01696nas a2200205 4500008004100000022001400041245012800055210006900183260010600252300001400358490000700372520082700379653002701206653003701233653001601270653003101286100002001317700002601337856012701363 2013 eng d a0968-089600aC-3 `-endo-puckered pyrrolidine containing PNA has favorable geometry for RNA binding: novel ethano locked PNA (ethano-PNA)0 aC3 endopuckered pyrrolidine containing PNA has favorable geometr aTHE BOULEVARD, LANGFORD LANE, KIDLINGTON, OXFORD OX5 1GB, ENGLANDbPERGAMON-ELSEVIER SCIENCE LTDcJUL a4092-41010 v213 a

A novel peptide nucleic acid (PNA) analogue is designed with a constraint in the aminoethyl segment of the aegPNA backbone so that the dihedral angle beta is restricted within 60-80 degrees, compatible to form PNA:RNA duplexes. The designed monomer is further functionalized with positively charged amino-/guanidino-groups. The appropriately protected monomers were synthesized and incorporated into aegPNA oligomers at predetermined positions and their binding abilities with cDNA and RNA were investigated. A single incorporation of the modified PNA monomer into a 12-mer PNA sequence resulted in stronger binding with complementary RNA over cDNA. No significant changes in the CD signatures of the derived duplexes of modified PNA with complementary RNA were observed. (C) 2013 Elsevier Ltd. All rights reserved.

10aAntisense therapeutics10aConformationally constrained PNA10aDiagnostics10aPeptide nucleic acid (PNA)1 aBanerjee, Anjan1 aKumar, Vaijayanti, A. uhttps://library.ncl.res.in/content/c-3-endo-puckered-pyrrolidine-containing-pna-has-favorable-geometry-rna-binding-novel-001347nas a2200217 4500008004100000022001400041245018500055210006900240260010600309300001400415490000700429520039500436653002700831653002600858653003200884100001900916700002300935700002000958700002600978856012501004 2013 eng d a0040-402000aSynthesis of all four nucleoside-based beta-amino acids as protected precursors for the synthesis of polyamide-DNA with alternating alpha-amino acid and nucleoside-beta-amino acids0 aSynthesis of all four nucleosidebased betaamino acids as protect aTHE BOULEVARD, LANGFORD LANE, KIDLINGTON, OXFORD OX5 1GB, ENGLANDbPERGAMON-ELSEVIER SCIENCE LTDcJAN a1210-12160 v693 a

A simple approach is described for the synthesis of all four orthogonally protected nucleoside-beta-amino acids from commercially available starting materials. Synthesis of a model tetrameric DNA sequence in 5'-3'direction employing trityl strategy and glycine as alpha-amino acid alternating with nucleoside-beta amino acids is described. (C) 2012 Elsevier Ltd. All rights reserved.

10aAntisense therapeutics10aNeutral DNA analogues10aNucleoside-beta amino acids1 aBagmare, Seema1 aVarada, Manojkumar1 aBanerjee, Anjan1 aKumar, Vaijayanti, A. uhttps://library.ncl.res.in/content/synthesis-all-four-nucleoside-based-beta-amino-acids-protected-precursors-synthesis-001217nas a2200193 4500008004100000022001400041245013800055210006900193260011000262300001400372490000700386520040200393100001700795700002000812700001700832700001800849700002600867856013000893 2015 eng d a1359-734500aBeta, gamma-Bis-substituted PNA with configurational and conformational switch: preferred binding to cDNA/RNA and cell-uptake studies0 aBeta gammaBissubstituted PNA with configurational and conformati aTHOMAS GRAHAM HOUSE, SCIENCE PARK, MILTON RD, CAMBRIDGE CB4 0WF, CAMBS, ENGLANDbROYAL SOC CHEMISTRYcMAR a7693-76960 v513 a

(S,S)- and (R,R)-beta,gamma-Bis-substituted PNAs were synthesized from the C-2 symmetric vicinal diamine system embedded in 1,4 dihydroxybutane and 1,4-dimethoxybutane scaffolds. (R,R)-beta,gamma-Bis-methoxymethyl-PNA derived from D-tartaric acid was found to be in the right configuration and conformation to be an excellent mimic of PNA, endowed with superior ability to enter into cells.

1 aBose, Tanaya1 aBanerjee, Anjan1 aNahar, Smita1 aMaiti, Souvik1 aKumar, Vaijayanti, A. uhttps://library.ncl.res.in/content/beta-gamma-bis-substituted-pna-configurational-and-conformational-switch-preferred-binding01080nas a2200181 4500008004100000022001400041245008500055210006900140260007100209300001400280490000700294520039100301100002000692700001900712700002300731700002600754856011800780 2015 eng d a1043-180200aGlycine-linked nucleoside-beta-amino acids: polyamide analogues of nucleic acids0 aGlycinelinked nucleosidebetaamino acids polyamide analogues of n a1155 16TH ST, NW, WASHINGTON, DC 20036 USAbAMER CHEMICAL SOCcAUG a1737-17420 v263 a

3'-5'-Deoxyribose-sugar-phoshate backbone in DNA is completely replaced by 2'-deoxyribonucleoside-based beta-amino acids interlinked by glycine to create uncharged polyamide DNA with 3'-5'-directionality. These oligomers as conjugates of alpha-amino acids and nucleoside-beta-amino acids bind strongly and sequence-specifically only to the antiparallel complementary RNA and DNA.

1 aBanerjee, Anjan1 aBagmare, Seema1 aVarada, Manojkumar1 aKumar, Vaijayanti, A. uhttps://library.ncl.res.in/content/glycine-linked-nucleoside-beta-amino-acids-polyamide-analogues-nucleic-acids-002830nas a2200193 4500008004100000022001400041245012300055210006900178260000900247300001400256490000800270520212900278100002002407700002502427700001702452700001802469700002002487856012902507 2023 eng d a0032-088900a Phased short-interfering RNA siRD29(-) regulates GIBBERELLIN 3-OXIDASE 3 during stolon-to-tuber transitions in potato0 aPhased shortinterfering RNA siRD29 regulates GIBBERELLIN 3OXIDAS cNOV  a2555-25720 v1933 a

Phased short-interfering RNAs (phasiRNAs) fine tune various stages of growth, development, and stress responses in plants. Potato (Solanum tuberosum) tuberization is a complex process, wherein a belowground modified stem (stolon) passes through developmental stages like swollen stolon and minituber before it matures to a potato. Previously, we identified several phasiRNA-producing loci (PHAS) from stolon-to-tuber transition stages. However, whether phasiRNAs mediate tuber development remains unknown. Here, we show that a gene encoding NB-ARC DOMAIN-CONTAINING DISEASE RESISTANCE PROTEIN (StRGA4; a PHAS locus) is targeted by Stu-microRNA482c to generate phasiRNAs. Interestingly, we observed that one of the phasiRNAs, referred as short-interfering RNA D29(-), i.e. siRD29(-), targets the gibberellin (GA) biosynthesis gene GIBBERELLIN 3-OXIDASE 3 (StGA3ox3). Since regulation of bioactive GA levels in stolons controls tuber development, we hypothesized that a gene regulatory module, Stu-miR482c-StRGA4-siRD29(-)-StGA3ox3, could govern tuber development. Through transient expression assays and small RNA sequencing, generation of siRD29(-) and its phase was confirmed in planta. Notably, the expression of StGA3ox3 was higher in swollen stolon compared to stolon, whereas siRD29(-) showed a negative association with StGA3ox3 expression. Antisense (AS) lines of StGA3ox3 produced more tubers compared to wild type. As expected, StRGA4 overexpression (OE) lines had high levels of siRD29(-) and mimicked the phenotypes of StGA3ox3-AS lines, indicating the functionality of this module in potato. In vitro tuberization assays (with or without a GA inhibitor) using StGA3ox3 antisense lines and overexpression lines of StGA3ox3 or StRGA4 revealed that StGA3ox3 controls the tuber stalk development. Taken together, our findings suggest that a phasiRNA, siRD29(-), mediates the regulation of StGA3ox3 during stolon-to-tuber transitions in potato. A phasiRNA module, Stu-miR482c-StRGA4-siRD29(-), regulates the expression of a gibberellin biosynthesis gene StGA3ox3 during stolon-to-tuber transitions in potato.

1 aMalankar, Nilam1 aKondhare, Kirtikumar1 aSaha, Kishan1 aMantri, Mohit1 aBanerjee, Anjan uhttps://library.ncl.res.in/content/phased-short-interfering-rna-sird29-regulates-gibberellin-3-oxidase-3-during-stolon-tuber