Fluorescence Properties and Base Pair Stability of Oligonucleotides Containing 8-Aza-7-deaza-2′-deoxyisoinosine or 2′-Deoxyisoinosine

Abstract

The fluorescence and the base pairing properties of 8-aza-7-deaza-2′-deoxyisoinosine (1) are described and compared with those of 2′-deoxyisoinosine (2). The corresponding phosphoramidites (11,12) are synthesized using the diphenyl-carbamoyl (DPC) residue for the 2-oxo group protection. The nucleosides 1 and 2 base pair with 2′-deoxy-5-methylisocytidine in DNA duplexes with antiparallel chain orientation and with 2′-deoxycytidine in a parallel DNA. These base pairs are less stable than the canonical dA-dT pair and that of 2′-deoxyinosine (4) with 2′-deoxycytidine. The fluorescence of the nucleosides 1 and 2 is quenched (～95%) in duplex DNA. The residual fluorescence is used to determine the T_m-values, which are found to be the same as determined UV-spectrophotometrically.     

A comparative study of the O-3 reactivity of isomeric N-dimethylmaleoyl-protected d-glucosamine and d-allosamine acceptors

Four isomeric N-dimethylmaleoyl 4,6-O-benzylidene-protected d-hexosamine acceptors (2, 3, 4, and 5) with all possible configurations at C-1 and C-3 (e.g., derived from d-glucosamine and d-allosamine) were prepared, and the assessment of their O-3 relative reactivity through competition experiments using the known per-O-acetylated d-galactopyranosyl trichloroacetimidate donor (15) was then carried out. The reactivities are in the order 4 ? 2 > 5 > 3. The analysis of the NMR spectra of 2–5 at different temperature and modeling experiments carried out on analogs of 2–5 (DFT) and on the acceptors themselves (MM) are coincident, and have helped to establish the stability of the different hydrogen bonds, and of the conformers which carry them. The whole results suggest that the electronic effects (hydrogen bonds) are required to explain the observed trend, in spite of the axial conformation of the most reactive hydroxyl group. The steric effects appear only when hydrogen bonds are weak.     

Opioid Peptides: Synthesis and Biological Activity of New Endomorphin Analogues

Summary Syntheses are described of new endomorphin 1 and 2 peptoid–peptide hybrids in which Tyr¹ and either one or both Phe³ and Phe⁴ have been replaced by N-substituted-glycine. The preparation is also described of two glycosylated Hyp²-endomorphin 2 analogues in which either 2,3,4,6-tetra-O-acetyl glucose or glucose are β-O-glycosidically linked to the hydroxyproline residue. The Hyp²-endomorphin sequences have also been elongate by adding a C-terminal β-alanine residue and several linear dimers have been prepared by coupling either the native peptides or the modified analogues. The cyclo endomorphin 2 has also been synthesized. Preliminary pharmacological experiments on isolated organ preparations showed that the agonist activities of both endomorphin 1 and 2 are not significantly affected by the Pro/Hyp substitution. Phe⁴/Nphe substitution in the endomorphin 1 reduced the potency on guinea pig ileum (GPI) by about 100 times and abolished the agonist activity on mouse vas deferens (MVD) preparation. The decrease of the agonist activity induced by modification of one phenylalanine residue only, either Phe³ or Phe⁴, is lower on endomorphin 2. Either modification of both Phe³ and Phe⁴ or glycosylation of the Hyp²-endomorphin 2 cancelled any agonist activity on both preparations. The linear peptide dimers [endomorphin 1]₂, [endomorphin 2]₂, [Hyp²-endomorphin 1]₂, [Hyp²-endomorphin 2]₂, [Hyp²-endomorphin 1-Hyp²-endomorphin 2]₂ or [Hyp²-endomorphin 2-Hyp²-endomorphin 1]₂, are 7–19 times less potent than endomorphin 1 on GPI and significantly less active than endomorphins 1 and 2 on MVD. The other afforded modifications significantly affected or abolished the agonist activity of the resulting endomorphin analogues on both GPI and MVD preparations.The α-amino acid residues are of the L-configuration. Standard abbreviations for amino acid derivatives and peptides are according to the suggestions of the IUPAC-IUB Commission on Biochemical Nomenclature (1984) Eur. J. Biochem., 138, 9–37. Abbreviations listed in the guide published in (2003) J. Peptide Sci., 9, 1–8 are used without explanation.     

Revision of <Emphasis Type="Italic">Heterosavia</Emphasis>, stat. nov., with notes on <Emphasis Type="Italic">Gonatogyne</Emphasis> and <Emphasis Type="Italic">Savia</Emphasis> (Phyllanthaceae)

Heterosavia (Phyllanthaceae) is segregated from Savia (tribe Bridelieae), recognized at generic rank, and placed in tribe Phyllantheae. Floral, fruit, leaf anatomical, leaf venation, and pollen characters of the neotropical taxa previously united as Savia including Gonatogyne are discussed and illustrated. Keys to the three genera and to the species of Heterosavia are presented. Four species (all new combinations), Heterosavia bahamensis, H. erythroxyloides, H. laurifolia, and H. maculata, are recognized. The new combinations Heterosavia laurifolia var. intermedia and H. maculata var. clementis are proposed. The names Heterosavia, H. erythroxyloides, H. laurifolia, Savia clementis, S. clusiifolia, S. clusiifolia var. fallax, and S. longipes are lectotypified. Distribution maps and conservation assessments (IUCN ratings) of Heterosavia species and varieties are provided.     

A synopsis of <Emphasis Type="Italic">Cohniella</Emphasis> (Orchidaceae,Oncidiinae)

A synopsis of the genus Cohniella is presented with nomenclatural updates with a discusion of diagnostic features and biogeographical data. Thirteen species and one natural hybrid are recognized. Two new species, Cohniella pendula and Cohniella biorbicularis, are described and illustrated. The following four new combinations are proposed: Cohniella binotii, Cohniella brachyphylla, Cohniella cepula, and Cohniella longifolia. Lectotypes are selected for Oncidium subulifolium, Oncidium helicanthum, Oncidium humboldtii, Oncidium jonesianum var. phaeanthum, Oncidium cepula, and Oncidium wittii. We also propose an amended lectotype for Epidendrum cebolleta and several epitypifications and new synonyms. A key to the genera of the Trichocentrum complex is presented (Appendix) as well as keys to the species of Cohniella.     

Species Diversity of Japanese Clusiidae (Diptera: Acalyptrata) with description of 12 new species

The Japanese Clusiidae are revised and 23 species, including 12 species new to science, are recognized and keyed. Clusiodes angulosus n. sp., Clusiodes discostylus n. sp., Clusiodes tobi n. sp., Clusiodes usikumuri n. sp., Craspedochaeta varicolor n. sp., Heteromeringia crenulata n. sp., Heteromeringia quadrispinosa n. sp., Heteromeringia sexramifera n. sp., Heteromeringia yamata n. sp., Phylloclusia quadrivittata n. sp., Sobarocephala uncinata n. sp., and Tetrameringia borealis n. sp. were described as new. Distribution records were compiled and mapped. Transitional climatic zone between the warm and cool temperate zones is possibly suggested as one of the most richest temperate area in terms of Japanese clusiid species richness. Hendelia beckeri Czerny 1903, Paraclusia japonica Sasakawa 1957, and Clusiodes plumosus Sasakawa 1964 are broadly distributed over all the Japanese temperate forests, but these are not always most abundant species. The clusiid assemblage was heterogeneous in the species composition among various forest types. The femalebiased sample caught by Malaise traps and distinction of clusiid species composition between temperate and subtropical zones are also pointed out.     

Study on Disulfur-Backboned Nucleic Acids: Part 3. Efficient Synthesis of 3′,5′-Dithio-2′-Deoxyuridine and Deoxycytidine

A general method is described for synthesizing 3′,5′-dithio-2′-deoxypyrimidine nucleosides 6 and 13 from normal 2′-deoxynucleosides. 2,3′-Anhydronucleosides 2 and 9 are applied as intermediates in the process to reverse the conformation of 3′-position on sugar rings. The intramolecular rings of 2,3′-anhydrothymidine and uridine are opened by thioacetic acid directly to produce 3′-S-acetyl-3′-thio-2′-deoxynucleosides 3 or 5. To cytidine, OH^? ion exchange resin was used to open the ring and 2′-deoxycytidine 10 was abtained in which 3′-OH group is in threo-conformation. The 3′-OH is activated by MsCl, and then substituted by potassium thioacetate to form the S,S′-diacetyl-3′,5′-dithio-2′-deoxycytidine 12. The acetyl groups in 3′,5′ position are removed rapidly by EtSNa in EtSH solution to afford the target molecules 6 and 13. The differences of synthetic routes between uridine and cytidine are also discusssed.     

Synthesis and Properties of Halogenated 7-Deaza-2′-deoxyxanthosine and Protected Derivatives for Oligonucleotide Synthesis

Abstract

The 7-bromo- (4a) and 7-iodo- (4b) derivatives of 7-deaza-2′-deoxyxanthosine (5) are prepared. Furthermore, the building blocks 6–8 of 7-deaza-2′-deoxyxanthosine (5) are synthesized and tested for their usage in oligonucleotide synthesis.     

Conformational behaviours of 2-substituted cyclohexanones: a complete basis set,hybrid-DFT study and NBO interpretation

The generalised anomeric effect (GAE) and gauche effect (GE) associated with donor–acceptor delocalisations, dipole–dipole interactions and total steric exchange energies (TSEE) on the conformational properties of 2-methoxy- (1), 2-methylthio- (2), 2-methylseleno- (3), 2-fluoro- (4), 2-chloro- (5) and 2-bromocyclohexanone (6) have been studied by means of ab initio and hybrid density functional theory methods and natural bond orbital (NBO) analysis. All methods used showed that the axial conformation stability increased from 2-methoxy- (1) to 2-methylselenocyclohexanone (3) and also from 2-fluoro- (4) to 2-bromocyclohexanone (6), which is in agreement with reported NMR data. The results obtained by complete basis set 4 (CBS-4), B3LYP/6-311+G** and HF/6-311+G** levels for compounds 1, 5 and 6 are very similar, but the CBS-4 results for compound 4 are not in agreement with the reported experimental data (vapour phase). The NBO analysis showed that the GAE increases from compounds 1 to 3 and also from compounds 4 to 6. The low axial conformer populations of compounds 1 and 4 can be reasonably explained by their small GAE. GE does not have significant impact on the conformational behaviours of compounds 1–6 and GAE succeeds in accounting qualitatively for the increase in the axial preferences in both series of compounds. The results showed that the calculated Δ(TSEE_eq–ax) values decrease from compounds 4 to 6 which contradicts the suggested arguments in the literature about these compounds. On the other hand, the calculated differences between the dipole moment values of the axial and equatorial conformations, Δ(μ_eq ? μ_ax), increase from compounds 1 to 2, but decrease from compounds 2 to 3 and also decrease from compounds 4 to 6. The calculated GAE values are more significant for the explanation of the conformational preferences of compounds 1–6 than the dipole–dipole repulsion effects. The correlations between the GAE, GE, dipole–dipole interactions, Wiberg Bond Index, TSEE, donor and acceptor orbital energies and occupancies, structural parameters and conformational behaviour of compounds 1–6 have been investigated.     

Macrocyclic complexes: synthesis,characterization, antitumor and DNA binding studies

Abstract

The present paper deals with the synthesis of novel macrocyclic complexes of the type [MLX]X, where [(M?=?Co(II) (1), and Ni(II) (2) X?=?(Cl₂)]. The complexes are synthesized by the reaction of ligand(L)diquinolineno[1,3,7,9]tetraazacyclododecine-7,15-ethane(14H,16H)-benzene with the corresponding metal salts. The synthesized complexes are thoroughly characterized by elemental analysis, FT-IR, ¹H-NMR, Mass and electronic spectra. The complexes (1) and (2) were evaluated for in vitro cytotoxicity against human breast adenocarcinoma cell (MCF-7). MTT cytotoxicity studies shows both the complexes are most effective. The binding properties of these complexes with calf thymus-DNA were studied by absorption, emission spectra, viscosity measurements, and thermal denaturation studies. On binding to CT-DNA, the absorption spectrum undergoes bathochromic and hypochromic shifts. The absorption spectral results indicate that the intrinsic binding constant (K_b) are 4.8?×?10⁵?M^?1 for (1) and 3.9?×?10⁵?M^?1 for (2) respectively, suggesting that complex (1) binds more strongly to CT-DNA than complex (2). The viscosity measurement results revealed the viscosity of sonicated rod like DNA fragments increased when the complex was added to the solution of CT-DNA. The synthesized ligand and its metal complexes are screened for antibacterial and antifungal activities.     

<Emphasis Type="Italic">Alansmia</Emphasis>, a new genus of grammitid ferns (Polypodiaceae) segregated from <Emphasis Type="Italic">Terpsichore</Emphasis>

Alansmia, a new genus of grammitid ferns is described and combinations are made for the 26 species known to belong to it. Alansmia is supported by five morphological synapomorphies: setae present on the rhizomes, cells of the rhizome scales turgid, both surfaces of the rhizome scales ciliate, laminae membranaceous, and sporangial capsules setose. Other diagnostic characters include pendent fronds with indeterminate growth, concolorous, orange to castaneous rhizome scales with ciliate or sometimes glandular margins, hydathodes often cretaceous, and setae simple, paired or stellate. The group also exhibits the uncommon characteristic of producing both trilete and apparently monolete spores, sometimes on the same plant. New combinations are made for Alansmia alfaroi, A. bradeana, A. canescens, A. concinna, A. contacta, A. cultrata, A. dependens, A. diaphana, A. elastica, A. glandulifera, A. heteromorpha, A. immixta, A. kirkii, A. lanigera, A. laxa, A. longa, A. monosora, A. reclinata, A. semilunaris, A. senilis, A. smithii, A. spathulata, A. stella var. stella, A. stella var. flava, A. turrialbae, A. variabilis, A. xanthotrichia. Lectotypifications are made for Alansmia concina, A. variabilis, Polypodium ciliare, P. flexile, and P. ovalescens. The genus is named in honor of pteridologist Alan R. Smith.     

Morpho-histochemical characterization of salivary gland cells of males of the tick <Emphasis Type="Italic">Rhipicephalus</Emphasis><Emphasis Type="Italic">sanguineus</Emphasis> (Acari: Ixodidae) at different feeding stages: description of new cell types

This study describes the changes undergone by cells of the salivary glands of unfed and feeding (at day two and four post-attachment) Rhipicephalus sanguineus males, as well as new cell types. In unfed males, types I and II acini are observed with cells “undifferentiated”, undefined 1 and 2 (the latter, with atypical granules), a, c1 and c3; type III is composed of cells d and e; and type IV present cells g. In males at day two post-attachment, type I acini exhibit the same morphology of unfed individuals. An increase in size is observed in types II, III, and IV, as cells are filled with secretion granules. Some granules are still undergoing maturation. In type II acinus, cells a, b and c1–c8 are observed. Cells c7 and c8 are described for the first time. Cells c7 are termed as such due to the addition of polysaccharides in the composition of the secretion granules (in unfed individuals, they are termed undefined 1). Type III acini exhibit cells d and e completely filled with granules, and in type IV, cells g contain granules in several stages of maturation. In males at day four post-attachment, type I acini do not exhibit changes. Granular acini exhibit cells with fewer secretion granules, which are already mature. In type II acini, cells a, b, c1–c5 are present, type III exhibit cells d and e, and type IV contain cells g with little or no secretion. This study shows that in the salivary glands of R. sanguineus males, cells a, c1, and c3 of type II acinus, and cells d and e of type III do not exhibit changes in granular content, remaining continuously active during the entire feeding period. This indicates that during the intervals among feeding stages, gland cells reacquire the same characteristics found in unfed individuals, suggesting that they undergo reprogramming to be active in the next cycle.     

A monograph of <Emphasis Type="Italic">Ascogrammitis</Emphasis>, a new genus of grammitid ferns (Polypodiaceae)

This paper describes Ascogrammitis, a new genus of grammitid ferns formerly combined under Terpsichore. Seventeen species are recognized, including five new ones: A. clavigera, A. colombiensis, A. loxensis, A. oxapampensis, and A. tungurahuae. New combinations are made for A. alan-smithii, A. anfractuosa, A. angustipes, A. athyrioides, A. clathrata, A. cuencana, A. david-smithii, A. dilatata, A. nana, A. pichinchae, A. pichinchensis, A. stuebelii, and a lectotype is chosen for Polypodium induens. A key is provided to distinguish the species, and illustrations are provided for 12 species. The genus occurs primarily in neotropical cloud forests, with the greatest diversity in the Andes. Ascogrammitis is one of two monophyletic groups of grammitid ferns that are consistently associated with Acrospermum, an epibiotic bitunicate ascomycete that produces black clavate fruiting bodies.     

Substances interfering with phosphatidyl inositol signalling pathway affect ultradian rhythm ofDesmodium motorium

The ultradian rhythm of the lateral leaflets ofDesmodium motorium}(Houtt.) Merril. was recorded with a picture analysis method using a video camera and a computer. The periods are in the minute range and depend strongly on temperature. The phosphatidyl inositol signal chain might be involved in the ultradian rhythm of the lateral leaflet movement of Desmodium motorium:Myoinositol shortens the period length and reduces the known period lengthening effect of lithium ions. Neomycin, which inhibits the hydrolysis of phosphatidylinositol-4,5 -biphosphate to inositol-4-phosphate and diacylglycerin, lengthens the period of the rhythm at low concentrations (0.2 mM). Higher concentrations shorten the period, perhaps by activating G protein. Mastoparan, which activates G protein, shortens period likewise. The G protein agonists fluorid ion and ethanol are toxic for the lateral leaflets and could therefore not be used to test the involvement of G protein. The intracellular Ca ²⁺ antagonist 3,4,5-trinietlioxybeiizoic acid 8-(diethylamino)octylester lengthens the period of the rhythm. This indicates, that release of Cas ²⁺ from intracellular stores is important for the lateral leaflet movement rhythm.     

Philopotaminae of Madagascar (Trichoptera: Philopotamidae)

The Malagasy fauna includes two genera of Philopotaminae: Wormaldia McLachlan 1865 and an endemic new genus, Ranarijaodes n. gen. The Malagasy and African (sensu stricto) lineages of Wormaldia are distinct. Apomorphic characters (the shape of the phallic apparatus for the African species and the splitting of the median lobe of the tenth tergite for the Malagasy species) confirm their separation. New captures are reported for two of the four previously known species of Wormaldia. Seven new species are described: Wormaldia ambahibeae n. sp., W. faharoa n. sp., W. fahatelo n. sp., W. randriamasimananai n. sp., W. fahefatra n. sp., W. legrandi n. sp. and W. fahadimy n. sp. Ranarijaodes n. gen. is close to Dolophilodes Ulmer 1909. It is described for the three new species Ranarijaodes fiana n. sp., R. angapi n. sp. and R. atsimo n. sp. The 14 Malagasy species of Philopotaminae are endemics of the island. Their geographical distributions and ecological preferences are described and discussed.     

Increments to the genus Mimosa (Mimosaceae) from South America

Four new species are described and discussed: from BoliviaM. (sect.Habbasia ser.Setosae)huanchacae; from SE brazilM. (sect.Habbasia ser.Pachycarpae)chiliomera andM. (sect.Mimosa)murex; and from EcuadorM. (sect.Mimosa subser.Polycarpae)Loxensis. The two Brazilian species are illustrated.     

The reaction force and the transition region of a reaction

The reaction force F(R) and the position-dependent reaction force constant κF(R) are defined by F(R)=-∂V(R)/∂R and κ(R)=∂²V(R)/∂R², where V(R) is the potential energy of a reacting system along a coordinate R. The minima and maxima of F(R) provide a natural division of the process into several regions. Those in which F(R) is increasing are where the most dramatic changes in electronic properties take place, and where the system goes from activated reactants (at the force minimum) to activated products (at the force maximum). κ(R) is negative throughout such a region. We summarize evidence supporting the idea that a reaction should be viewed as going through a transition region rather than through a single point transition state. A similar conclusion has come out of transition state spectroscopy. We describe this region as a chemically-active, or electronically-intensive, stage of the reaction, while the ones that precede and follow it are structurally-intensive. Finally, we briefly address the time dependence of the reaction force and the reaction force constant.     

Di-ddU-α-Hydroxyphosphonate and α-Hydroxy- α- METHYLPHOSPHONATES as Potential Prodrugs of Antiviral Nucleoside Analogues

Abstract

The synthesis of a potential new prodrug system for the antiviral nucleoside ddU 1 based on α-hydroxybenzylphosphonates 2 and 3 is described. In principle, 2, 3 are able to hydrolyze via different mechanisms yielding ddU H-phosphonate 4 or ddU monophosphate 5, respectively.     

猫爪草中的脂肪酸类化合物

为了解小毛茛(Ranunculus ternatus Thunb.)的化学成分,采用色谱技术从其干燥块根猫爪草中分离纯化得到5个脂肪酸类化合物,经波谱分析,他们的结构分别鉴定为(R)-3-hydroxy-11-methoxy-11-oxoundecanoic acid(1)、十六烷酸(2)、棕榈酸乙酯(3)、已二酸(4)和硬脂酸(5)。其中,化合物1为新化合物,这些成分对耐药结核分枝杆菌(耐INH+RFP)有一定的体外抑制活性。