Taxonomic supplement to a revision of Omadius Laporte 1836 (Mawdsley 2006) (Coleoptera: Cleridae)

A supplement to the recent revision of Omadius Laporte 1836 (Mawdsley 2006) is presented. Ten species are treated: Omadius radulifer Gorham 1876 species reinstated is removed from synonymy with O. obscuripennis (Gorham 1876); O. scapularis (Gorham 1876) new combination is transferred from Stigmatium Gray 1832; O. chapaensis Pic 1927, O. curticollis Pic 1933, O. diversipes Pic 1933, O. nigrohumeralis Pic 1926, O. paulonotatus Pic 1946 and O. rufithorax Pic 1933 are confirmed as belonging to Omadius; and O. alishanus Nakane 1996 (missed by Mawdsley) plus the recently described O. santo Gerstmeier & Schmidl 2007 are also added. All ten species are re-described and integrated into Mawdsley’s key. The biogeographic situation and the biodiversity of Omadius in the Indo-Australian region are briefly discussed.     

Crystal structures of (2R,4R)-2-(polyhydroxyalkyl)-1,3-thiazolidine-4-carboxylic acids: condensation products of l-cysteine with d-hexoses

We report herein the first crystal structures of (4-carboxy-1,3-thiazolidin-2-yl)pentitols [2-(polyhydroxyalkyl)thiazolidine-4-carboxylic acids], condensation products of l-cysteine with d-galactose and d-mannose: 2-(d-galacto-pentahydroxypentyl)thiazolidine-4-carboxylic acid hydrate, Gal-Cys·H₂O (1), and 2-(d-manno-pentahydroxypentyl)thiazolidine-4-carboxylic acid hydrate, Man-Cys·H₂O (2). In 1 and 2 the compounds crystallize as zwitterions, with the carboxylic groups deprotonated and the thiazolidine N atoms protonated. The sugar moiety and carboxylate group are in a cis configuration relative to the thiazolidinium ring, which adopts different conformation: twisted (T) on C^β–S in 1, and S-puckered envelope (E) in 2. The carbon chain of the galactosyl/mannosyl moiety remains in an extended zig-zag conformation. The orientation of the sugar O2 atom with respect to the thiazolidinium S and N atoms is trans–gauche in 1 and gauche–gauche in 2. The molecular conformation is stabilized by the intramolecular N–H?O_Cys contacts in both 1 and 2 and by the additional N–H?O_Man interaction in 2. The crystal packing of orthorhombic 1 and monoclinic 2 is determined mainly by N/O/C–H?O hydrogen bonds forming ribbons linked to each other by direct and water-mediated O/C–H?O/S contacts.     

DNA barcoding of Oryza: conventional,specific, and super barcodes

Key message

We applied the phylogenomics to clarify the concept of rice species, aid in the identification and use of rice germplasms, and support rice biodiversity.

Abstract

Rice (genus Oryza) is one of the most important crops in the world, supporting half of the world’s population. Breeding of high-yielding and quality cultivars relies on genetic resources from both cultivated and wild species, which are collected and maintained in seed banks. Unfortunately, numerous seeds are mislabeled due to taxonomic issues or misidentifications. Here, we applied the phylogenomics of 58 complete chloroplast genomes and two hypervariable nuclear genes to determine species identity in rice seeds. Twenty-one Oryza species were identified. Conspecific relationships were determined between O. glaberrima and O. barthii, O. glumipatula and O. longistaminata, O. grandiglumis and O. alta, O. meyeriana and O. granulata, O. minuta and O. malampuzhaensis, O. nivara and O. sativa subsp. indica, and O. sativa subsp. japonica and O. rufipogon. D and L genome types were not found and the H genome type was extinct. Importantly, we evaluated the performance of four conventional plant DNA barcodes (matK, rbcL, psbA-trnH, and ITS), six rice-specific chloroplast DNA barcodes (psaJ-rpl33, trnC-rpoB, rps16-trnQ, rpl22-rps19, trnK-matK, and ndhC-trnV), two rice-specific nuclear DNA barcodes (NP78 and R22), and a chloroplast genome super DNA barcode. The latter was the most reliable marker. The six rice-specific chloroplast barcodes revealed that 17% of the 53 seed accessions from rice seed banks or field collections were mislabeled. These results are expected to clarify the concept of rice species, aid in the identification and use of rice germplasms, and support rice biodiversity.

     

Spin Trapping by Use of N-Tert-Butylhydroxylamine. Involvement of Fenton Reactions

Spin trapping of short-lived R. radicals is done by use of N-tert-butylhydroxylamine (1) and H²O². The hydroxylamine is oxidized to the radical t-BuN(O)H (2) which is converted into the spin trap 2-methyl-2-nitrosopropane (3). Simultaneously, hydroxyl radicals. OH are formed from H²O². The latter radical species abstracts hydrogen atoms from suitable molecules HR to give R. radicals, which are trapped with the formation of aminooxyl radicals, i. e., t-BuN(O)R (4) detectable by EPR spectroscopy. The reaction is enhanced by the presence of iron ions. The cleavage of H²O² into. OH radicals is considered to involve both a radical-driven (t-BuN(O)H 2) and an iron-driven Fenton reaction.     

Synthesis,inhibitory activity and molecular docking studies of two Cu(II) complexes against Helicobacter pylori urease

Two mononuclear copper(II) complexes, [Cu(C₁₅H₁₆NO₂)₂] (1) and [Cu(C₆H₉N₂O₄)₂·3H₂O] (2·3H₂O), were synthesised and structurally characterised by single-crystal X-ray analysis. The copper(II) atom adopts a square-planar environment in complex 1, while the geometry in 2·3H₂O could be described as the distorted square pyramidal. Complexes 1 and 2·3H₂O were evaluated for their inhibitory activities against Helicobacter pylori (H. pylori) urease in vitro. They both were found to have strong inhibitory activities against H. pylori urease comparable to that of acetohydroxamic acid (AHA). A docking simulation was performed to position 2 into the H. pylori urease active site to determine the probable binding conformation.     

Production of N 2 O by Ammonia Oxidizing Bacteria at Subfreezing Temperatures as a Model for Assessing the N 2 O Anomalies in the Vostok Ice Core

It was suggested that the abnormally high N ₂ O values found in 130,000–160,000 year-old Vostok ice core samples, characterized by high δ ¹⁵ N and low δ ¹⁸ O values, resulted from in situ microbial N ₂ O production. To substantiate these observations we obtained new geochemical data from the last glacial period and showed the existence of additional small N ₂ O anomalies. To test the hypothesis that microbial metabolism could contribute to these anomalies, we developed protocols for examining the ability of Nitrosomonas cryotolerans cells to produce N ₂ O at subfreezing temperatures. Our results show that these model, frozen cultures produce N ₂ O at temperatures as low as ?32°C.     

Synthesis and Biological Activity of O,O-Dialkyl S-(5-Aryl-l,3,4-oxadiazol-2(3H)-on-3-yl)methyl Phosphorothioates and Phosphorodithioates

Some phosphorus derivatives of oxadiazoles were synthesized to seek insecticidal lead compounds. The l,3,4-oxadiazol-2-ones were converted via the N-methylol derivatives to the corresponding N-chloromethyl derivatives. From these derivatives a variety of O,O-dimethyl phosphorodithioates 4, O,O-dimethyl phosphorothioates 5 and O,O-di-i-propyl phosphorothioates 6 were prepared.

These phosphorus derivatives were examined for insecticidal activity towards houseflies and for anti-acetylcholinesterase (anti-AChE) activity using the housefly heads as an enzyme source. Most of the compounds 4 and 5 showed contact toxicity as high as the analogous methidathion insecticides, which appeared to correlate with the strong anti-AChE activity. On the other hand, all the compounds 6 showed a high activity in AChE inhibition but only a poor insecticidal activity.     

A new species of Oryctina (Loranthaceae) from Guyana

A new species ofOryctina (Loranthaceae) from Guyana,O. atrolineata Kuijt is described and illustrated. It possesses one-flowered inflorescences, the flowers being hexamerous and each subtended by a bract and two minute bracteoles. A peculiarity of the style is a distinctive fusiform, subterminal swelling.Oryctina atrolineata is closely related, and similar to,O. myrsinites (Eichler) Kuijt.     

Anticholinesterase activity of some major intermediates in carbacylamidophosphate synthesis: Preparation,spectral characterization and inhibitory potency determination

Carbacylamidophosphates with the general formula RC(O)NHP(O)R₁R₂ constitute organophosphorus compounds that are used as insecticides, pesticides and ureas inhibitors. In this work, we studied the inhibition potency of CCl₃C(O)NHP(O)Cl₂1, CHCl₂C(O)NHP(O)Cl₂2, CH₂ClC(O)NHP(O)Cl₂3 and CF₃C(O)NHP(O)Cl₂4, which are the major intermediates for carbacylamidophosphates synthesis towards human erythrocyte acetylcholinesterase (hAChe) activity using Ellman's modified kinetic method. Unexpectedly, it was observed that they were not only hydrolytically unstable but also inhibited hAChE in a similar manner to that produced by organophosphorus insecticides. Enzymatic data, bimolecular inhibition rate constants (k_i) and IC₅₀ values for inhibition of hAChE demonstrated that they are irreversible inhibitors and the inhibition potency of compound 2 (IC₅₀ = 88 μM) was the greatest in comparison with compounds 1, 3 and 4. Also the electropositivity of the phosphorus atom and the hydrophobicity of the compounds demonstrated that these two factors play an additional effect and different role in the inhibitory activity of these compounds. Hydrolytic stability of the compounds was determined by ³¹P NMR monitoring of the loss of the parent molecules with D₂O as a function of time. This study considers antiacetylcholinesterase activity according to the structural and the electronic aspects of compounds 1–4, according to IR, ¹H, ¹³C and ³¹P NMR spectral data.     

Heterometallic coordination polymers constructed by linear ligands

Eight lanthanide–copper coordination polymers of linear rigid 4-(4-pyridyl)benzoate(L¹) and isonicotinate(L²), [LnCuI(L¹)₂(OAc) (H₂O)]_n (Ln = Pr, 1; Nd, 2; Sm, 3; Eu, 4; Gd, 5), [Ln₂Cu₄I₃(L²)₇ (H₂O)]_n (Ln = La, 6; Pr, 7), and [Nd₂Cu₇I₆(L²)₇ (H₂O)₆]_n·2.5nH₂O (8), were hydrothermally synthesized and structurally characterized by single-crystal X-ray diffraction. The three-dimensional frameworks of 1–5 can be described as wave-like layer modules of [Ln(L¹)₂(OAc)(H₂O)]_n linking with each other through dimeric units of Cu₂I₂, whereas that of compounds 6 and 7 are constructed by layer modules of and Cu₄I₃ clusters. As for 8, dimeric units of Nd₂(L²)₇(H₂O)₆ connect layered polymeric forming a 3D framework.     

An algorithm to equiprobably generate all directed trees withk labeled terminal nodes and unlabeled interior nodes

A computer algorithm is presented which equiprobably generates any member of the set of all directed trees withk labeled terminal nodes and unlabeled interior nodes. The algorithm requires roughlyk ² /2 storage locations. The one-time initialization requiresO(k ² ) time, while generating each tree requiresO(k) time. Contribution No. 477 in Ecology and Evolution, State University of New York at Stony Brook. This research was supported by Grant No. DEB8003508 from the National Science Foundation to Robert R. Sokal.     

Two new species of Ophiocaryon (Sabiaceae) from South America

Ophiocaryon barnebyanum from the Serra da Neblina (Venezuelan-Brazilian border) andO. neillii from southern Ecuador are described and illustrated, and their morphological relationships with allied spcies are discussed.Ophiocaryon barnebyanum is morphologically similar toO. duckei, but it differs by its larger leaves, leaflets, petioles, petiolules, and inflorescences, the higher number of secondary veins, and the ciliate sepals.Ophiocaryon neillii is a small tree related toO. klugii but differs by its smaller leaflets, petiolules and inflorescences, fewer secondary veins, lanceolate-acuminate sepals, and orbicular staminodes. An updated key to the species ofOphiocaryon is provided.     

Oochoristica novaezealandae n. sp. (Cestoda: Anoplocephalidae) from a New Zealand skink,Leiolopisma nigriplantare maccanni Hardy, 1977

Abstract

Oochoristica novaezealandae n. sp. is described from the small intestine of a skink, Leiolopisma nigriplantare maccanni (Hardy 1977) from Birdling's Flat, Banks Peninsula, South Island, New Zealand. In having fewer than 20 testes it differs from all other species in the genus except O. chinensis Jensen, Schmidt & Kuntz, 1983; O. vacuolata Hickman, 1954; O. lygosomae Burt, 1933; and O. lygosomatis Skinker, 1935. Of these, it most resembles O. chinensis, but differs from it in the ovary, which consists of 2 rounded lobes; they are subdivided into finger-like lobules in O. chinensis. Further, O. novaezealandae has a conspicuous, encapsulated, sac-like mass of glands surrounding the genital atrium; these are not present in O. chinensis.     

Phylogenetic relationships of Scaphyglottis and related genera (Laeliinae: Orchidaceae) based on nrDNA ITS sequence data

Sequences of the nuclear ribosomal internal transcribed spacer regions 1 & 2 (nrDNA ITS) including the intervening 5.8S region were analyzed cladistically for 43 individuals of 35 species ofScaphyglottis s.l. plus two outgroup taxa. Low levels of sequence divergence do not allow estimation of relationships among most clades, but the analyses indicate that four segregate genera (Hexisea Lindl.,Reichenbachanthus Barb. Rodr.,Hexadesmia Brogn., andPlatyglottis coriacea L.O. Williams) are embedded within a broad paraphyleticScaphyglottis. This broadly definedScaphyglottis sensu Dressler is characterized within Laeliinae by the usual presence of superposed growth habit and the presence of a column foot. In order to accommodate species formerly placed inPlatyglottis andReichenbachanthus, three new combinations are made inScaphyglottis:Scaphyglottis brasiliensis (Schltr.) Dressler,S. coriacea (L. O. Williams) Dressier, andS. emarginata (Garay) Dressler.     

Protective effect of rosemary (Rosmarinus officinalis) against diethylnitrosamine-induced renal injury in rats

Abstract

Context: The kidney plays a central role in detoxification and excretion of toxic metabolites, and therefore, is susceptible to toxicity by xenobiotics.

Objective: To investigate the protective effect of Rosmarinus officinalis (rosemary) powder and its essential (volatile) oil against diethylnitrosamine (DEN)-induced renal injury in rats.

Materials and methods: Phenolic and flavonoid components were characterised in rosemary powder using HPLC-UV instrument while rosemary essential oil (E.O) was investigated via GC-MS technique. In rat model, rosemary was administrated orally (in diet) for two months. Lipid profile, antioxidant biomarkers, kidney functions and histopathological examinations were assessed.

Results: Hesperidin (4878.88?ppm) and ellagic acid (403.57?ppm) are among the major phenolic and flavonoid constituents in rosemary powder. Camphor (18.36%) and α-pinene (12.74%) represent the main E.O active ingredients. Rats treated with rosemary E.O showed a significant elevation in serum HDL (28.28%) accompanied by a decrease in LDL (115.47%). A significant decrease in serum creatinine and urea was also reported (69.72 and 109.89%, respectively). Moreover, serum glutathione peroxidise (GSH-Px) activity has been significantly increased. Kidney histopathological examinations confirmed the protective effect against DEN-induced abnormalities.

Conclusion: Rosemary (powder/E.O) was able to reduce or even prevent the severity of diethylnitrosamine-induced renal dysfunction.     

A Novel Method for the Synthesis of ddA and F-ddA Via Regioselective 2′-O-Deacetylation of 9-(2,5-DI-O-Acetyl-3-bromo-3-deoxy-β-D-xylofuranosyl)adenine

Abstract

Regioselective 2′-O-deacetylation of 9-(2,5-di-O-acetyl-3-bromo-3-deoxy-β-D-xylofuranosyl)adenine (1) is achieved by treatment of 1 with β-cyclodextrin (β-CyD) / aq. NaHCO₃ or N₂H₄·H₂O / EtOH. The 9-(5-O-Acetyl-3-bromo-3-deoxy-β-D-xylo-furanosyl)adenine (2) obtained is a common intermediate for the synthesis of 2′,3′-dideoxy-adenosine (ddA) (7) and 9-(2-fluoro-2,3-dideoxy-β-D-threo-pentofuranosyl)-adenine (F-ddA) (9).     

Synthesis of pseudopeptides containing aza-phenylalanine surrogates of the Phe-pNA motif: Influence on the binding to the human cyclophilin hCyp-18

Summary Tripeptides bearing aza-phenylalanine derivatives Aphe-X-(4-nitrophenyl), where X is CH₂, O or NH, were synthesized starting from benzylhydrazine via a 4-step strategy. The pseudopeptides were evaluated as ligands of cyclophilin hCyp-18, an important human peptidyl-prolyl isomerase (PPlase), All pseudopeptides bind to hCyp-18, although only Suc-Ala-Pro-Phe-pNA11 and Suc-Ala-Pro-Aphe-pNB (X=CH₂)4 are able to inhibit the PPIase activity, suggesting that they can bind to the S1-S1′ and S2′-S3′ subsites of hCyp-18 simultaneously. A circular dichroism study showed that only compounds4 and11 have β-turns conformations in 0.47 M LiCl/TFE (which favors acis-Ala-Pro conformation). In addition, the hydrazide (X=CH₂)4 as well as the aza-urea (X=NH)6 are resistant to both trypsin and alpha-chymotrypsin. The corresponding carbazate (X=O)10 readily reacts with alpha-chymotrypsin and is also hydrolyzed by trypsin.     

Some morphometric,anatomical and biochemical characteristics of fruits and seeds of Onobrychis spp. in Italy

ABSTRACT

The fruits, seed coats and seed storage proteins of Onobrychis arenaria, O. montana, O. viciifolia, O. alba, O. supina and O. caput-galli were studied to examine the variability between and within species. The morphometric characteristics of the fruit had a high intraspecific variability which often exceeded that between species. Only the fruit of O. caput-galli had values for length, width, thickness and number of thorns which were almost always higher than those of the other species. The anatomical characteristics of the seed coats were extremely variable. The highest values of seed coat thickness were recorded in the diploid species. The palisade-like layer (or Malpighian cells) in O. caput-galli differed in size and morphology from that of the other species. The electrophoretic analysis revealed that the number and position of storage proteins varied between and within species.     

A revision of epidendrum subgenus epidanthus (Orchidaceae)

Epidendrum subgenusEpidanthus (L. O. Williams) Barringer (Orchidaceae) is a group of small, slender-stemmed epiphytes formerly classified in the genusEpidanthus L. O. Williams. The seven species are distributed from southern Mexico to Columbia in wet forests, usually above 1000 m in elevation. Species of subgenusEpidanthus are distinguished from the rest ofEpidendrum by their linear leaves, slender stems, and two pollinia. The new speciesEpidendrum aurigineum is described and the new nameEpidendrum, insolatum is created forE. crassum (Dressler) Mora-Retana & J. García.