
131. Role for the oxyS gene in regulation of intracellular hydrogen peroxide in Escherichia coli
132. A small RNA acts as an anti silencer of the H-NS-silencer rcsA gene of Escherichia coli
133. The small RNA, DsrA, is essential for the low temperature expression of RpoS during exponential growth in Escherichia coli
134. The LysR-like regulator LeuO in Escherichia coli is involved in the translational regulation of rpoS by affecting the expression of the small regulatory DsrA-RNA
135. DsrA RNA regulates translation of RpoS message by an antisense mechanism, independent of its action as an anti silencer of transcription
136. Riboregulation in Escherichia coli: DsrA RNA acts by RNA:RNA interactions at multiple loci
137. A trans-acting RNA as a control switch in Escherichia coli: DsrA modulates function by forming alternative structures
138. PCGEM1, a prostate-specific gene, is overexpressed in prostate cancer
139. DD3: A new prostate-specific gene, highly overexpressed in prostate cancer
140. Isolation and characterization of the promoter of the human prostate-cancer-specific DD3 gene
141. Retroviral insertions in the murine His-1 locus activate the expression of novel RNA that lacks an extensive open reading frame
142. Evolutionary conservation of putative functional domains in the human homolog of murine His-1 gene
143. Expression of the putative proto-oncogene His-1 in normal and neoplastic tissues
144. enod40, a gene expressed during nodule organogenesis, codes for a non-translable RNA involved in plant growth
145. Modification of phytohormone response by a peptide encoded by ENOD40 of legumes and a non-legume
146. Re-evaluation of phytochrome-independent division of tobacco protoplast-derived cells
147. Signalling in symbiotic root nodule formation
148. Patterns of ENOD40 gene expression in stem-borne nodules of Sesbania rostrata
149. Genes and signal molecules involved in the rhizobia-leguminoseae symbiosis
150. The soybean ENOD40(2) promoter is active in Arabidopsis thaliana and is temporally and spatially regulated
151. Rice ENOD40: Isolation and expression analysis in rice and transgenic soybean root nodules
152. Lotus japonicus contains two distinct ENOD 40 genes that are expressed in symbiotic, nonsymbiotic and embryonic tissues
153. Repression of lipopolysaccharide biosynthesis in Escherichia coli by an antisense RNA of Acetobacter methanolicus phage Acm1
154. 1
155. Non-coding RNA for CR20, a cytokinin-repressed gene of cucumber
156. Identification and characterisation of genes with unstable transcripts (GUTs) in tobacco
157. GUT15 cDNAs from tobacco and Arabidopsis correspond to transcripts with unusual metabolism and a short conserved OR
158. A novel type of non-coding RNA expressed in the rat brain
159. An E-box sequence acts as transcriptional activator for BC-1 RNA expression by RNA polymerase III in the brain
160. RNAs from all categories generate retrosequences that may be exapted as novel genes or regulatory elements
161. Identification of human auto antigen La/SS-B as BC1/BC200 RNA-binding protein
162. The BC200 RNA gene and its neural expression are conserved in Anthropoidea (Primates)
163. RNAs from all categories generate retrosequences that may be expanded as novel genes or regulatory elements
164. A steroid receptor coactivator, SRA, functions as an RNA and is present in an SRC-1 complex
165. S. pombe mei2+ encodes an RNA-binding protein essential for premeiotic DNA synthesis and meiosis I, which cooperates with a novel RNA species meiRNA
166. RNA-assisted nuclear transport of the meiotic regulator Mei2p in fission yeast
167. Meiosis: MeiRNA hits the spot
168. A mammalian gene with introns instead of exons generating stable RNA products
169. Classification of gas5 as a multi-small-nuclear (snoRNA) host gene and a member of the 5′-terminal oligopyrimidine gene family reveals common features of snoRNA host genes
170. The host gene for intronic U17 small nucleolar RNA in mammals has no protein-coding potential and is a member of the 5′-terminal oligopyrimidine gene family
171. Human U19 intron-encoded snoRNA is processed from a long primary transcript that possesses little potential for protein coding
172. Guided tours: From precursor snoRNA to functional snoRNP
173. Translocation of repetitive RNA sequences with the germ plasm in Xenopus oocytes
174. Delocalisation of Vg1 mRNA from the vegetal cortex in Xenopus oocytes after destruction of Xlsirt RNA
175. The impact of genomic imprinting for neurobehavioral and developmental disorders
176. The 3′ untranslated region of messenger RNA: A molecular hotspot for pathology
177. RNA interference: Genetic wand and genetic watchdog
178. Post-transcriptional gene-silencing: RNAs on the attack or on the defense?
179. RNAi - Prospects for a general technique for determining gene function
180. SmpB, a unique RNA-binding protein essential for the peptide-tagging activity of SsrA (tm RNA)
181. Differential effects of the protein cofactor on the interactions between and RNase P ribozyme an its target mRNA substrate
182. The Escherichia coli Oxy S regulatory RNA represses fhlA translation by blocking ribosome binding
183. Secondary structure alone is generally not statistically significant for the detection of non-coding RNAs