Single nucleotide polymorphism analysis on chicken extracelluar fatty acid binding protein gene and its associations with fattiness trait

Fattiness is an important parameter to estimate meat quality, which has high heritability. In this experiment, F2 chickens derived from Broilers crossing to Silky were used to study the effect of extracellular fatty acid binding protein (EX-FABP) gene on abdominal fat accumulation. 1.6 kb of the 5' region of the gene was amplified by six pairs of primers, and then single nucleotide polymorphisms (SNPs) were detected by the technique of single strand conformation polymorphism (SSCP) and then confirmed by sequencing. There were four nucleotides variations found, A-G at -1807, C-A at -1805, T-C at -1011 and a C insertion at -1000 respectively. The result of least square analysis suggests that the birds with BB genotype defined by the second pair of primer have a higher abdominal fat weight and abdominal fat percentage than the birds with the other genotypes (AA and AB). It implied that EX-FABP gene could be a candidate locus or linked to a major gene to significantly affect abdominal fat traits in chicken.     

Detection of Quantitative Trait Loci for Yield and Drought Tolerance Traits in Soybean Using a Recombinant Inbred Line Population

To investigate the genetic basis of drought tolerance in soybean （Glycine max L. Merr.） a recombinant inbred population with 184 F2：7：11 lines developed from a cross between Kefengl （drought tolerant） and Nannong1138-2 （drought sensitive） were tested under water-stressed and well-watered conditions in field and greenhouse trials. Traits measured included leaf wilting coefficient, excised leaf water loss and relative water content as indicators of plant water status and seed yield. A total of 40 quantitative trait loci （QTLs） were identified： 17 for leaf water status traits under drought stress and 23 for seed yield under well-watered and drought-stressed conditions in both field and greenhouse trials. Two seed yield QTLs were detected under both well-watered and drought-stressed conditions in the field on molecular linkage group H and Dlb, while two seed yield QTLs on molecular linkage group C2 were found under greenhouse conditions. Several QTLs for traits associated with plant water status were identified in both field and greenhouse trials, including two leaf wilting coefficient QTLs on molecular linkage group A2 and one excised leaf water loss QTL on molecular linkage group H. Phenotypic correlations of traits suggested several QTLs had pleiotropic or location-linked associations. These results will help to elucidate the genetic basis of drought tolerance in soybean, and could be incorporated into a marker-assisted selection breeding program to develop high-yielding soybean cultivars with improved tolerance to drought stress.     

Single nucleotide polymorphisms in chicken lmbr1 gene were associated with chicken growth and carcass traits

Lmbr1 is the key candidate gene controlling vertebrate limb development, but its effects on animal growth and carcass traits have never been reported. In this experiment, lmbr1 was taken as the candi-date gene affecting chicken growth and carcass traits. T/C and G/A mutations located in exon 16 and one A/C mutation located in intron 5 of chicken lmbr1 were detected from Silky, White Plymouth Rock broilers and their F2 crossing chickens by PCR-SSCP and sequencing methods. The analysis of vari-ance (ANOVA) results suggests that T/C polymorphism of exon 16 had significant association with eviscerated yield rate (EYR), gizzard rate (GR), shank and claw rate (SCR) and shank girth (SG); A/C polymorphism of intron 5 was significantly associated with SCR, liver rate and head-neck weight (HNW), while both sites had no significant association with other growth and carcass traits. These results demonstrate that lmbr1 gene could be a genetic locus or linked to a major gene significantly affecting these growth and carcass traits in chicken.     

Quantitative resistance against Bemisia tabaci in Solanum pennellii: Genetics and metabolomics

The whitefly Bemisia tabaci is a serious threat in tomato cultivation worldwide as all varieties grown today are highly susceptible to this devastating herbivorous insect.Many accessions of the tomato wild relative Solanum pennellii show a high resistance towards B. tabaci. A mapping approach was used to elucidate the genetic background of whiteflyresistance related traits and associated biochemical traits in this species. Minor quantitative trait loci(QTLs) for whitefly adult survival(AS) and oviposition rate(OR) were identified and some were confirmed in an F2BC1 population, where they showed increased percentages of explained variance(more than 30%). Bulked segregant analyses on pools of whiteflyresistant and-susceptible F2 plants enabled the identification of metabolites that correlate either with resistance or susceptibility. Genetic mapping of these metabolites showed that a large number of them co-localize with whiteflyresistance QTLs. Some of these whitefly-resistance QTLs are hotspots for metabolite QTLs. Although a large number of metabolite QTLs correlated to whitefly resistance or susceptibility, most of them are yet unknown compounds and further studies are needed to identify the metabolic pathways and genes involved. The results indicate a direct genetic correlation between biochemical-based resistance characteristics and reduced whitefly incidence in S. pennellii.     

Diversity characterization and association analysis of agronomic traits in a Chinese peanut （Arachis hypogaea L.） mini-core collection

Association mapping is a powerful approach for exploring the molecular basis of phenotypic variations in plants. A peanut （Arachis hypogaea L.） mini-core collection in China comprising 298 accessions was genotyped using lo9 simple sequence repeat （SSR） markers, which identified 554 SSR alleles and phenotyped for 15 agronomic traits in three different environments, exhibiting abundant genetic and phenotypic diversity within the panel. A model-based structure analysis assigned all accessions to three groups. Most of the accessions had the relative kinship of less than o.05, indicating that there were no or weak relationships between accessions of the mini- core collection. For 15 agronomic traits in the peanut panel, generally the Q ＋ K model exhibited the best performance to eliminate the false associated positives compared to the Q model and the general linear model-simple model. In total, 89 SSR alleles were identified to be associated with 15 agronomic traits of three environments by the Q＋K model-based association analysis. Of these, eight alleles were repeatedly detected in two or three environments, and 15 alleles were commonly detected to be associated with multiple agronomic traits. Simple sequence repeat allelic effects confirmed significant differences between different genotypes of these repeatedly detected markers. Our results demonstrate the great potential of integrating the association analysis and marker-assisted breeding by utilizing the peanut mini-core collection.     

Epistatic effect between ACACA and FABP2 gene on abdominal fat traits in broilers

Epistasis is generally defined as the interaction between two or more genes or their mRNA or protein products to influence a single trait. Experimental evidence suggested that epistasis could be important in the determination of the genetic architecture of complex traits in domestic animals. Acetyl-coenzyme A carboxylase alpha (ACACA) and fatty acid binding protein 2 (FABP2) are both key factors of lipogenesis and transport. They may play a crucial role in the weight variability of abdominal adipose tissue in the growing chicken. In this study, the polymorphisms of c.2292GA in ACACA and c.-561AC in FABP2 were detected among individuals from two broiler lines which were divergently selected for abdominal fat content. Epistasis between the two SNPs on abdominal fat weight (AFW) and abdominal fat percentage (AFP) was analyzed. The additive × additive epistatic components between these two SNPs were found significant or suggestively significant on both AFW and AFP in lean lines of the 9th and 10th generation; whereas, it was not significantly associated with either AFW or AFP in fat lines. At the same time, there were not any other significant epistatic components found in both generations or in both lines. Significant epistatic effects between these two SNPs found only in the lean lines could partly be due to the fact that the abdominal fat traits in these two experimental lines have been greatly modified by strong artificial selection. The results suggested that the epistasis mode may be different between the lean and fat chicken lines. Our results could be helpful in further understanding the genetic interaction between candidate genes contributing to phenotypic variation of abdominal fat content in broilers.     

Simple sequence repeat genetic linkage maps of A-genome diploid cotton (Gossypium arboreum)

This study introduces the construction of the first intraspacific genetic linkage map of the A-genome diploid cotton with newly developed simple sequence repeat (SSR) markers using 189 F2 plants derived from the cross of two Asiatic parents were detected using 6 092 pairs of SSR primers. Two-hundred and sixty-eight pairs of SSR pdmers with better polymorphisms were picked out to analyze the F2 population. In total, 320 polymorphic bands were generated and used to construct a linkage map with JoinMap3.0. Two-hundred and sixty-seven loci, Including three phenotypic traits were mapped at a logarithms of odds ratio (LOD) ≥ 3.0 on 13 linkage groups. The total length of the map was 2 508.71 cM, and the average distance between adjacent markers was 9.40 cM. Chromosome assignments were according to the association of linkages with our backbone tetraploid specific map using the 89 similar SSR loci. Comparisons among the 13 suites of orthologous linkage groups revealed that the A-genome chromosomes are largely collinear with the At and Dt sub-genome chromosomes. Chromosomes associated with inversions suggested that allopolyploidization was accompanied by homologous chromosomal rearrangement. The inter-chromosomal duplicated loci supply molecular evidence that the A-genome diploid Asiatic cotton is paleopolyploid.     

Assessing the Suitability of Various Physiological Traits to Screen Wheat Genotypes for Salt Tolerance

Success of improving the salt tolerance of genotypes requires effective and reliable screening traits in breeding programs. The objective was to assess the suitability of various physiological traits to screen wheat genotypes for salt tolerance. Thirteen wheat genotypes from Egypt, Germany, Australia and India were grown in soil with two salinity levels （control and 150 mmol/L NaCI） in a greenhouse. The physiological traits （ion contents in leaves and stems, i.e. Na^＋, Cl^-, K^＋, Ca^2＋）, the ratios of K^＋/Na^＋ and Ca^＋/Na^＋ in the leaves and stems, net photosynthesis rate, stomatal conductance, transpiration rate, chlorophyll content （SPAD value）, and leaf water relations, were measured at different growth stages. The physiological traits except for Na^＋ and Cl^- in stems and the leaf transpiration rate at 150 mmol/L NaCI showed a significant genotypic variation, indicating that the traits that have a significant genotypic variation may be possibly used as screening criteria. According to the analysis of linear regression of the scores of the physiological traits against those of grain yield, however, the physiological traits of Ca^2＋ and Ca2^＋/Na^＋ at 45 d and final harvest with the greatest genotypic variation were ranked at the top. From a practical and economic point of view, SPAD value should be considered to be used as screening criteria and/or there is a need to develop a quick and practical approach to determine Ca^2＋ in plant tissues.     

Assessing the Suitability of Various Physiological Traits to Screen Wheat Genotypes for Salt Tolerance

Success of improving the salt tolerance of genotypes requires effective and reliable screening traits in breeding programs.The objective was to assess the suitability of various physiological traits to screen wheat genotypes for salt tolerance.Thirteen wheat genotypes from Egypt,Germany,Australia and India were grown in soil with two salinity levels(control and150mmol/L NaCl)in a greenhouse.The physiological traits(ion contents in leaves and stems,i.e.Na~ ,Cl~-,K~ ,Ca~(2 )),theratios of K~ /Na~ and Ca~ /Na~ in the leaves and stems,net photosynthesis rate,stomatal conductance,transpiration rate,chlorophyll content(SPAD value),and leaf water relations,were measured at different growth stages.The physiologicaltraits except for Na~ and Cl~-in stems and the leaf transpiration rate at 150 mmol/L NaCI showed a significant genotypicvariation,indicating that the traits that have a significant genotypic variation may be possibly used as screening criteria.According to the analysis of linear regression of the scores of the physiological traits against those of grain yield,however,the physiological traits of Ca~(2 )and Ca~(2 )/Na~ at 45 d and final harvest with the greatest genotypic variation were ranked atthe top.From a practical and economic point of view,SPAD value should be considered to be used as screening criteriaand/or there is a need to develop a quick and practical approach to determine Ca~(2 )in plant tissues.     

Preclinical AIDS vaccine research: survey of SIV,SHIV, and HIV challenge studies in vaccinated nonhuman primates

This current supplementary and systematic survey of 237 preclinical AIDS vaccine challenge/protection studies in nonhuman primates enumerates and broadly describes the recent status of different vaccine strategies in macaque and chimpanzee experimental models. Published studies since the previous survey were compiled and categorized by their vaccine types, challenge parameters, and challenge results. These models have supportively verified that some prophylactic vaccine approaches, though rarely preventing infection (which is observed in these models with some passively administered antibody-based vaccines), can control to some degree primate lentivirus replication and disease development, and this is encouraging because it places more potentially effective immunogens on the precipice for early clinical studies. Many of these promising approaches may benefit from more testing in mucosal challenge models, and resources will be needed to follow more of these partially protected vaccinees for longer periods.     

Cortical microtubule organization in Vitis protoplasts as affected by concentration of enzyme isolation medium and duration of incubation

Protoplasts of Vitis rotundifolia Michx. cv. Summit were isolated from mesophyll of axenic shoot cultures under different enzyme concentrations and digestion times. Viability and plating efficiency were assessed and related to the cortical microtubule network, visualized using immunofluorescence. Higher concentrations of enzyme isolation medium significantly decreased protoplast viability and plating efficiency. However, the cortical microtubule network appeared stable, at all concentrations with dense, continuous microtubule strands in both random and parallel arrays. In contrast, longer vs shorter enzyme incubation duration resulted in significantly lower plating efficiency, which was correlated with changes in cortical microtubule organization. With longer incubation, the frequency of parallel microtubule strands decreased; microtubule organization showed increasing disruption, microtubule strands were shortened, fragmented and exhibited only a weak fluorescence labeling. Both high enzyme concentration and prolonged incubation periods negatively affected protoplast regenerability, but in different ways. Microtubule organization was sensitive to duration of incubation, but not to enzyme concentration. It is concluded that the presence of a well-developed cortical microtubule network does not gurantee regeneration. Other factors related to isolation appear to be involved.     

Chelator-assisted phytoextraction of arsenic,cadmium and lead by Pteris vittata L. and soil microbial community structure response

Abstract

Using biodegradable chelators to assist in phytoextraction may be an effective approach to enhance the heavy-metal remediation efficiencies of plants. A pot experiment was conducted to investigate the effects of ethylenediamine disuccinic acid (EDDS), citric acid (CA), and oxalic acid (OA) on the growth of the arsenic (As) hyperaccumulator Pteris vittata L., its arsenic (As), cadmium (Cd), and lead (Pb) uptake and accumulation, and soil microbial responses in multi-metal(loid)-contaminated soil. The addition of 2.5-mmol kg^?1 OA (OA-2.5) produced 26.7 and 14.9% more rhizoid and shoot biomass, respectively compared with the control, while EDDS and CA treatments significantly inhibited plant growth. The As accumulation in plants after the OA-2.5 treatment increased by 44.2% and the Cd and Pb accumulation in plants after a 1-mmol kg^?1 EDDS treatment increased by 24.5 and 19.6%, respectively. Soil urease enzyme activities in OA-2.5 treatment were significantly greater than those in the control and other chelator treatments (p?<?0.05). A PCR–denatured gradient gel electrophoresis analysis revealed that with the addition of EDDS, CA and OA enhanced soil microbial diversity. It was concluded that the addition of OA-2.5 was suitable for facilitating phytoremediation of soil As and did not have negative effects on the microbial community.     

Metal phthalocyanine substituted hemoglobins. Complexes of manganese and zinc tetrasulfonated phthalocyanines with apohemoglobin

Artificial hemoglobins have been prepared with Mn(III) and Zn(II) tetrasulfonated phthalocyanines in place of heme. Their structure and properties have been investigated by difference spectroscopy, CD, epr, electrophoresis, and molecular weight estimation.Spectrophotometric titration data indicate the ratio of the reagents in this process to be 1:1. The visible absorption spectra show the main peak at 625 nm for the manganese compound and 681 nm for the zinc one. It is evident from CD experiments that incorporation of Mn(III)L into apohemoglobin increases helical content of the protein whereas that of Zn(II)L increases its unfolding due to the change of electronic configuration of Zn(II) ion on coordination with the protein.On the basis of spectroscopic and epr data, the formula of the manganese complex is suggested to be (O)Mn(IV)L-globin, whereas that of the zinc complex Zn(II)L-globin. Electrophoresis and molecular weight estimation indicate both complexes to be dimers.Manganese complex binds additional ligands as CN^?, imidazole, CO, and NO. Spectroscopic and epr data indicate reduction of the manganese complex and formation of the NO adduct with probable formula (NO)⁺Mn(II)L-globin. Mechanism of this process is suggested.Both phthalocyanine globins are not able to combine reversibly with oxygen and cannot act as physiological oxygen carriers.     

Copper amine oxidases: Current state of knowledge

Summary A brief review on the structure nd functions of the copper-pyrroloquinoline quinone amine oxidases is presented. Data concerning the metal and organic cofactors are reported, giving special emphasis to their structural relationship with the protein molecule and mechanistic properties. Information on the functional role of these enzymes with respect to polyamine metabolism are also given.     

Manganese (III) phthalocyanine-substituted cytochrome c

Manganese phthalocyanine-substituted cytochrome c has been prepared by the reaction of Mn(III) tetrasulfonated phthalocyanine with apocytochrome c in acetate buffer, pH 5.8. Its structure and properties have been investigated by difference spectroscopy, circular dichroism (cd), electron paramagnetic resonance (epr), electrophoresis, molecular weight estimation, and potentiometric measurements. The epr and spectroscopic data show that the manganese phthalocyanine-substituted cytochrome c represents the low spin, six-coordinated. Mn(Ill) complex with the metal ion in the plane of the phthalocyanine ring. The sixth ligand, which is coordinated axially to the metal ion, is probably the methionine-80. Electrophoresis and molecular weight studies show this complex to be a monomer. As is shown by cd experiments, Mn(III)L-apocyt has a more ordered structure than that of apocytochrome c. Its conformation is, however, significantly altered compared to native cytochrome c. The manganese(III)-phthalocyanine complex is able to combine with cyanide. The cyanide derivative gives a stable reduced form upon dithionite reduction. If, however, Mn(IlI)Lapocyt is reduced with dithionite before addition of cyanide, it loses its ability to coordinate with cyanide. Nitric oxide reacts with the manganese(III) complex to form, in all probability, the nitrosyl derivative. The half-reduction potential of Mn(IlI)L-apocyt is about +400 mV, and the complex is reduced by cytochrome c. Spectroscopic data suggest that the mechanism of this process is complicated.     

Invited Review Free Radicals in Foods

During the last decade increasing attention has been given to the role of free radicals in biological oxidations. The subject has been of increasing interest to both the food scientist and the physiologist. Free radical scavengers in the form of both indigenous and added antioxidants are necessary for the successful preservation of food; free radicals are increasingly being implicated in the onset of, among others, ischaemic heart disease and for protection against these diseases it is suggested that the dietary intake of the antioxidant vitamins should be increased especially for diets high in polyunsaturated fats. ^1,2 Convenience and snack foods which absorb substantial amounts of frying oils are being increasingly consumed. Since poly-unsaturated fatty acids are particularly susceptible to oxidation by free radicals during the storage, cooking and frying of foods, the potential risk of exposure to lipid degradation products' is likely to have increased. In foods the non-enzymic and lipoxygenase catalysed oxidation of polyunsaturated fatty acids, β-carotene and vitamin A can result in the loss of essential nutrients and the development of off-flavours.     

Enzymatic digestion of operator DNA in the presence of the lac repressor tryptic core

The trypsin-resistant core protein of the lac repressor was utilized in protecting operator DNA from two types of enzymatic digestion. Core repressor protects and enhances operator DNA digestion by DNase I in the same fashion as intact repressor, though to a lesser degree on the lower strand. DNase I patterns found for the ternary complexes (protein-sugar-operator) were consistent with the expected affinity alterations of the protein species in response to binding these ligands. The 3′ boundaries obtained by exonuclease III digestion for the intact repressor-operator complex varied slightly from those reported by Shalloway et al. (1980). Asymmetric binding to operator by the core repressor fragment was suggested by differences in the 3′ boundary for the core compared to intact repressor on the promoter-distal side of the complex. A composite picture of repressor structure and function emerges from the protection studies reported here and in the accompanying paper. In light of these and other results, models for repressor binding are examined.     

Identification of a human clustered G + C-rich DNA family of repeats (Sau3A family)

Sau3A digestion of human G + C-rich DNA molecules yields discrete bands of approximately 70 and 140 base-pairs, under-represented in A + T-rich DNA molecules and in total DNA. We have cloned the 70 base-pair band in a plasmid vector and isolated a representative recombinant clone that identifies a new human family of repeats, the Sau3A family. The new family has been characterized for a number of parameters: genomic organization; reiteration frequency; sequence analysis; and distribution in a human genomic library. The Sau3A sequence (68 base-pairs in length, 53% G + C) is present in approximately 4 X 10(4) copies/haploid genome; the family is characterized by a cluster organization and is confined to a limited fraction (0.5%) of phages of a human genomic library. Southern blot hybridizations of the cloned sequence to restriction digests of total human DNA and of isolated genomic clones does not show the involvement of Sau3A blocks in long-range periodicities for any of the enzymes tested. The data suggest either a high sequence variability in the family or a complex organization of Sau3A sequence domains.