Studies on the aroma of maté (Ilex paraguariensis St. Hil.) using headspace solid-phase microextraction

Volatile and semi-volatile components of maté (Ilex paraguariensis St. Hil.) were analysed by headspace solid-phase microextraction (HS-SPME) coupled to gas chromatography and mass spectrometry. Five SPME fibres coated separately with 100 microm poly(dimethylsiloxane) (PDMS), 65 microm PDMS-divinylbenzene (DVB), 70 microm carbowax (CW)-DVB, 85 microm carboxen (CAR)-PMDS or 50/30 microm DVB-CAR, were tested. Seventy compounds were identified in the sample headspace, including propanal, (E)-2-pentenal, hexanal, (E)-2-hexenal, 6-methyl-5-hepten-2-one, (E,Z)-2,4-heptadienal, (E,E)-2,4-heptadienal, (E,Z)-3,5-octadien-2-one, beta-cyclocitral, 3-ethyl 4-methyl-(1H)-pyrrole-2,5-dione, alpha-ionone, geranylacetone, beta-ionone, dihydroactinidiolide and caffeine. Extraction parameters such as temperature, time and sample mass were studied and optimized. The best conditions for trapping volatile and semi-volatile compounds were obtained using a DVB-CAR fibre at 80 degrees C for 60 min with a sample mass starting from 100 mg in a vial of 4 mL.     

New method of derivatization and headspace solid-phase microextraction for gas chromatographic–mass spectrometric analysis of amphetamines in hair

A simple method for hair analysis of methamphetamine (MAMP) and amphetamine (AMP) by gas chromatography–mass spectrometry (GC–MS) was developed using simultaneous headspace solid-phase microextraction (HS-SPME) with derivatization. After alkaline-digestion of hair, the analytes derivatized with heptafluoro-n-butyryl chloride were adsorbed on a polydimethylsiloxane-coated fiber by HS-SPME and analyzed by GC–MS. Their mass spectra were, respectively, observable at 1 ng per sample. The standard curves in the range of 0.1–100 ng were linear. The intra-day coefficients of variation at each 0.5 ng were 12.5% for AMP and 3.8% for MAMP. The applicability of this method was demonstrated in some case studies.     

Determination of haloacetic acids in human urine by headspace gas chromatography–mass spectrometry

Haloacetic acids (HAAs) are water disinfection byproducts (DBPs) formed by the reaction of chlorine oxidizing compounds with natural organic matter in water containing bromine. HAAs are second to trihalomethanes as the most commonly detected DBPs in surface drinking water and swimming pools. After oral exposure (drinking, showering, bathing and swimming), HAAs are rapidly absorbed from the gastrointestinal tract and excreted in urine. Typical methods used to determine these compounds in urine (mainly from rodents) only deal with one or two HAAs and their sensitivity is inadequate to determine HAA levels in human urine, even those manual sample preparation protocols which are complex, costly, and neither handy nor amenable to automation. In the present communication, we report on a sensitive and straightforward method to determine the nine HAAs in human urine using static headspace (HS) coupled with GC–MS. Important parameters controlling derivatisation and HS extraction were optimised to obtain the highest sensitivity: 120 μl of dimethylsulphate and 100 μl of tetrabutylammonium hydrogen sulphate (derivatisation regents) were selected, along with an excess of Na₂SO₄ (6 g per 12 ml of urine), an oven temperature of 70 °C and an equilibration time of 20 min. The method developed renders an efficient tool for the precise and sensitive determination of the nine HAAs in human urine (RSDs ranging from 6 to 11%, whereas LODs ranged from 0.01 to 0.1 μg/l). The method was applied in the determination of HAAs in urine from swimmers in an indoor swimming pool, as well as in that of non-swimmers. HAAs were not detected in the urine samples from non-swimmers and those of volunteers before their swims; therefore, the concentrations found after exposure were directly related to the swimming activity. The amounts of MCAA, DCAA and TCAA excreted from all swimmers are related to the highest levels in the swimming pool water.     

Application of solid-phase microextraction and gas chromatography–mass spectrometry for measuring chemicals in saliva of synthetic leather workers

Saliva is of interest as a diagnostic aid for oral and systemic diseases, to monitor therapeutic drugs, and detect illicit drug abuse. It is also attractive for biological monitoring of exposure to hazardous solvents. The major advantage of this indicator over other biological monitoring targets is that the saliva is noninvasive and less confidential in comparison with blood and urine. Salivary analysis is generally acceptable by study subjects and can be applied to investigation of a wide variety of compounds. However, very few studies have been conducted on the saliva matrix to monitor exposure to hazardous solvents. The aim of this study is to establish an analytical method, headspace solid-phase microextraction (HS-SPME) followed by gas chromatography–mass spectrometry (GC–MS), by which the saliva matrix can be monitored for multiple compounds with various polarities, such as methyl ethyl ketone (MEK), isopropyl alcohol (IPA), and N,N-dimethyl formamide (DMF) (common solvents used in synthetic leather manufacture), as well as acetone (ACE) and N-methyl formamide (NMF) (metabolites of IPA and DMF, respectively). We studied this technique as an alternative biological monitoring method for investigating exposure to hazardous solvents. A Carboxen/Polydimethylsiloxane (CAR/PDMS 75 μm) fiber coating was employed for this study, and various extraction and desorption parameters were evaluated. The extraction efficiency and reproducibility of analyses was improved by pre-incubation. The limits of detection were 0.004, 0.003, 0.006, 0.05, and 0.10 μg/mL for ACE, MEK, IPA, DMF, and NMF, respectively. Method validation was performed on standards spiked in blank saliva, and a correlation was made between HS-SPME and traditional solvent pretreatment methods. It was found that correlation coefficients (r) were greater than 0.996 for each analyte, with no significant differences (p > 0.05) between two methods. However, the SPME method achieved lower limits of detection, with good accuracy (recovery 95.3–109.2%) and precision (1.17–8.22% CV) for both intra- and inter-assay, when quality control samples were analyzed for all five compounds. The partition coefficient for each compound between the headspace of the saliva sample and the CAR/PDMS fiber coating was 90.9, 170.1, 36.4, 3.70 and 0.92 for ACE, MEK, IPA, DMF and NMF, respectively. Real sample analyses were performed on workers in a synthetic leather factory. In summary, the SPME method is a highly versatile and flexible technique for chemical measurement, and we demonstrate its application for monitoring biological exposure to hazardous solvents. Saliva monitoring using sensitive SPME approaches for determining workplace exposure should prove useful as an alternative exposure monitoring method.     

A quantitative headspace–solid-phase microextraction–gas chromatography–flame ionization detector method to analyze short chain free fatty acids in rat feces

This study sought to develop and validate a quantitative method to analyze short chain free fatty acids (SCFAs) in rat feces by solid-phase microextraction and gas chromatography (SPME–GC) using the salt mixture ammonium sulfate and sodium dihydrogen phosphate as salting out agent. Conditioning and extraction time, linearity, limits of detection and quantification, repeatability, and recovery were evaluated. The proposed method allows quantification with improved sensitivity as compared with other methods exploiting SPME–GC. The method has been applied to analyze rat fecal samples, quantifying acetic, propionic, isobutyric, butyric, isopentanoic, pentanoic, and hexanoic acids.     

QTL analysis of resistance to sharka disease in the apricot (Prunus armeniaca L.) ‘Polonais’ × ‘Stark Early Orange’ F1 progeny

Different hypotheses on the genetic control of the resistance to the plum pox virus (PPV) have been reported in apricot, but there was a lack of agreement about the number of loci involved. In recent years, apricot genetic maps have been constructed from progenies derived from ‘Stark Early Orange’ or ‘Goldrich’, two main sources of resistance, three of these including the mapping of the PPV resistance loci. As the location of the locus was not precisely established, we mapped the PPV resistance loci using interval mapping (IM), composite interval mapping (CIM), and the Kruskal–Wallis non-parametric test in the F₁ progeny derived from a cross between the susceptible cv. ‘Polonais’ and ’Stark Early Orange’. Four genomic regions were identified as being involved in PPV resistance. One of these mapped to the upper region of linkage group 1 of ‘Stark Early Orange’, and accounted for 56% of the phenotypic variation. Its location was similar to the one previously identified in ‘Goldrich’ and Prunus davidiana. In addition, a gene strongly associated to these major quantitative trait loci (QTL) was found to be related to PPV infection. Two putative QTLs were detected on linkage groups 3 of ‘Polonais’ and 5 of both ‘Polonais’ and ‘Stark Early Orange’ with both parametric and non-parametric methods at logarithm of odds (LOD) scores slightly above the detection threshold. The last QTL was only detected in the early stage of the infection. PPV resistance is, thus, controlled by a major dominant factor located on linkage group 1. The hypothesis of recessive factors with lower effect is discussed.     

QTL mapping of resistance to Sclerotinia midstalk rot in RIL of sunflower population NDBLOSsel × CM625

Midstalk rot caused by Sclerotinia sclerotiorum is an important disease of sunflower in its main areas of cultivation. The objectives of this study were to (1) verify quantitative trait loci (QTL) for midstalk-rot resistance found in F₃ families of the NDBLOS_sel × CM625 population in recombinant inbred lines (RIL) derived from the same cross; (2) re-estimate their position and genetic effects; (3) draw inferences about the predictive quality of QTL for midstalk-rot resistance identified in the F₃ families as compared to those in the RIL. Phenotypic data for three resistance (leaf lesion, stem lesion, and speed of fungal growth) and two morphological traits (leaf length and leaf length with petiole) were obtained from 317 RIL following artificial infection in field experiments across two environments. For genotyping the 248 RIL, we selected 41 simple sequence repeat (SSR) markers based on their association with QTL for Sclerotinia midstalk-rot resistance in an earlier study. The resistance traits showed intermediate to high heritabilities and were significantly correlated with each other Genotypic correlations between F₃ families and the RIL were highly significant and ranged between 0.50 for leaf length and 0.64 for stem lesion. For stem lesion, two genomic regions on linkage group (LG) 8 and LG16 explaining 26.5% of the genotypic variance for Sclerotinia midstalk-rot resistance were consistent across generations. For this trait, the genotypic correlation between the observed performance and its prediction based on QTL positions and effects in F₃ families was surprisingly high The genetic effects and predictive quality of these two QTL are promising for application in marker-assisted selection to Sclerotinia midstalk-rot resistance.     

QTL mapping for grain filling rate and yield-related traits in RILs of the Chinese winter wheat population Heshangmai × Yu8679

A set of 142 winter wheat recombinant inbred lines (RILs) deriving from the cross Heshangmai x Yu8679 were tried in four ecological environments during the seasons 2006 and 2007. Nine agronomic traits comprising mean grain filling rate (GFR(mean)), maximum grain filling rate (GFR(max)), grain filling duration (GFD), grain number per ear (GNE), grain weight per ear (GWE), flowering time (FT), maturation time (MT), plant height (PHT) and thousand grain weight (TGW) were evaluated in Beijing (2006 and 2007), Chengdu (2007) and Hefei (2007). A genetic map comprising 173 SSR markers and two EST markers was generated. Based on the genetic map and phenotypic data, quantitative trait loci (QTL) were mapped for these agronomic traits. A total of 99 putative QTLs were identified for the nine traits over four environments except GFD, PHT and MT, measured in two environments (BJ07 and CD07), respectively. Of the QTL detected, 17 for GFR(mean), 16 for GFR(max), 21 for TGW and 10 for GWE involving the chromosomes 1A, 1B, 2A, 2D, 3A, 3B, 3D, 4A, 4D, 5A, 5B, 6D and 7D were identified. Moreover, 13 genomic regions showing pleiotropic effects were detected in chromosomes 1A, 1B, 1D, 2A, 2B, 2D, 3A, 3B, 4B, 4D, 5B, 6D and 7D; these QTL revealing pleiotropic effects may be informative for a better understanding of the genetic basis of grain filling rate and other yield-related traits, and represent potential targets for multi-trait marker aided selection in wheat.     

Evaluation of aroma active compounds in <Emphasis Type="Italic">Tuber</Emphasis> fruiting bodies by gas chromatography–olfactometry in combination with aroma reconstitution and omission test

The aroma active compounds of three Tuber fruiting bodies (i.e., Tuber himalayense, Tuber indicum, and Tuber sinense) were firstly systematically evaluated by instrumental gas chromatography–olfactometry combining with quantitative analysis, aroma reconstitution, and omission tests. Twelve aroma active compounds were characterized by aroma extract dilution analysis, and 3-(methylthio) propanal, 3-methylbutanal, and 1-octen-3-ol with the highest flavor dilution (FD) factor (i.e., 1,024–2,048) were suggested as key contributors to the aroma. Odor activity value (OAV) was employed to determine the relative contribution of each compound to the aroma, and the compound with the highest FD factor also had the highest OAV (i.e., 10,234–242,951). Then, the synthetic blends of odorants (aroma reconstitution) were prepared with OAV larger than 15, and their aromas were very similar to the originals. Omission tests were carried out to verify the significance of 3-(methylthio) propanal, 1-octen-3-ol, and 3-methylbutanal as key compounds in the aroma of tested Tuber fruiting bodies.     

Molecular characterization of newS-RNases (‘S31’ and ‘S32’) in apple (Malus ×domestica Borkh.)’) in apple (Malus ×domestica Borkh.)

Apple exhibits gametophytic self-incompatibility (GSI) that is controlled by the multiallelic S-locus. This S-locus encodes polymorphicS ribonuclease (S-RNase) for the pistil-part 5 determinant. Information aboutS-genotypes is important when selecting pollen donors for fruit production and breeding of new cultivars. We determined the 5-genotypes of ‘Charden’ (S₂S₃S₄), ‘Winesap’ (S₁S₂₈), ‘York Imperial’ (S₂S₃₁), ‘Stark Earliblaze’ (S₁S₂₈), and ‘Burgundy’ (S₂₀S₃₂), byS-RNase sequencing and S-allele-specific PCR analysis. Two newS-RNases, S₃₁ and S₃₂, were also identified from ‘York Imperial’ and ‘Burgundy’, respectively. These newS-alleles contained the conserved eight cysteine residues and two histidine residues essential for RNase activity. Whereas S₃₁ showed high similarity to S₂₀ (94%), S₃₂ exhibited 58% (to S₂₄) to 76% (to S₂₅) similarity in the exon regions. We designed newS-allele-specific primers for amplifying S₃₁- and S₃₂-RNasc-specific fragments; these can serve as specific gene markers. We also rearranged the apple S-allele numbers containing those newS-RNases. They should be useful, along with anS-RNase-based PCR system, in determining S-genotypes and analyzing new alleles from apple cultivars.     

Detection and quantification of fatty acid ethyl esters in meconium by headspace-solid-phase microextraction and gas chromatography–mass spectrometry

Meconium fatty acid ethyl esters (FAEEs) are currently used as biomarkers to detect heavy prenatal alcohol exposure. We introduce a novel technique to quantify FAEEs in meconium using headspace-solid-phase microextraction (HS-SPME) coupled with gas chromatography–mass spectrometry (GC–MS). This method improves on previous approaches by decreasing sample preparation time, eliminating the need for organic solvents, and reducing the required sample size. Using 50 mg of meconium, the detection limits of FAEEs ranged from 0.05 to 0.16 nmol/g and had good reproducibility making it ideal for routine analysis of clinical samples.     

QTL mapping of black rot (Guignardia bidwellii) resistance in the grapevine rootstock ‘Börner’ (V. riparia Gm183 × V. cinerea Arnold)

Key message

In the grapevine cultivar ‘Börner’ QTLs for black rot resistance were detected consistently in several independent experiments. For one QTL on chromosome 14 closely linked markers were developed and a detailed map provided.

Abstract

Black rot is a serious grapevine disease that causes substantial yield loss under unfavourable conditions. All traditional European grapevine cultivars are susceptible to the causative fungus Guignardia bidwellii which is native to North America. The cultivar ‘Börner’, an interspecific hybrid of V. riparia and V. cinerea, shows a high resistance to black rot. Therefore, a mapping population derived from the cross of the susceptible breeding line V3125 (‘Schiava grossa’ × ‘Riesling’) with ‘Börner’ was used to carry out QTL analysis. A resistance test was established based on potted plants which were artificially inoculated in a climate chamber with in vitro produced G. bidwellii spores. Several rating systems were developed and tested. Finally, a five class scheme was applied for scoring the level of resistance. A major QTL was detected based on a previously constructed genetic map and data from six independent resistance tests in the climate chamber and one rating of natural infections in the field. The QTL is located on linkage group 14 (Rgb1) and explained up to 21.8 % of the phenotypic variation (LOD 10.5). A second stable QTL mapped on linkage group 16 (Rgb2; LOD 4.2) and explained 8.5 % of the phenotypic variation. These two QTLs together with several minor QTLs observed on the integrated map indicate a polygenic nature of the black rot resistance in ‘Börner’. A detailed genetic map is presented for the locus Rgb1 with tightly linked markers valuable for the development for marker-assisted selection for black rot resistance in grapevine breeding.     

Assessing the importance of genotype × environment interaction for root traits in rice using a mapping population II: conventional QTL analysis

Modifying plant root systems is considered a means of crop improvement targeted to low-resource environments, particularly low nutrient and drought-prone agriculture. The identification of quantitative trait loci (QTLs) for root traits has stimulated marker-assisted breeding to this end, but different QTLs have been detected in different populations of the same species, and importantly, in the same population when grown in different experimental environments. The presence of QTL × environment interaction is implicated, and this must be characterised if the utility of the target QTLs is to be realised. Previous attempts to do this suffer from a lack of control over replicate environments and inadequate statistical rigour. The Bala × Azucena mapping population was grown in two replicate experiments of four treatment environments, a control, a low light, a low soil nitrogen and a low soil water treatment. After a 4 weeks growth, maximum root length, maximum root thickness, root mass below 50 cm, total plant dry mass, % root mass and shoot length were measured. A summary of the overall results is presented in an accompanying paper. Here, QTL analysis by composite interval mapping is presented. A total of 145 QTLs were detected, mapping to 37 discrete loci on all chromosomes. Superficial evidence of QTL × E (great difference in LOD score) was tested by single-marker analysis which confirmed QTL × E for five loci representing only five individual trait-loci interactions. Some loci appeared to be stable across environments. Some QTLs were clearly more or less active under low light, low nitrogen or drought. A few notable loci on chromosomes 1, 2, 3, 5, 7 and 9 are briefly discussed. Also discussed are some remaining statistical shortcomings that will be addressed in another companion paper.     

Ovule rescue efficiency of Gossypium hirsutum × G. arboreum progeny from field-grown fruit is affected by media composition and antimicrobial compounds

Upland cotton (Gossypium hirsutum L.) is reproductively isolated from G. arboreum L. via post-zygotic breeding barriers. Literature on somatic embryogenesis of cotton suggests a number of media modifications that might also prove useful for ovule rescue of interspecific crosses. Additionally, endogenous microbes are common in field grown cotton and these potential contaminants must be controlled if interspecific progeny are to be obtained via large-scale field crossing followed by ovule or embryo culture. This study compared nine tissue culture media and two antimicrobial overlay treatments in a factorial design. The overlay treatments were: a 2 ml overlay of 250 mg l⁻¹ cefotaxime, 50 mg l⁻¹ tetracycline HCl, 2.5 mg l⁻¹ amphotericin B, and 50 mg l⁻¹ benomyl applied when the ovules were plated, and no overlay. All of the media in the factorial also contained 250 mg l⁻¹ cefotaxime. Crosses were made in a field at Stoneville, MS between the upland cultivar DeltaPine 90 and the G. arboreum accession A₂-190. Antimicrobial compounds greatly improved the efficiency of obtaining interspecific cotton progenies from field-grown fruit. Germination was not affected by the overlay nor did overlay treatment interact with media. Media significantly affected germination. Of the media studied, the highest frequency of germination was observed for MSB with 1.9 g l⁻¹ additional KNO₃. The addition of 0.5 g l⁻¹ asparagine and 1 g l⁻¹ glutamine did not affect the number of seedlings obtained. A filter paper growing surface or the addition of 0.5 mg l⁻¹ NAA and 0.05 mg l⁻¹ kinetin were disadvantageous.     

Analysis of the methylated ‘cap’ structures of vaccinia mRNA by two-dimensional thin-layer chromatography

Two different twodimensional cellulose thinlayer separations for blocked, methylated mRNA 5-termini are described. They allow rapid analysis even of complex mixtures of mRNA cap structures on the basis of their methyl group content and base composition. These simple procedures are especially useful for the analysis of [³H-methyl]-labeled mRNA in combination with tritium fluorography. A qualitative and quantitative analysis of the methylated cap structures of in vitro labeled Vaccinia core mRNA is presented. The presence of methylated cap structures in Vaccinia RNA increases the in vitro translation efficiency of methylated Vaccinia RNA over Vaccinia RNA transcribed in the absence of a methyl group donor.     

Expression patterns of several floral genes during flower initiation in the apical buds of apple (Malus × domestica Borkh.) revealed by in situ hybridization

The apple (Malus?×?domestica Borkh.) is one of the commercially important fruit crops in the worldwide. The apple has a relatively long juvenile period (up to 4?years) and a long reproductive period between the flower initiation and the mature fruit (14?C16?months), which prevent the fruit breeding. Therefore, the understanding of the flowering system is important to improve breeding efficiency in the apple. In this study, to examine the temporal and spatial expression patterns of the floral genes, MdTFL1, MdAP1 (MdMASD5), AFL2, and MdFT, we conducted in situ hybridization analysis in the apple shoot apex. In vegetative phase, MdTFL1 was expressed on the rib meristem zone. When vegetative meristem began converting into inflorescence meristem, the expression level of MdTFL1 was drastically decreased. At the early stage of inflorescence meristem, the expression levels of AFL2, MdFT, and MdAP1 were up-regulated in the leaf primordia and the upper region of cell layers on the shoot apex. In late stage, the expression levels of AFL2 and MdAP1 were up-regulated in the young floral primordia. At a more advanced stage, high expression of MdAP1 was observed in the inflorescence primordium through the inner layer of sepal primordia and the outer layer of receptacle primordia and floral axis. Our results suggest that AFL2, MdFT, and MdAP1 affect to convert from the vegetative meristem into the inflorescence meristem after the decline of MdTFL1 expression. After that, AFL2 and MdAP1 promote the formation of the floral primordia and floral organs.     

One-step reconstruction of multi-generation pedigree networks in apple (Malus × domestica Borkh.) and the parentage of Golden Delicious

The increasing availability of genomic tools improves our ability to investigate the patterns of genetic diversity and relatedness among individuals. The pedigrees of many apple cultivars are completely unknown, often reducing the efficiency of breeding programs. Using a multilocus simple sequence repeat dataset, we applied a novel multi-generation pedigree-network reconstruction procedure based on the software FRANz in a Malus × domestica collection (101 cultivated and 22 wild apples) with partially known pedigree relationships. The procedure produced 78 parent–offspring relationships organized into three networks and showed high power for detecting real pedigree links (98.5 %) and a low false-positive rate (9.0 %). The largest reconstructed pedigree network spanned four generations and involved 65 cultivars. The availability of detailed pedigree connections confirmed that recent genealogical relationships affect population genetic structure in apple. Finally, our analysis enabled us to confirm or discard several pedigrees known only anecdotically, among which the cultivar Grimes Golden was validated as a parent of the widely grown cultivar Golden Delicious. The pedigree reconstruction protocol here described will be of broad applicability to other collections and crop species.     

Detection of the isoflavone aglycones genistein and daidzein in urine using solid-phase microextraction–high-performance liquid chromatography–electrospray ionization mass spectrometry

An improved method of detection of the isoflavone aglycones, genistein and daidzein, is reported using solid-phase microextraction–high-performance liquid chromatography–electrospray ionization mass spectrometry (SPME–HPLC–ESI-MS). Extraction of the isoflavonoids from urine using SPME with a Carbowax–templated resin fiber coating allows rapid preconcentration of the analytes without the usual sample preparation required by other methods. Detection of the analytes is accomplished by HPLC–ESI-MS. Analysis of spiked samples of urine resulted in a linear range of 0.25 to 250 ng/ml for daidzein and 0.27 to 27.0 ng/ml for genistein. Limits of detection of daidzein and genistein were measured at 25.4 pg/ml for daidzein and 2.70 pg/ml for genistein. Daidzein and genistein were detected in urine following consumption of a soy drink.