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*  Bioinformatic analysis of riboswitch structures uncovers variant classes with altered ligand specificity | PNAS
T1, and −OH indicate no reaction, partial digestion with RNase T1 (cleaves after G residues), and partial digestion with ... Several RNase T1 product bands are labeled. Regions undergoing structural modulation (1 through 5) and predicted stems (P1 ...
http://www.pnas.org/content/114/11/E2077
*  An mRNA structure that controls gene expression by binding FMN | PNAS
Also, 5′ 32P-labeled ribD RNA precursors were not reacted (NR) or were subjected to partial digest with RNase T1 (T1) or alkali ... RNAs were subjected to no additional reaction (NR) or were subjected to partial digestion with RNase T1 (T1) or alkali (-OH) as ... The 3′ fragment of the run-off transcript (FL*) was subjected to partial digestion with RNase T1 or alkali as indicated. The ... Bands corresponding to the FL* and T* RNAs, along with several T1 digestion products, are identified. The T* RNA corresponds to ...
https://www.pnas.org/content/99/25/15908.full
*  Multiple posttranscriptional regulatory mechanisms partner to control ethanolamine utilization in Enterococcus faecalis | PNAS
Controls include nonreacted RNA (NR), partial digestion by RNase T1 (cleavage at G residues) and partial alkaline digestion ( ...
http://www.pnas.org/content/106/11/4435.full
*  The RNA code: Nature's Rosetta Stone | PNAS
T1 nuclease, and RNase A (M. Bernfield), and in addition, organic synthesis was utilized (M. Wilcox and R. Brimacombe). All ...
https://www.pnas.org/content/111/16/5758.full
*  Identification of protein binding sites on U3 snoRNA and pre-rRNA by UV cross-linking and high-throughput analysis of cDNAs |...
1C). To reduce the size of cross-linked RNAs, TEV eluates were partially digested with RNase A + T1. The bound proteins should ... 2D, lane 2). Without prior RNase digestion we observed a smear in the top half of the gel (Fig. 2D, compare lane 2 with lane 1 ... Partially Rnase-digested RNPs were incubated with nickel beads to immobilize His6-tagged proteins (blue ovals) and covalently ... CRAC was performed with strains expressing Rrp9-HTP with (lane 2) or without (lane 1) RNase treatment. (E) Contaminant proteins ...
https://www.pnas.org/content/106/24/9613?ijkey=f4590cad7262c59af58064008f00b21313c0962b&keytype2=tf_ipsecsha
*  Temperature-responsive in vitro RNA structurome of Yersinia pseudotuberculosis | PNAS
B) PARS-derived structure model of the ailA 5′-UTR (+30 nt of the coding region). Gs accessible to RNase T1 cleavage already at ... A) 5′-end-labeled in vitro transcribed RNA was treated with nucleases S1 and T1 at 25 °C, 37 °C, and 42 °C. RNA fragments were ... or V1 RNase (Thermo Fisher Scientific), at 25 °C, 37 °C, and 42 °C under single-hit kinetics conditions according to the PARS ... with S1 and T1 nucleases, according to ref. 44, with minor changes (SI Appendix). Primer extension inhibition (toeprinting) ...
https://www.pnas.org/content/113/26/7237
*  On the prokaryotic nature of red algal chloroplasts | PNAS
The sequences of oligonucleotides released by T1 ribonuclease digestion of 32-P-labeled 16S (chloroplast) and 18S (cytoplasmic ...
http://www.pnas.org/content/72/6/2310
*  Expression of the Hox gene complex in the indirect development of a sea urchin | PNAS
Unhybridized RNA was removed by digestion with 500 units/ml T1 RNase and 40 μg/ml RNase A at 37°C for 30 min in 0.15 M NaCl, 30 ...
https://www.pnas.org/content/95/22/13062?ijkey=e92d5804ff9f0963a2a8bb3ca4b3fdee8951d1cb&keytype2=tf_ipsecsha
*  An aminoacyl-tRNA synthetase that specifically activates pyrrolysine | PNAS
The masses of RNase T1-derived oligonucleotides were determined by LC/ESI MS and compared with those calculated for the ... was totally digested to Gp-terminated oligonucleotides by using 1,000 units of RNase T1 (Ambion, Austin, TX) in a total volume ...
https://www.pnas.org/content/101/34/12450
*  Emergence of a fast-reacting ribozyme that is capable of undergoing continuous evolution | PNAS
5′-32P-labeled ligated products were partially digested with either RNase A or RNase T1 under either native conditions ( ... RNase T2 digestion was performed to confirm the 3′,5′-regiospecificity of the reaction. Ligation was carried out by using 5′-32 ... Partial RNase digestions were carried out by using 5′-32P-labeled ligated products, which were incubated under either ... The ligated products were isolated by polyacrylamide gel electrophoresis and then digested with RNase T2 (SI Fig. 8). Because ...
https://www.pnas.org/content/104/39/15288.full
*  A cytotoxic ribonuclease which specifically cleaves four isoaccepting arginine tRNAs at their anticodon loops | PNAS
T1, U2, Ph, and CL indicate samples without digestion, and digested with alkali, and RNasesT1, U2, PhyM, and CL3, respectively. ... 7B) as well as loss of its ribonuclease activity, both in vivo and in vitro (Fig. 7 C and D), indicating that the ribonuclease ... Because all ribonucleases reported to date, except for colicin E5, have at least one histidine as a catalytic residue (23, 24 ... In the latter group, E2, E7, E8, and E9 are DNases, and E3 is a special kind of RNase that cleaves 16S rRNA within ribosomes. ...
https://www.pnas.org/content/97/15/8278?ijkey=e0dac1f96b3026dcb5893cd0f1be117436d550ed&keytype2=tf_ipsecsha
*  Escherichia coli responds to environmental changes using enolasic degradosomes and stabilized DicF sRNA to alter cellular...
1 D, a, lanes t1-t6 and Fig. S1C, respectively), indicating that the amount of RNase E is correlated to the amount of oxygen. ... including RNase E, which is an essential single-stranded endo-RNase involved in RNA processing and decay (1). RNase E has N- ... RNase E Regulates Cell Filamentous Morphology and Is Oxygen-Level Dependent.. We determined RNase E protein levels in E. coli ... Regulation of RNase E Activity.. Activity of RNase E can be regulated by inhibitors such as RraA, RraB (10), and ribosomal ...
https://www.pnas.org/content/114/38/E8025
*  Arabidopsis TSO1 and MYB3R1 form a regulatory module to coordinate cell proliferation with differentiation in shoot and root |...
Five T1 transgenic lines were characterized. T2 progeny from each of these five T1 plants were stained with X-Gluc based on a ... 66316). A total of 1 μg RNA from each sample was treated with RNase-Free DNase I (Thermo Scientific, no. EN0521) followed by ... T1 transgenic plants heterozygous for tso1-1 gave rise to both tso1-1 and wild-type progeny, which were stained for 5-bromo-4- ... T1 seeds were screened on 1/2 MS medium containing hygromycin. T2 plants showing chimeric wild-type branches in tso1-1 ...
https://www.pnas.org/content/115/13/E3045
*  RNAi-mediated immunity provides strong protection against the negative-strand RNA vesicular stomatitis virus in Drosophila |...
RNA specific RNasesA and T1 (Fig S2D). Double-stranded RNA was also readily detectable in cells infected with Cricket paralysis ... The RNA pellet was resuspended in 10 μL RNase-free water.. Sequencing, Assembly, and Analysis of Small RNA Libraries.. The ...
http://www.pnas.org/content/107/45/19390
*  KH domain protein RCF3 is a tissue-biased regulator of the plant miRNA biogenesis cofactor HYL1 | PNAS
i and ii) Specific GUS activity detected in T1 transgenic plants. (iii-v) Reduced and localized activity in transgenic T2 ... it undergoes a two-step maturation process orchestrated by the ribonuclease DICER-LIKE1 (DCL1) (2). In a first step, DCL1, ... S6B). Supporting the idea of RCF3 being subject to transcriptional gene silencing (TGS), T1 plants carrying the reporter ...
http://www.pnas.org/content/112/45/14096
*  The role of binding site cluster strength in Bicoid-dependent patterning in Drosophila | PNAS
Thresholds for Bcd-mediated activation of otd (T1) and hb (T2) and the percentage of EL on the x axis are shown. (F-I) ... Ribonuclease activity of MARF1 controls oocyte RNA homeostasis and genome integrity in mice ... 1E , T1) for activation (11).. However, several lines of evidence suggest that the simple threshold model for positioning ...
http://www.pnas.org/content/102/14/4960
*  miR-150, a microRNA expressed in mature B and T cells, blocks early B cell development when expressed prematurely | PNAS
Regulation of Cyclin T1 and HIV-1 Replication by MicroRNAs in Resting CD4+ T Lymphocytes ... two RNase III-type nucleases that act in the nucleus and cytoplasm, respectively (17). The mature miRNAs are then incorporated ...
https://www.pnas.org/content/104/17/7080.long