Characterization and oxidative in vitro cross-linking of an extensin-like protein and a proline-rich protein purified from chickpea cell walls

Two cell wall proteins from chickpea, known to be rapidly insolubilised by an elicitor-stimulated oxidative burst in-vivo, were purified from suspension cells. N-terminal protein sequencing revealed them as a proline-rich protein and an extensin-like protein. Oxidative cross-linking could be modelled in an in vitro system utilising horseradish peroxidase, H2O2 and the substrate proteins.     

Dimethylsulphoniopropionate (DMSP) and related compounds in higher plants

Dimethylsulphoniopropionate (DMSP) is produced in high concentrations in many marine algae, but in higher plants only in a few salt marsh grasses of the genus Spartina, in sugar canes (Saccharum spp.), and in the Pacific strand plant Wollastonia biflora (L.) DC. The high concentrations found in higher plants (up to 250 micromol g(-1) dry weight) suggest an important role, but though many functions have been suggested (including methylating agent, detoxification of excess sulphur, salt tolerance, and herbivore deterrent), its actual functions remain unclear. The fact that the ability to produce DMSP in high concentrations is found in species that have no taxonomic or ecological relationship suggests that the compound evolved independently and serves different functions in different plants. This is supported by observations that DMSP in W. biflora behaves differently from that in Spartina species. While DMSP concentrations in W. biflora have been found to increase with increasing salinity, suggesting a role in osmotic control, such a relationship has not been found for DMSP in Spartina species. Recent observations on tissue culture showed that, while undifferentiated tissue of W. biflora produced DMSP, such material of Spartina alterniflora Loisel. did not. Ongoing studies with tissue culture of both species have opened up new avenues of research on DMSP in higher plants, ultimately to elucidate the functions of this enigmatic compound.     

Renal toxicity after radionuclide therapy

During the past 10 years, a variety of radiolabeled monoclonal antibodies, antibody fragments, and low-molecular- weight oncophilic peptides have been used to deliver radioactivity to target cells for therapeutic purposes. The high and persistent localization of several of these radiolabeled molecules in the kidneys raised concern about potential renal radiation toxicity compromising therapeutic effectiveness. In particular, radiolabeled peptides, such as yttrium-90-labeled synthetic somatostatin analogues, have initiated a discussion on the safety profiles of the various somatostatin derivatives in recent clinical trials. In general, the toxicity risk seems to depend on the characteristics of the oncophilic molecule, such as the molecular weight, electric charges and clearance pathways as well as the chemical and physical characteristics of the applied radionuclide. Encouraging results for the prevention of radiation-induced renal damage by radiolabeled peptides have been obtained by co-infusion of positively charged amino acids. The available literature on nephrotoxicity after radiolabeled peptide therapy is reviewed, and therapeutic options that have become available as a result of greater insights into putative pathogenic mechanisms are discussed.     

Proteomics of endoplasmic reticulum-Golgi intermediate compartment (ERGIC) membranes from brefeldin A-treated HepG2 cells identifies ERGIC-32, a new cycling protein that interacts with human Erv46

Cycling proteins play important roles in the organization and function of the early secretory pathway by participating in membrane traffic and selective transport of cargo between the endoplasmic reticulum (ER), the intermediate compartment (ERGIC), and the Golgi. To identify new cycling proteins, we have developed a novel procedure for the purification of ERGIC membranes from HepG2 cells treated with brefeldin A, a drug known to accumulate cycling proteins in the ERGIC. Membranes enriched 110-fold over the homogenate for ERGIC-53 were obtained and analyzed by mass spectrometry. Major proteins corresponded to established and putative cargo receptors and components mediating protein maturation and membrane traffic. Among the uncharacterized proteins, a 32-kDa protein termed ERGIC-32 is a novel cycling membrane protein with sequence homology to Erv41p and Erv46p, two proteins enriched in COPII vesicles of yeast. ERGIC-32 localizes to the ERGIC and partially colocalizes with the human homologs of Erv41p and Erv46p, which mainly localize to the cis-Golgi. ERGIC-32 interacts with human Erv46 (hErv46) as revealed by covalent cross-linking and mistargeting experiments, and silencing of ERGIC-32 by small interfering RNAs increases the turnover of hErv46. We propose that ERGIC-32 functions as a modulator of the hErv41-hErv46 complex by stabilizing hErv46. Our novel approach for the isolation of the ERGIC from BFA-treated cells may ultimately lead to the identification of all proteins rapidly cycling early in the secretory pathway.     

A subset of the elements of the 1731 retrotransposon family are preferentially located in regions of the Y chromosome that are polytenized in larval salivary glands of Drosophila melanogaster

It has been previously reported that the abundance and distribution of transposable elements (TEs) in Drosophila heterochromatin are conserved in unrelated stocks although they may greatly differ between families. The biases in genomic distribution of TEs are potentially informative for understanding host–transposon interactions. Here we report that in most stocks, one to four elements of the 1731 retrotransposon family are located on the Y chromosome within regions that appear to be polytenized in larval salivary glands. We discuss the hypothesis that these elements may be beneficial to the host and consider the relevance of our observations to the organization of sequences within the heterochromatin.     

Mutations which uncouple transport and phosphorylation in the D-mannitol phosphotransferase system of Escherichia coli K-12 and Klebsiella pneumoniae 1033-5P14

Mutants of Escherichia coli K-12 were isolated which lack the normal phosphotransferase system-dependent catabolic pathway for D-mannitol (Mtl). In some mutants the pts genes for the general proteins enzyme I and histidine protein of the phosphoenolpyruvate-dependent carbohydrate phosphotransferase systems were deleted. Other mutants expressed truncated mannitol-specific enzymes II (II(Mtl)) which lacked the IIA(Mtl) or IIBA(Mtl) domain(s), and the mtlA genes originated either from E. coli K-12 or from Klebsiella pneumoniae 1033-5P14. The dalD gene from Klebsiella oxytoca M5a1 was cloned on single-copy plasmids and transformed into the strains described above. This gene encodes an NAD-dependent D-arabinitol dehydrogenase (DalD) which converts D-arabinitol into D-xylulose and also converts D-mannitol into D-fructose. The different strains were used to isolate mutations which allow efficient transport of mannitol through the nonphosphorylated II(Mtl) complexes by selecting for growth on this polyhydric alcohol. More than 40 different mutants were analyzed to determine their ability to grow on mannitol, as well as their ability to bind and transport free mannitol and, after restoration of the missing domain(s), their ability to phosphorylate mannitol. Four mutations were identified (E218A, E218V, H256P, and H256Y); all of these mutations are located in the highly conserved loop 5 of the IIC membrane-bound transporter, and two are located in its GIHE motif. These mutations were found to affect the various functions in different ways. Interestingly, in the presence of all II(Mtl) variants, whether they were in the truncated form or in the complete form, in the phosphorylated form or in the nonphosphorylated form, and in the wild-type form or in the mutated form, growth occurred on the low-affinity analogue D-arabinitol with good efficiency, while only the uncoupled mutated forms transported mannitol at a high rate.     

Expanding the design horizon of antisense oligonucleotides with alpha-L-LNA

Oligonucleotides containing Locked Nucleic Acids (LNA) to various extents and at various positions were evaluated for antisense activity, RNase H recruitment, nuclease stability and thermal affinity. In this work, two different diastereoisomers of LNA were studied: the beta-D-LNA and the alpha-L-LNA (abbreviated as beta-D-LNA and alpha-L-LNA). Our findings show that the best antisense activity with 16mer gapmers containing beta-D-LNA (oligonucleotides containing consecutive segments of LNA and DNA with a central DNA stretch flanked by two LNA segments, LNA-DNA-LNA) is found with gap sizes between 7 and 10 nt. The optimal gap size is motif-dependent, and requires the right balance between gap size and affinity. Compared to beta-D-LNA, alpha-L-LNA shows superior stability against a 3'-exonuclease. The design possibilities of alpha-L-LNA were explored for different gapmers and other designs, collectively called chimeras. The placement of alpha-L-LNA in the junctions or in the flanks resulted in potent antisense oligonucleotides. Moreover, different chimeras with an alternate composition of DNA, alpha-L-LNA and beta-D-LNA were evaluated in terms of antisense activity and RNase H recruitment. Chimeras with an interrupted DNA stretch with alpha-L-LNA still recruit RNase H and show good levels of antisense activity, while the same design with beta-D-LNA results in a drop in antisense potency. Our findings indicate that alpha-L-LNA is a powerful and versatile nucleotide analogue for designing potent antisense oligonucleotides.     

Evidence for the host contribution in the definition of preferential insertion sites of the elements of Bari 1 transposon family in Drosophila melanogaster

A follow-up over 83 generations has been carried out, by the Southern blotting technique, of a Drosophila stock which is unstable in the location of Bari 1 elements. The persistent intrastock polymorphism detected is largely amenable to insertion/excision equilibria at 36 genomic sites that form a gradient in occupancy. In a closely related stock, Bari 1 elements are stable and exhibit a substantially different genomic distribution. These results suggest that in Drosophila preferential insertion sites may be defined with the contribution of host factors, although alternative interpretations are also possible. The relevance to the mechanism(s) that contains the potentially deleterious effects of transposition is discussed.