Formation of triple-helical structures by the 3'-end sequences of MALAT1 and MENβ noncoding RNAs.

Formation of triple-helical structures by the 3'-end sequences of MALAT1 and MENβ noncoding RNAs. Brown, J. a, Valenstein, M. L, Yario, T. A, Tycowski, K. T, & Steitz, J. A Proceedings of the National Academy of Sciences of the United States of America, 2012:1–6, November, 2012.

Paper doi abstract bibtex

Stability of the long noncoding-polyadenylated nuclear (PAN) RNA from Kaposi's sarcoma-associated herpesvirus is conferred by an expression and nuclear retention element (ENE). The ENE protects PAN RNA from a rapid deadenylation-dependent decay pathway via formation of a triple helix between the U-rich internal loop of the ENE and the 3'-poly(A) tail. Because viruses borrow molecular mechanisms from their hosts, we searched highly abundant human long-noncoding RNAs and identified putative ENE-like structures in metastasis-associated lung adenocarcinoma transcript 1 (MALAT1) and multiple endocrine neoplasia-β (MENβ) RNAs. Unlike the PAN ENE, the U-rich internal loops of both predicted cellular ENEs are interrupted by G and C nucleotides and reside upstream of genomically encoded A-rich tracts. We confirmed the ability of MALAT1 and MENβ sequences containing the predicted ENE and A-rich tract to increase the levels of an intronless β-globin reporter RNA. UV thermal denaturation profiles at different pH values support formation of a triple-helical structure composed of multiple U•A-U base triples and a single C•G-C base triple. Additional analyses of the MALAT1 ENE revealed that robust stabilization activity requires an intact triple helix, strong stems at the duplex-triplex junctions, a G-C base pair flanking the triplex to mediate potential A-minor interactions, and the 3'-terminal A of the A-rich tract to form a blunt-ended triplex lacking unpaired nucleotides at the duplex-triplex junction. These examples of triple-helical, ENE-like structures in cellular noncoding RNAs, are unique.

@article{Brown2012,
	title = {Formation of triple-helical structures by the 3'-end sequences of {MALAT1} and {MENβ} noncoding {RNAs}.},
	volume = {2012},
	issn = {1091-6490},
	url = {http://www.ncbi.nlm.nih.gov/pubmed/23129630},
	doi = {10.1073/pnas.1217338109},
	abstract = {Stability of the long noncoding-polyadenylated nuclear (PAN) RNA from Kaposi's sarcoma-associated herpesvirus is conferred by an expression and nuclear retention element (ENE). The ENE protects PAN RNA from a rapid deadenylation-dependent decay pathway via formation of a triple helix between the U-rich internal loop of the ENE and the 3'-poly(A) tail. Because viruses borrow molecular mechanisms from their hosts, we searched highly abundant human long-noncoding RNAs and identified putative ENE-like structures in metastasis-associated lung adenocarcinoma transcript 1 (MALAT1) and multiple endocrine neoplasia-β (MENβ) RNAs. Unlike the PAN ENE, the U-rich internal loops of both predicted cellular ENEs are interrupted by G and C nucleotides and reside upstream of genomically encoded A-rich tracts. We confirmed the ability of MALAT1 and MENβ sequences containing the predicted ENE and A-rich tract to increase the levels of an intronless β-globin reporter RNA. UV thermal denaturation profiles at different pH values support formation of a triple-helical structure composed of multiple U•A-U base triples and a single C•G-C base triple. Additional analyses of the MALAT1 ENE revealed that robust stabilization activity requires an intact triple helix, strong stems at the duplex-triplex junctions, a G-C base pair flanking the triplex to mediate potential A-minor interactions, and the 3'-terminal A of the A-rich tract to form a blunt-ended triplex lacking unpaired nucleotides at the duplex-triplex junction. These examples of triple-helical, ENE-like structures in cellular noncoding RNAs, are unique.},
	journal = {Proceedings of the National Academy of Sciences of the United States of America},
	author = {Brown, Jessica a and Valenstein, Max L and Yario, Therese A and Tycowski, Kazimierz T and Steitz, Joan A},
	month = nov,
	year = {2012},
	pmid = {23129630},
	keywords = {\#nosource},
	pages = {1--6},
}

Downloads: 0

{"_id":"JpP5ZPyfT7d43GLXJ","bibbaseid":"brown-valenstein-yario-tycowski-steitz-formationoftriplehelicalstructuresbythe3endsequencesofmalat1andmennoncodingrnas-2012","author_short":["Brown, J. a","Valenstein, M. L","Yario, T. A","Tycowski, K. T","Steitz, J. A"],"bibdata":{"bibtype":"article","type":"article","title":"Formation of triple-helical structures by the 3'-end sequences of MALAT1 and MENβ noncoding RNAs.","volume":"2012","issn":"1091-6490","url":"http://www.ncbi.nlm.nih.gov/pubmed/23129630","doi":"10.1073/pnas.1217338109","abstract":"Stability of the long noncoding-polyadenylated nuclear (PAN) RNA from Kaposi's sarcoma-associated herpesvirus is conferred by an expression and nuclear retention element (ENE). The ENE protects PAN RNA from a rapid deadenylation-dependent decay pathway via formation of a triple helix between the U-rich internal loop of the ENE and the 3'-poly(A) tail. Because viruses borrow molecular mechanisms from their hosts, we searched highly abundant human long-noncoding RNAs and identified putative ENE-like structures in metastasis-associated lung adenocarcinoma transcript 1 (MALAT1) and multiple endocrine neoplasia-β (MENβ) RNAs. Unlike the PAN ENE, the U-rich internal loops of both predicted cellular ENEs are interrupted by G and C nucleotides and reside upstream of genomically encoded A-rich tracts. We confirmed the ability of MALAT1 and MENβ sequences containing the predicted ENE and A-rich tract to increase the levels of an intronless β-globin reporter RNA. UV thermal denaturation profiles at different pH values support formation of a triple-helical structure composed of multiple U•A-U base triples and a single C•G-C base triple. Additional analyses of the MALAT1 ENE revealed that robust stabilization activity requires an intact triple helix, strong stems at the duplex-triplex junctions, a G-C base pair flanking the triplex to mediate potential A-minor interactions, and the 3'-terminal A of the A-rich tract to form a blunt-ended triplex lacking unpaired nucleotides at the duplex-triplex junction. These examples of triple-helical, ENE-like structures in cellular noncoding RNAs, are unique.","journal":"Proceedings of the National Academy of Sciences of the United States of America","author":[{"propositions":[],"lastnames":["Brown"],"firstnames":["Jessica","a"],"suffixes":[]},{"propositions":[],"lastnames":["Valenstein"],"firstnames":["Max","L"],"suffixes":[]},{"propositions":[],"lastnames":["Yario"],"firstnames":["Therese","A"],"suffixes":[]},{"propositions":[],"lastnames":["Tycowski"],"firstnames":["Kazimierz","T"],"suffixes":[]},{"propositions":[],"lastnames":["Steitz"],"firstnames":["Joan","A"],"suffixes":[]}],"month":"November","year":"2012","pmid":"23129630","keywords":"#nosource","pages":"1–6","bibtex":"@article{Brown2012,\n\ttitle = {Formation of triple-helical structures by the 3'-end sequences of {MALAT1} and {MENβ} noncoding {RNAs}.},\n\tvolume = {2012},\n\tissn = {1091-6490},\n\turl = {http://www.ncbi.nlm.nih.gov/pubmed/23129630},\n\tdoi = {10.1073/pnas.1217338109},\n\tabstract = {Stability of the long noncoding-polyadenylated nuclear (PAN) RNA from Kaposi's sarcoma-associated herpesvirus is conferred by an expression and nuclear retention element (ENE). The ENE protects PAN RNA from a rapid deadenylation-dependent decay pathway via formation of a triple helix between the U-rich internal loop of the ENE and the 3'-poly(A) tail. Because viruses borrow molecular mechanisms from their hosts, we searched highly abundant human long-noncoding RNAs and identified putative ENE-like structures in metastasis-associated lung adenocarcinoma transcript 1 (MALAT1) and multiple endocrine neoplasia-β (MENβ) RNAs. Unlike the PAN ENE, the U-rich internal loops of both predicted cellular ENEs are interrupted by G and C nucleotides and reside upstream of genomically encoded A-rich tracts. We confirmed the ability of MALAT1 and MENβ sequences containing the predicted ENE and A-rich tract to increase the levels of an intronless β-globin reporter RNA. UV thermal denaturation profiles at different pH values support formation of a triple-helical structure composed of multiple U•A-U base triples and a single C•G-C base triple. Additional analyses of the MALAT1 ENE revealed that robust stabilization activity requires an intact triple helix, strong stems at the duplex-triplex junctions, a G-C base pair flanking the triplex to mediate potential A-minor interactions, and the 3'-terminal A of the A-rich tract to form a blunt-ended triplex lacking unpaired nucleotides at the duplex-triplex junction. These examples of triple-helical, ENE-like structures in cellular noncoding RNAs, are unique.},\n\tjournal = {Proceedings of the National Academy of Sciences of the United States of America},\n\tauthor = {Brown, Jessica a and Valenstein, Max L and Yario, Therese A and Tycowski, Kazimierz T and Steitz, Joan A},\n\tmonth = nov,\n\tyear = {2012},\n\tpmid = {23129630},\n\tkeywords = {\\#nosource},\n\tpages = {1--6},\n}\n\n","author_short":["Brown, J. a","Valenstein, M. L","Yario, T. A","Tycowski, K. T","Steitz, J. A"],"key":"Brown2012","id":"Brown2012","bibbaseid":"brown-valenstein-yario-tycowski-steitz-formationoftriplehelicalstructuresbythe3endsequencesofmalat1andmennoncodingrnas-2012","role":"author","urls":{"Paper":"http://www.ncbi.nlm.nih.gov/pubmed/23129630"},"keyword":["#nosource"],"metadata":{"authorlinks":{}},"html":""},"bibtype":"article","biburl":"https://bibbase.org/zotero/eric.larG4","dataSources":["5L2zM5wNE5CBYNuea"],"keywords":["#nosource"],"search_terms":["formation","triple","helical","structures","end","sequences","malat1","men","noncoding","rnas","brown","valenstein","yario","tycowski","steitz"],"title":"Formation of triple-helical structures by the 3'-end sequences of MALAT1 and MENβ noncoding RNAs.","year":2012}