Oxidation of uroporphyrinogens by hydroxyl radicals. Evidence for nonporphyrin products as potential inhibitors of uroporphyrinogen decarboxylase

A hydroxyl radical-generating system, hypoxanthine/xanthine oxidase/Fe-EDTA, oxidises uroporphyrinogens to uroporphyrins and to more polar nonporphyrin products. The evidence suggests that the nonporphyrin products have inhibitory activity towards mouse liver uroporphyrinogen decarboxylase which could explain some forms of human and experimental porphyrias.     

The role of iron in experimental porphyria and porphyria cutanea tarda

Porphyria cutanea tarda (PCT) and experimental porphyria are characterized by a decreased activity of the enzyme uroporphyrinogen decarboxylase, and accumulation of uroporphyrins and heptacarboxylporphyrins in the liver. Iron (Fe) plays an important role in PCT and experimental porphyria. Biochemically and electron microscopically, we examined the relationship between Fe and porphyrins in liver tissue of C57BL/10 mice made porphyric by administration of iron dextran as Imferon^® (IMF), and in liver biopsies of patients with symptomatic PCT. Accumulation of uroporphyrins and heptacarboxylporphyrins, and an increased amount of Fe were observed in livers of mice treated with IMF and in liver biopsies of patients with PCT. In mice treated with IMF, the activity of uroporphyrinogen decarboxylase was decreased. Both in livers of mice treated with IMF and in livers of patients with PCT, needle-like structures, representing uroporphyrin crystals, were observed by electron microscopy. Uroporphyrin crystals and Fe (as ferritin) were observed in the same hepatocyte. Moreover, there was a striking morphological correlation between uroporphyrin crystals and ferritin-Fe, suggesting a role for (ferritin-)Fe in the pathogenesis of porphyria.     

Porphyrin biosynthesis from porphobilinogen by duck blood hemolysate

Summary The formation of porphyrins from porphobilinogen by a duck blood hemolysate was examined. The system was found to form mainly protoporphyrin IX and hemin, and accumulated lesser amounts of uroporphyrins, heptacarboxylic porphyrin, and coproporphyrins. By storage at –20° the accumulation of uroporphyrins and heptacarboxylic porphyrin was increased. Both porphyrins were mainly the type III isomers. By addition of dithiothreitol the porphyrin pattern reversed to the original one formed by the fresh hemolysate. Addition of a number of amines also inhibited the decarboxylating system without affecting the original isomer distribution among the porphyrins. Addition of Fe²⁺ (3mm) did not affect the porphyrin pattern or the isomer distribution. Addition of Pb²⁺ (2.5mm) partially inhibited the decarboxylating system, whereas at higher concentrations (4mm) it increased the decarboxylation rate of the heptacarboxylic porphyrin. The obtained results are discussed in relation to porphyrin accumulation in porphyria cutanea tarda and in acquired hepatic porphyrias.Dedicated to professorLuis F. Leloir on the occasion of his 70th birthday.     

The colour pattern of Lineus atrocaeruleus (Nemertia)

The colouration of living specimens of Lineus atrocaeruleus (Lineidae, Nemertea) is bluish or brownish black with many transverse yellow rings. The pigments responsible for the colouration are granular and are elaborated by epidermal and dermal pigment cells, both of which contain uroporphyrins. Granules of melanic nature occur in the dermal pigment cells. The significance of the epidermal pigment cells is discussed.     

Différenciation des cellules pigmentaires à porphyrines chez Lineus ruber (O. F. Müller) (Hétéronémertes Lineidae)

Résumé On a étudié le metabolisme des Porphyrines de la Némerte marine Lineus ruber à l'aide d'acide delta aminolévulinique 4 C¹⁴ ou 2–3 H³. Chez les animaux traités, le marqueur est retrouvé au niveau des uroporphyrines séparées par chromatographie sur papier. Ce résultat nous a permis l'étude autoradiographique de la mise en place des Uroporphyrines dans les cellules pigmentaires en régénération. Ce type de travail permet de suivre la différenciation biochimique des cellules pigmentaires avant que ne soit commencée leur différenciation morphologique.

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Summary The metabolism of porphyrins was studied in the marine Nemertean worm Lineus ruber with delta aminolevulinic acid 4 C¹⁴ or 2–3 H³. All the radioactivity was found in the uroporphyrins isolated by paper chromatography. This result permits us to do the autoradiographic study of the appearance of uroporphyrins in regenerating pigment cells. Such a work allows to see the biochemical differentiation of pigment cells before the starting of their morphological differentiation.

     

High-pressure liquid chromatography of plasma free acid porphyrins

The separation and quantitation of plasma free acid porphyrins by high-pressure liquid chromatography and fluorescence is described. Porphyrins were extracted from plasma in a simple manner with a recovery >90%. They were separated by high-pressure liquid chromatography on a silica gel (10 μm) column, using a gradient of acetone:dilute acetic acid. Resolution of seven free acid porphyrin standards including coproporphyrins I and III, but not uroporphyrins I and III, was achieved in 12 min at picomolar concentrations. Plasma of patients with erythropoietic protoporphyria displayed protoporphyrin. Uroporphyrin was the only porphyrin found in plasma of eight patients with porphyria cutanea tarda. Normal plasma contained small amounts of uroporphyrin and/or traces of protoporphyrin.     

Partition of porphyrins between cyclohexanone and aqueous sodium acetate as a function of pH. Determination of uroporphyrin and of hydrophilic porphyrin conjugates

1. The partition of uroporphyrins I and III, coproporphyrins I and III, haematoporphyrin IX, porphyrin c and a hydrophilic porphyrin–peptide fraction from variegate-porphyria faeces has been studied in systems of equal volumes of cyclohexanone and sodium acetate buffers of varying pH and concentration. 2. The concentration of acetate in the aqueous phase has little effect on the partition of porphyrin c, but markedly influences that of uroporphyrin. At 50% acetate saturation and pH4·5, only 5% enters the cyclohexanone phase whereas 60% of porphyrin c is extracted under similar conditions. 3. This circumstance forms the basis of a method for the determination of hydrophilic porphyrin–peptides in variegate-porphyria urine. Its reliability has been checked in model experiments. 4. At pH1·5 and an aqueous phase half-saturated with sodium acetate, an equal volume of cyclohexanone removes 95–97% of uroporphyrin and about 55% of porphyrin c. Uroporphyrin may therefore be determined as a second step in the method. 5. For the routine determination of uroporphyrin in systems free from other hydrophilic porphyrins, cyclohexanone extraction may be performed at any pH in the range 1·0–3·0.     

Qualitative and quantitative analysis of peritoneal fluids from women with gynecologic diseases. Comparison of cytology and flow cytometry for the detection of malignancy in lavage and ascitic fluids

A prospective study was undertaken to compare flow cytometric (FCM) analysis to conventional cytologic evaluation for the detection of malignant cells in peritoneal fluids (peritoneal lavages and ascitic fluids) from women with gynecologic diseases. The 94 peritoneal fluids analyzed came from 63 cancer patients (with epithelial ovarian carcinomas) and 31 control patients (with benign gynecologic diseases). The FCM DNA histograms were generated using propidium iodide as a DNA fluorochrome. Samples for cytologic analysis were stained with the standard May-Grünwald-Giemsa or Papanicolaou stains. Of the 94 samples, 90 were evaluable cytologically while 70 were suitable for FCM analysis. The sensitivities were 55% for FCM DNA analysis and 80% for cytologic analysis. FCM DNA analysis had a 30% false-positive rate; cytologic analysis produced no false-positive results. These results indicate that there is no advantage in employing FCM analysis instead of conventional cytologic evaluation for the detection of malignant cells in peritoneal fluids from gynecologic cases.     

A comparison of univariate and multivariate numerical and graphical techniques for determining inter- and intraspecific feeding relationships in estuarine fish

The advantages and disadvantages of various numerical and graphical techniques for the analysis of inter- and intraspecific feeding relationships of fishes were examined. All methods have been cited in the literature since 1988. The index of preponderance, the resultant index and graphical methods proposed by Costello and Tokeshi were used to illustrate the relative importance of prey species to an individual fish species with no differentiation between size classes. Inter- and intraspecific competition and niche overlap were determined from multivariate analysis [the ordination technique, detrended correspondence analysis, cluster analysis by the Bray-Curtis equation, per cent overlap and two-way indicator species analysis (TWINSPAN)]. The identity of the prey organisms are not lost in the comparisons, and the value of this is determined through comparison with techniques such as Shannon-Wiener which obscure these data. The Shannon-Wiener diversity index was combined with an analysis of 'evenness' to refine the technique further to assess niche breadth, as was the Levins index. The study shows that to give an estimate of competition within the community, it is important to assess the data with respect to seasonal and temporal patterns using multivariate analysis.     

Metabolic flux analysis and metabolic engineering of microorganisms

Recent advances in metabolic flux analysis including genome-scale constraints-based flux analysis and its applications in metabolic engineering are reviewed. Various computational aspects of constraints-based flux analysis including genome-scale stoichiometric models, additional constraints used for the improved accuracy, and several algorithms for identifying the target genes to be manipulated are described. Also, some of the successful applications of metabolic flux analysis in metabolic engineering are reviewed. Finally, we discuss the limitations that need to be overcome to make the results of genome-scale flux analysis more realistically represent the real cell metabolism.     

AFLP analysis of the diversity and phylogeny of Lens and its comparison with RAPD analysis

AFLP and RAPD marker techniques have been used to evaluate and study the diversity and phylogeny of 54 lentil accessions representing six populations of cultivated lentil and its wild relatives. Four AFLP primer combinations revealed 23, 25, 52 and 48 AFLPs respectively, which were used to partition variation within and among Lens taxa. The results of AFLP analysis is compared to previous RAPD analysis of the same material. The two methods provide similar conclusions as far as the phylogeny of Lens is concerned. The AFLP technique detected a much higher level of polymorphyism than the RAPD analysis. The use of 148 AFLPs arising from four primer combinations was able to discriminate between genotypes which could not be distinguished using 88 RAPDs. The level of variation detected within the cultivated lentil with AFLP analysis indicates that it may be a more efficient marker technology than RAPD analysis for the construction of genetic linkage maps between carefully chosen cultivated lentil accessions.     

Microfluidics and the quantification of biomolecular interactions

Microfluidic systems under laminar flow conditions provide in-solution information about species size and binding affinities at very modest sample costs. Flow-induced dispersion analysis directly measures the spread of the analyte profile using Taylor dispersion analysis, whereas microfluidic diffusional sizing quantifies the transfer of analyte from one phase to another. Species of sizes between 0.5 and 1000 nm can be analyzed, and different populations resolved. Both techniques also allow analysis in complex media and medium throughput analysis. These properties make them valuable complements to existing approaches to measure biomolecular interactions.     

Screening and identification of the core immune-related genes and immune cell infiltration in severe burns and sepsis

Severe burns often have a high mortality rate due to sepsis, but the genetic and immune crosstalk between them remains unclear. In the present study, the GSE77791 and GSE95233 datasets were analysed to identify immune-related differentially expressed genes (DEGs) involved in disease progression in both burns and sepsis. Subsequently, weighted gene coexpression network analysis (WGCNA), gene enrichment analysis, protein–protein interaction (PPI) network construction, immune cell infiltration analysis, core gene identification, coexpression network analysis and clinical correlation analysis were performed. A total of 282 common DEGs associated with burns and sepsis were identified. Kyoto Encyclopedia of Genes and Genomes pathway analysis identified the following enriched pathways in burns and sepsis: metabolic pathways; complement and coagulation cascades; legionellosis; starch and sucrose metabolism; and ferroptosis. Finally, six core DEGs were identified, namely, IL10, RETN, THBS1, FGF13, LCN2 and MMP9. Correlation analysis showed that some core DEGs were significantly associated with simultaneous dysregulation of immune cells. Of these, RETN upregulation was associated with a worse prognosis. The immune-related genes and dysregulated immune cells in severe burns and sepsis provide potential research directions for diagnosis and treatment.     

Gas chromatography and detection of microquantities of gibberellins and indoleacetic acid as their fluorinated derivatives

Gas chromatographic analysis of halogenated derivatives of the plant hormones IAA and gibberellins is described, employing an electron capture detector. Heptafluorobutyryl (HFB) and trifluoroacetyl (TFA) derivatives of the gibberellin and IAA methyl esters have excellent chromatographic properties and allow quantitative and qualitative analysis on the nanogram to picogram level. The methods have been used in analysis of apple seed hormones.     

CorrXpression--identification of significant groups of genes and experiments by means of correspondence analysis and ratio analysis

CorrXpression is a stand-alone desktop application for the identification of significant genes within collections of microarrays. The software combines three methods in two steps of analysis: correspondence analysis (CA), ratio analysis and correlation analysis. The graphical interface of CorrXpression visualizes the result of the CA with a biplot and the expression of selected genes in dependency of the experiments as bar diagrams. The CA-plot is an excellent tool for visualization and evaluation of data and results of ratio analysis and correlation analysis. The input data are selected from a database or from appropriate ASCII files.     

Genetic manipulation of Aspergillus nidulans: heterokaryons and diploids for dominance, complementation and haploidization analyses

The haploid microbial eukaryote Aspergillus nidulans is a powerful genetic system, which allows analysis of a broad range of biological phenomena. In addition to conventional analysis of meiotic progeny in a single generation, parasexual analysis affords a rapid and convenient method for genetic analysis. We describe the construction of A. nidulans heterokaryons and diploids for use in genetic analysis to determine dominance and conduct complementation tests. We also describe the rapid mapping of mutations to chromosomes by haploidization of diploids carrying marked chromosomes. Balanced heterokaryons may be established within 10 days and diploids may be constructed in 2-3 weeks. Dominance tests and complementation tests using balanced heterokaryons or diploids may be completed in 2-3 days. Haploidization analysis of heterozygous diploids can be achieved within 10 days. These protocols should be adaptable for use in related Aspergilli and Penicillia, which lack a known meiotic cycle.     

Comparison of laser diffraction and image analysis for measurement of Streptomyces coelicolor cell clumps and pellets

Morphology is important in industrial processes involving filamentous organisms because it affects the mixing and mass transfer and can be linked to productivity. Image analysis provides detailed information about the morphology but, in practice, it is often laborious including both collection of high quality images and image processing. Laser diffraction is rapid and fully automatic and provides a volume-weighted distribution of the particle sizes. However, it is based on a number of assumptions that do not always apply to samples. We have evaluated laser diffraction to measure cell clumps and pellets of Streptomyces coelicolor compare to image analysis. Samples, taken five times during fed-batch cultivation, were analyzed by image analysis and laser diffraction. The volume-weighted size distribution was calculated for each sample. Laser diffraction and image analysis yielded similar size distributions, i.e. unimodal or bimodal distributions. Both techniques produced similar estimations of the population means, whereas the estimates of the standard deviations were generally higher using laser diffraction compared to image analysis. Therefore, laser diffraction measurements are high quality and the technique may be useful when rapid measurements of filamentous cell clumps and pellets are required.     

利用SPSS与AFLP方法对双丰甜菜品种（系）间亲缘关系与系谱分析比较

作物育种必须调查植物学性状和生物学特征指标数据,来建立种质资源库,利用SPSS多元分析方法克服了传统植物学性状和生物学特征指标难以综合评价的缺陷,探讨利用SPSS统计分析软件对双丰系列甜菜品种（系）间亲缘关系与系谱进行准确性分析,除双丰2号品种块根产量、产糖量和株高三个主成分具有极值影响外,结果基本与亲本分析一致,可以作为亲缘关系与系谱分析的一种辅助工具;通过AFLP获得不同基因型品种的特征带和特征缺失带,表明AFLP技术在甜菜品种鉴定上的应用潜力。但AFLP也具有缺点,主要是标记是共显性的,不能完全区分某一位点是杂合体和纯合体,因而不能更好地估算种群遗传的变异,对种群遗传结构的分析不能提供更多的统计信息,相信随着AFLP分子标记技术的不断完善与发展,将与SPSS统计分析软件一起越来越广泛地利用在种群遗传和系谱分析中。