Polyadenylate polymerase (PAP) and 3′ end pre-mRNA processing: Function, assays, and association with disease

Critical Reviews in Clinical Laboratory Sciences

Volumn 39, Issue 3, 2002, Pages 193-224

  Scorilas, Andreas ^a  

^a INSTITUTE OF NANOSCIENCE AND NANOTECHNOLOGY   (Greece)

Author keywords

3 ; Apoptosis; Assays; Breast cancer; Cleavage; End processing; Epilepsy; Immunocytochemical methods; Leukemia; PAP; Polyadenylate polymerase; Polyadenylation

Indexed keywords

POLYADENYLIC ACID; POLYNUCLEOTIDE ADENYLYLTRANSFERASE; RNA PRECURSOR;

ANALYTIC METHOD; BREAST CANCER; DISEASE ASSOCIATION; ENZYME ACTIVITY; ENZYME ASSAY; EPILEPSY; GENETIC STABILITY; IMMUNOCYTOCHEMISTRY; LEUKEMIA; PRIORITY JOURNAL; PROGNOSIS; REVIEW; RNA PROCESSING; SPERMATOGENESIS; TRANSLATION INITIATION; BREAST TUMOR; ENZYMOLOGY; FEMALE; GENETICS; HUMAN; METABOLISM; PHYSIOLOGY;

BREAST NEOPLASMS; EPILEPSY; FEMALE; HUMAN; LEUKEMIA; POLYNUCLEOTIDE ADENYLYLTRANSFERASE; RNA PRECURSORS; RNA PROCESSING, POST-TRANSCRIPTIONAL; HUMANS;

EUKARYOTA;

EID: 0035991709     PISSN: 10408363     EISSN: None     Source Type: Journal    
DOI: 10.1080/10408360290795510     Document Type: Review

References (189)

1. Polyadenylate polymerases from normal and cancer cells and their potential role in messenger RNA processing: A review
2. Role of polyadenylation in nucleocytoplasmic transport of mRNA
3. Mature mRNA 3′ end formation stimulates RNA export from the nucleus
4. Mechanism and regulation of mRNA polyadenylation
5. Dual function of the messenger RNA cap structure in poly(A)-tail-promoted translation in yeast
6. Cytoplasmic polyadenylation in development and beyond
7. Starting at the beginning, middle, and end: Translation initiation in eukaryotes
8. Degradation of mRNA in eukaryotes
9. The poly(A) tail inhibits the assembly of a 3′-to-5′ exonuclease in an in vitro RNA stability system
10. Life and death in the cytoplasm: Messages from the 3′ end
11. Development of an in vitro mRNA decay system for Escherichia coli: Poly(A) polymerase I is necessary to trigger degradation
12. Levels of polyadenylation factor CstF-64 control IgM heavy chain mRNA accumulation and other events associated with B cell differentiation
13. Complex alternative RNA processing generates an unexpected diversity of poly(A) polymerase isoforms
14. Short GCG expansions in the PABP2 gene cause oculopharyngeal muscular dystrophy
15. Arylsulfatase A pseudodeficiency: Loss of a polyadenylylation signal and N-glycosylation site
16. Alpha-thalassaemia caused by a polyadenylation signal mutation
17. Thalassemia due to a mutation in the cleavage-polyadenylation signal of the human beta-globin gene
18. Aberrant RNA processing in a neurodegenerative disease: The cause for absent EAAT2, a glutamate transporter, in amyotrophic lateral sclerosis
19. Poly(A) tail metabolism and function in eucaryotes
20. Interaction between the U1 snRNP-A protein and the 160-kD subunit of cleavage-polyadenylation specificity factor increases polyadenylation efficiency in vitro
21. Transcription-dependent and transcription-independent nuclear transport of hnRNP proteins
22. Genomic organization, physical mapping, and expression analysis of the human protein arginine methyltransferase 1 gene
23. hnRNP G: Sequence and characterization of a glycosylated RNA-binding protein
24. The 64-kilodalton subunit of the CstF polyadenylation factor binds to pre-mRNAs downstream of the cleavage site and influences cleavage site location
25. Formation of mRNA 3′ ends in eukaryotes: Mechanism, regulation, and interrelationships with other steps in mRNA synthesis
26. A novel nuclear human poly(A) polymerase (PAP), PAP gamma
27. Cloning of a gene (SR-A1), encoding for a new member of the human Ser/Arg-rich family of pre-mRNA splicing factors: Overexpression in aggressive ovarian cancer
28. Programmed cell death (apoptosis) and cell survival regulation: Relevance to AIDS and cancer
29. The biochemistry of programmed cell death
30. Molecular cloning, physical mapping, and expression analysis of a novel gene, bcl2112, encoding a proline-rich protein with a highly conserved bh2 domain of the bcl-2 family
31. Dephosphorylation, proteolysis, and reduced activity of poly(A) polymerase associated with U937 cell apoptosis
32. Poly(A) signals
33. The human KLK8 (neuropsin/ovasin) gene: Identification of two novel splice variants and its prognostic value in ovarian cancer
34. Molecular cloning of the human kallikrein 15 gene (KLK15). Up-regulation in prostate cancer
35. Human kallikrein gene 5 (KLK5) expression is an indicator of poor prognosis in ovarian cancer
36. Human kallikrein 10: A novel tumor marker for ovarian carcinoma?
37. Genomic organization of the human kallikrein gene family on chromosome 19q13.3-q13.4
38. The KLK7 (PRSS6) gene, encoding for the stratum corneum chymotryptic enzyme is a new member of the human kallikrein gene family - Genomic characterization, mapping, tissue expression and hormonal regulation
39. Genomic organization, mapping, tissue expression, and hormonal regulation of trypsin-like serine protease (TLSP PRSS20), a new member of the human kallikrein gene family
40. Polyadenylation of mRNA precursors
41. Point mutations in AAUAAA and the poly (A) addition site: Effects on the accuracy and efficiency of cleavage and polyadenylation in vitro
42. The biochemistry of 3′-end cleavage and polyadenylation of messenger RNA precursors
43. Structure of a human histone cDNA: Evidence that basally expressed histone genes have intervening sequences and encode polyadenylylated mRNAs
44. How the messenger got its tail: Addition of poly(A) in the nucleus
45. Functional analysis of point mutations in the AAUAAA motif of the SV40 late polyadenylation signal
46. Localization and sequence analysis of poly(A) sites generating multiple dihydrofolate reductase mRNAs
47. Size heterogeneity in the 3′ end of dihydrofolate reductase messenger RNAs in mouse cells
48. Two distinct forms of the 64,000 Mr protein of the cleavage stimulation factor are expressed in mouse male germ cells
49. Expression of replication-dependent histone genes in avian spermatids involves an alternate pathway of mRNA 3′-end formation
50. A functionally redundant downstream sequence in SV40 late pre-mRNA is required for mRNA 3′-end formation and for assembly of a precleavage complex in vitro
51. Mutations downstream of the polyadenylation site of a Xenopus beta- globin mRNA affect the position but not the efficiency of 3′ processing
52. Position-dependent sequence elements downstream of AAUAAA are required for efficient rabbit beta-globin mRNA 3′ end formation
53. Cleavage site determinants in the mammalian polyadenylation signal
54. Sequence and position requirements for uridylate-rich downstream elements of polyadenylation signals
55. The consensus sequence YGTGTTYY located downstream from the AATAAA signal is required for efficient formation of mRNA 3′ termini
56. Upstream sequence elements enhance poly(A) site efficiency of the C2 complement gene and are phylogenetically conserved
57. The upstream sequence element of the C2 complement poly(A) signal activates mRNA 3′ end formation by two distinct mechanisms
58. The human immunodeficiency virus type 1 polyadenylylation signal: A 3′ long terminal repeat element upstream of the AAUAAA necessary for efficient polyadenylylation
59. Definition of the upstream efficiency element of the simian virus 40 late polyadenylation signal by using in vitro analyses
60. Direct interaction of the U1 snRNP-A protein with the upstream efficiency element of the SV40 late polyadenylation signal
61. Varied poly(A) site efficiency in the adenovirus major late transcription unit
62. Sequence elements upstream of the 3′ cleavage site confer substrate strength to the adenovirus L1 and L3 polyadenylation sites
63. A noncanonical poly(A) signal, UAUAAA, and flanking elements in Epstein-Barr virus DNA polymerase mRNA function in cleavage and polyadenylation assays
64. Upstream and downstream cis-acting elements for cleavage at the L4 polyadenylation site of adenovirus-2
65. The mechanism of 3′ cleavage and polyadenylation of eukaryotic pre-mRNA
66. Evolutionary conservation of sequence elements controlling cytoplasmic polyadenylylation
67. Site-directed ribose methylation identifies 2′-OH groups in polyadenylation substrates critical for AAUAAA recognition and poly(A) addition
68. Purification of the cleavage and polyadenylation factor involved in the 3′-processing of messenger RNA precursors
69. Molecular analyses of two poly(A) site-processing factors that determine the recognition and efficiency of cleavage of the pre-mRNA
70. Cleavage and polyadenylation factor CPF specifically interacts with the pre-mRNA 3′ processing signal AAUAAA
71. Poly(A) site efficiency reflects the stability of complex formation involving the downstream element
72. Characterization of cleavage and polyadenylation specificity factor and cloning of its 100-kilodalton subunit
73. Characterization of the multisubunit cleavage-polyadenylation specificity factor from calf thymus
74. The 160-kD subunit of human cleavage-polyadenylation specificity factor coordinates pre-mRNA 3′-end formation
75. Cloning of cDNAs encoding the 160 kDa subunit of the bovine cleavage and polyadenylation specificity factor
76. Conserved structures and diversity of functions of RNA-binding proteins
77. RNA-protein complexes
78. A link between secretion and pre-mRNA processing defects in Saccharomyces cerevisiae and the identification of a novel splicing gene, RSE1
79. The 30-kDa subunit of mammalian cleavage and polyadenylation specificity factor and its yeast homolog are RNA-binding zinc finger proteins
80. Systematic evolution of ligands by exponential enrichment: RNA ligands to bacteriophage T4 DNA polymerase
81. Drosophila clipper/CPSF 30K is a post-transcriptionally regulated nuclear protein that binds RNA containing GC clusters
82. Sequence similarity between the 73-kilodalton protein of mammalian CPSF and a subunit of yeast polyadenylation factor I
83. A multisubunit factor, CstF, is required for polyadenylation of mammalian pre-mRNAs
84. A polyadenylation factor subunit is the human homologue of the Drosophila suppressor of forked protein
85. The human 64-kDa polyadenylylation factor contains a ribonucleoprotein-type RNA binding domain and unusual auxiliary motifs
86. The polyadenylation factor CstF-64 regulates alternative processing of IgM heavy chain pre-mRNA during B cell differentiation
87. Deregulation of poly(A) polymerase interferes with cell growth
88. The HAT helix, a repetitive motif implicated in RNA processing
89. A human polyadenylation factor is a G protein beta-subunit homologue
90. Control of pre-mRNA accumulation by the essential yeast protein Nrd1 requires high-affinity transcript binding and a domain implicated in RNA polymerase II association
91. Yeast pre-mRNA splicing requires a pair of U1 snRNP-associated tetratricopeptide repeat proteins
92. Four factors are required for 3′-end cleavage of pre-mRNAs
93. Purification and characterization of human cleavage factor Im involved in the 3′ end processing of messenger RNA precursors
94. Human pre-mRNA cleavage factor Im is related to spliceosomal SR proteins and can be reconstituted in vitro from recombinant subunits
95. 3′-end processing of pre-mRNA in eukaryotes
96. The C-terminal domain of RNA polymerase II couples mRNA processing to transcription
97. RNA polymerase II is an essential mRNA polyadenylation factor
98. Coupling RNA polymerase II transcription with pre-mRNA processing
99. Primary structure and expression of bovine poly(A) polymerase
100. Purification and characterization of a mammalian polyadenylate polymerase involved in the 3′ end processing of messenger RNA precursors
101. Isolation and expression of cDNA clones encoding mammalian poly(A) polymerase
102. Assembly of a processive messenger RNA polyadenylation complex
103. RNA-protein interactions in mRNA 3′-end formation
104. Inhibition of poly(A) polymerase requires p34cdc2/cyclin B phosphorylation of multiple consensus and non-consensus sites
105. Multiple forms of poly(A) polymerases in human cells
106. Poly (A) polymerases in the nucleus and cytoplasm of frog oocytes: Dynamic changes during oocyte maturation and early development
107. Cloning and expression of the essential gene for poly(A) polymerase from S. cerevisiae
108. The Schizosaccharomyces pombe p1a1 gene encodes a poly(A) polymerase and can functionally replace its Saccharomyces cerevisiae homologue
109. Identification of the gene for an Escherichia coli poly(A) polymerase
110. Tissue-specific autoregulation of Drosophila suppressor of forked by alternative poly(A) site utilization leads to accumulation of the suppressor of forked protein in mitotically active cells
111. Poly(A) polymerase and a dissociable polyadenylation stimulatory factor encoded by vaccinia virus
112. Identification of a novel isoform of poly(A) polymerase, TPAP, specifically present in the cytoplasm of spermatogenic cells
113. Cloning and characterization of a Xenopus poly(A) polymerase
114. Assignment of the human poly(A) polymerase (PAP) gene to chromosome 14q32.1-q32.2 and isolation of a polymorphic CA repeat sequence
115. An intronless gene encoding a poly(A) polymerase is specifically expressed in testis
116. Identification and characterization of a novel human testis-specific kinase substrate gene which is downregulated in testicular tumors
117. Separation and characterization of a poly(A) polymerase and a cleavage/specificity factor required for pre-mRNA polyadenylation
118. Crystal structure of mammalian poly(A) polymerase in complex with an analog of ATP
119. Mutational analysis of mammalian poly(A) polymerase identifies a region for primer binding and catalytic domain, homologous to the family X polymerases, and to other nucleotidyltransferases
120. The gene for histone RNA hairpin binding protein is located on human chromosome 4 and encodes a novel type of RNA binding protein
121. Association of poly(A) polymerase with U1 RNA
122. DNA polymerase beta belongs to an ancient nucleotidyltransferase superfamily
123. Position-dependent inhibition of the cleavage step of pre-mRNA 3′-end processing by U1 snRNP
124. U1 snRNP inhibits pre-mRNA polyadenylation through a direct interaction between U1 70K and poly(A) polymerase
125. The human U1A snRNP protein regulates polyadenylation via a direct interaction with poly(A) polymerase
126. Purification and characterization of full-length mammalian poly(A) polymerase
127. Structure of yeast poly(A) polymerase alone and in complex with 3′-dATP
128. Mammalian poly(A)-binding protein II. Physical properties and binding to polynucleotides
129. Isolation of genomic and cDNA clones encoding bovine poly(A) binding protein II
130. Influenza A virus NS1 protein targets poly(A)-binding protein II of the cellular 3′-end processing machinery
131. Polyadenylation of mRNA in prokaryotes
132. Characterization of the 55-kb mouse histone gene cluster on chromosome 3
133. The U7 snRNP and the hairpin binding protein: Key players in histone mRNA metabolism
134. Multiple processing-defective mutations in a mammalian histone pre-mRNA are suppressed by compensatory changes in U7 RNA both in vivo and in vitro
135. The protein that binds the 3′ end of histone mRNA: A novel RNA-binding protein required for histone pre-mRNA processing
136. Cell-cycle related regulation of poly(A) polymerase by phosphorylation
137. Polyadenylate polymerase enzymatic activity in mammary tumor cytosols: A new independent prognostic marker in primary breast cancer
138. Androgen regulation of poly(A) polymerase in the ventral prostate of rat
139. The combination of human glandular kallikrein and free prostate-specific antigen (PSA) enhances discrimination between prostate cancer and benign prostatic hyperplasia in patients with moderately increased total PSA
140. Decreased concentrations of prostate-specific antigen and human glandular kallikrein 2 in malignant versus nonmalignant prostatic tissue
141. Prostate-specific antigen and human glandular kallikrein 2 are markedly elevated in urine of patients with polycystic ovary syndrome
142. Comparison of the percent free prostate-specific antigen levels in the serum of healthy men and in men with recurrent prostate cancer after radical prostatectomy
143. Dramatic suppression of plasma and urinary prostate specific antigen and human glandular kallikrein by antiandrogens in male-to-female transsexuals
144. Dexamethasone caused alterations in poly(A) polymerase levels of a human leukemic cell line
145. Involvement of the carboxyl terminus of vertebrate poly(A) polymerase in U1A autoregulation and in the coupling of splicing and polyadenylation
146. The NMR structure of the 38 kDa U1A protein-PIE RNA complex reveals the basis of cooperativity in regulation of polyadenylation by human U1A protein
147. The carboxyl terminus of vertebrate poly(A) polymerase interacts with U2AF 65 to couple 3′-end processing and splicing
148. Poly(A) polymerase phosphorylation is dependent on novel interactions with cyclins
149. A subset of poly(A) polymerase is concentrated at sites of RNA synthesis and is associated with domains enriched in splicing factors and poly(A) RNA
150. Early 5-fluorouracil-induced changes of poly(A) polymerase in HeLa and WISH cells
151. Mutations in the first exon are associated with altered transcription of c-myc in Burkitt lymphoma
152. Identification of the human U7 snRNP as one of several factors involved in the 3′ end maturation of histone premessenger RNA's
153. Genetic complementation in the Xenopus oocyte: Co-expression of sea urchin histone and U7 RNAs restores 3′ processing of H3 pre-mRNA in the oocyte
154. Poly(A)polymerase activity levels in breast tumour cytosols
155. Overexpression of matrix-metalloproteinase-9 in human breast cancer: A potential favourable indicator in node-negative patients
156. TNF-alpha expression and apoptosis-regulating proteins in oral lichen planus: A comparative immunohistochemical evaluation
157. Polyvinylamine-streptavidin complexes labeled with a europium chelator: A universal detection reagent for solid-phase time resolved fluorometric applications
158. Streptavidin-polyvinylamine conjugates labeled with a europium chelate: Applications in immunoassay, immunohistochemistry, and microarrays
159. Nuclear polyadenylate polymerase activity in the brain of seizure-prone EL mice
160. Induction of polyadenylate polymerase and differentiation in neuroblastoma cells
161. Decreased transcription of neuronal polyadenylated RNA during senescence in nuclei from rat brain cortex
162. Increase in the levels of activity of polyadenylic acid-metabolizing enzymes following phytohaemagglutinin stimulation of human lymphocytes
163. Poly(A)-polymerase activity in chronic lymphocytic leukemia of the B cell type
164. Polyadenylic acid polymerase activity in normal and leukemic human leukocytes
165. Polyadenylic acid polymerase activity in chronic myelogenous leukemia
166. Drug action on poly(A) polymerase activity and isoforms during U937 cell apoptosis
167. Protein synthesis in the blood lymphocytes of chronic lymphocytic leukemia and its relationship to prognosis
168. Regulation of mRNA polyadenylation-deadenylation
169. Estrogen receptor-positive proliferating cells in the normal and precancerous breast
170. c-erbB-2 overexpression may be used as an independent prognostic factor for breast cancer patients
171. Cathepsin-D and c-erb-B 2 have an additive prognostic value for breast cancer patients
172. Predictive value of c-erbB-2 and cathepsin-D for Greek breast cancer patients using univariate and multivariate analysis
173. Cathepsin D concentration in tumor cytosols improves the accuracy of prognostic evaluation of primary breast cancer
174. Cathepsin D may help in discriminating node-negative breast cancer patients at risk for local-regional recurrence
175. Short recurrence-free survival associated with high oestrogen receptor levels in the natural history of postmenopausal, primary breast cancer
176. Relationships between cathepsin-D, pS2 protein and hormonal receptors in breast cancer cytosols: Inconsistency with their established prognostic significance
177. The biochemistry of polyadenylation
178. Functional interaction of BRCA1-associated BARD1 with polyadenylation factor CstF-50
179. Polyadenylate polymerase activity in stationary and growing cell cultures
180. Phosphorylation and immunology of poly(A) polymerase
181. Breast and prostate cancer: An analysis of common epidemiological, genetic, and biochemical features
182. Codon 89 polymorphism in the human 5 alpha-reductase gene in primary breast cancer
183. Breast cancer prognostic significance of a single nucleotide polymorphism in the proximal androgen response element of the prostate-specific antigen gene promoter
184. Determination of c-myc amplification and overexpression in breast cancer patients: Evaluation of its prognostic value against c-erbB-2, cathepsin-D and clinicopathological characteristics using univariate and multivariate analysis
185. Human glandular kallikrein in breast milk, amniotic fluid, and breast cyst fluid
186. Immunoenzymatically determined pepsinogen C concentration in breast tumor cytosols: An independent favorable prognostic factor in node-positive patients
187. TA repeat polymorphism of the 5alpha-reductase gene and breast cancer
188. The role of chemotherapy for node-negative breast cancer