Associations between DNA markers and resistance to diseases in sugarcane and effects of population substructure

Association between markers and sugarcane diseases were investigated in a collection of 154 sugarcane clones, consisting of important ancestors or parents, and cultivars. 1,068 polymorphic AFLP and 141 SRR markers were scored across all clones. Data on the four most important diseases in the Australian sugarcane industry were obtained; these diseases being pachymetra root rot (Pachymetra chaunorhiza B.J. Croft & M.W. Dick), leaf scald (Xanthomonas albilineans Dowson), Fiji leaf gall (Fiji disease virus), and smut (Ustilago scitaminea H. & P. Sydow). By a simple regression analysis, association between markers and diseases could be readily detected. However, many of these associations were due to the effects of embedded population structure and random effects. After taking population structure into account, we found that 59% of the phenotypic variation in smut resistance ratings could be accounted for by 11 markers, 32% of variation for leaf scald and pachymetra root rot rating by 4 markers, and 26% of Fiji leaf gall by 5 markers. The results suggest that marker–trait associations can be readily detected in populations generated from modern sugarcane breeding programs. This may be due to special features of past sugarcane breeding programs leading to persistent linkage disequilibrium in modern parental populations.Electronic supplementary material Supplementary material is available in the online version of this article at and is accessible for authorized users.     

Producing commercially attractive,uniform true potato seed progenies: the influence of breeding scheme and parental genotype

The production of attractive, uniform true potato seed (TPS) progenies was investigated. Four breeding schemes were compared: intercrossing tetraploid cultivars (cv x cv); doubled dihaploids x cultivars (ddh x cv); cultivars x diploid unreduced-gamete producers (cv x FDR) and doubled dihaploids x diploid unreduced-gamete producers (ddh x FDR). Fifty three progenies and five clones were grown in a glasshouse in a randomised complete block design with three replicates of 25 plants per progeny and clone. Each plant's tubers were counted and the colour, shape, quality of skin finish, flesh colour, and commencai attractiveness (which includes yield) recorded. The most uniform progenies were also selected by visual comparison with the clones. For mean attractiveness, differences (P < 0.001) between breeding schemes and between progenies within breeding schemes were detected. The cv x cv and cv x FDR progenies were more attractive than clonal controls. There were significant additive and non-additive effects for attractiveness in all breeding schemes except cv x FDR. There were between-progeny differences (P < 0.001) for uniformity for all characters. Progenies uniform for one character could be variable for other traits. Breeding schemes gave different levels of uniformity (P < 0.001) for all characters except shape and flesh colour, but none gave low levels of variation for all traits. Doubled-dihaploid parents increased the variation in progenies. There were uniformity differences (P < 0.001) between progenies within breeding schemes for all characters. Evidence of additive and nonadditive genetic variation for uniformity in all traits was detected. In each breeding scheme, parents with good general combining ability (GCA) for uniformity in several characters were identified. Visually selected uniform progenies had parents with good GCAs for uniformity in a range of traits and high specific combining abilities (SCAs) for several traits. A desynaptic first-division restitution (FDR) clone and a male-sterile doubled-dihaploid clone had the best GCAs for tuber uniformity in TPS progenies. Achieving multitrait uniformity in TPS is problematic but may be aided by the selection of parents with GCAs for uniformity coupled with progeny testing to allow for non-additive effects.     

Genetic differentiation between clone collections and natural populations of European black poplar (<Emphasis Type="Italic">Populus nigra</Emphasis> L.) in turkey

The European black poplar (Populus nigra L.) is an ecologically and economically important tree species for Turkey. The important and major genetic resources of species for future breeding and ex situ conservation purposes have been archived in a clone bank in Ankara by selecting clones from natural populations and old plantations throughout Turkey. There is no study to date assessing genetic composition these materials. Two-hundred-thirty-three P. nigra clones from six geographic region of Turkey (clone collection populations), and 32 trees from two natural populations (Tunceli and Melet) were genotyped by using 12 nuclear microsatellite DNA markers. There were nine clones which duplicated in various frequencies. The analysis carried out with removal of the duplicated clones revealed a moderately high genetic diversity in studied populations. The observed heterozygosities ranged from 0.59 in Tunceli natural to 0.69 in Central Anatolia clone collection populations. In general, there was excess of heterozygosity in the studied populations. Populations composed of clone collections were significantly differentiated from natural populations (F _ST = 0.17), while there was little differentiation among those populations in the clone collection (F _ST = 0.03). Two distantly located natural populations with small sizes also differed from each other (F _ST = 0.17). Genetic structure analysis revealed two distinct groups (clone collection vs natural populations) with very high membership values (>92%). Clone collection populations had high level of admixture while natural populations had homogenous genetic structure. The presence of large number of clonal duplication, reduced genetic differentiation, and high level of admixture in clone collection populations indicate that genetic resources of European black poplar were highly degraded through genetic erosion and pollution caused by intensive cultural practices and extensive dispersal of clonal materials. To understand genetic diversity and its structural pattern thoroughly in the six clone collection populations, a further study with extensive and systematic sampling of European black poplar populations in major river ecosystems in Turkey will be useful.     

The effect of environmental colour on the growth,metabolism, physiology and skin pigmentation of the carnivorous freshwater catfish Lophiosilurus alexandri

The growth, physiology and skin pigmentation of pacamã Lophiosilurus alexandri juveniles were evaluated in an experiment using different tank colours (white, yellow, green, blue, brown and black) over an 80 day period. The tank colours did not cause significant differences to final body mass, total length, survival rate, carcass composition (moisture, crude protein, ash, ether extract, calcium, phosphorus, energy), or to plasma protein, triglyceride and cholesterol values. Haematocrit values, however, were highest for fish kept in white tanks (ANOVA P < 0·05), while the greatest haemoglobin levels were recorded for fish kept in blue and brown tanks (P < 0·01). The concentrations of cortisol (P < 0·001) and glucose (P < 0·01) were the most in fish in the black tanks. Tank colour affected skin pigmentation significantly, with fish in white tanks having the highest values of L* (brightness) and the lowest values in blue and black tanks. L*, however, decreased in all treatments throughout the experiment. C*_ab increased significantly over the course of the experiment in fish kept in white tanks. Similar increases of C*_ab were recorded in the other treatments but to a lesser extent. The use of black tanks during the cultivation of L. alexandri caused stress and should be avoided. Cultivation in white and yellow tanks produced individuals with a pale skin colour, while cultivation in blue and black tanks resulted in juveniles with a darker and more pigmented skin.     

黑木相思优良无性系叶片数量性状与生长评价

为合理利用种质资源,对5年生黑木相思(Acacia melanoxylon)无性系试验林中9个优良无性系(F1、SR3、SR9、SR14、SR17、SR18、SR25、SR38、SR41)开展叶片和生长性状的遗传变异研究,采用模糊数学隶属函数值法进行综合评价。结果表明,9个无性系叶片在形态、结构、化学性状都存在显著差异,以形态性状变异系数最大,其中叶面积(LA)和叶宽(LW)可作为直观区别无性系的可靠指标。SR18、SR17和SR14号无性系的树高(H)和胸径(DBH)生长具有显著优势。相关性分析表明,LW与H,LW、LA、比叶面积(SLA)与DBH呈显著线性关系,而叶长(LL)、干物质量(LDMC)、C、N、P、C/N和N/P与H和DBH相关性弱。隶属函数综合评价排名前4位的是SR17、SR18、SR41、SR14,可作为直接生产和后续育种工作的有效资源加以应用。     

地方果蔗品种种质资源形态与农艺性状的多样性分析

为开发利用地方果蔗(Saccharum officinarum)的种质资源, 对42 份地方果蔗种质资源18 个质量性状的遗传多样性进行研究, 并对其农艺性状进行了聚类分析。结果表明, 各质量性状的遗传多样性指数均较大, 以曝光后节间颜色(2.074)和芽形状(2.011)的最高, 其次是叶鞘毛群、芽位、曝光前节间颜色、节间形状, 多样性指数为1.428~1.6153;再次为叶姿、蜡粉带、内叶耳形状, 多样性指数为1.1918~1.2869, 最小的为茎形、脱叶性和外叶耳, 皆为0.3712。聚类分析可将42 份地方果蔗种质资源划分为高杆密生型、中径中高型、中大径高杆型、矮杆稀疏型4 类。这为果蔗品种选育提供了科学依据。     

Variation and genetic parameters of fruit colour and polyphenol composition in an apple seedling population segregating for red leaf

Red flesh colour is a relatively new target for apple breeding programmes and understanding genetic relationships between this trait and other fruit characters, including polyphenol compounds, is important for both breeders and marketers of new red flesh cultivars. In this study, fruit peel and flesh colours and concentrations of up to 20 individual fruit polyphenols within each tissue were examined in fruit harvested from a 14-family apple seedling population segregating for red and green leaf. Red leaf seedlings always produced red flesh fruit that varied from pale red to complete dark red cortical tissue (type 1 red flesh). Some (20 %) of green leaf seedlings also produced fruit with red flesh, albeit at low intensity (type 2 red flesh). Cyanidin 3-O-galactoside was the dominant anthocyanin in both fruit tissues, with concentrations being 1,900 times higher in the flesh and 2.5 times higher in the peel of fruit from red than from green leaf seedlings. Red leaf seedlings also had 59 % more flesh epicatechin and 17 % less total peel flavonols, but other polyphenols were not associated with leaf colour. Heritability estimates for red flesh colour, flesh cyanidin 3-O-galactoside, flesh and peel catechins were high in red leaf and low in green leaf seedlings. Conversely, estimates for red peel coverage and two peel anthocyanins were higher in green compared to those from red leaf seedlings. Other than these, heritability estimates were high only for dihydrochalcones and hydroxycinnamic acids from each tissue for both leaf colours but low for all other flesh and peel flavan-3-ols, procyanidins and most peel flavonols irrespective of leaf colour. Genetic correlations between polyphenol compounds varied considerably, but were broadly similar for red and green leaf seedlings. Genetic correlations were mostly moderate to high between compounds of the same metabolic group, but low between compounds from different groups. These results are discussed in relation to the genetic control of flesh colour and polyphenol accumulation in apple, as well as to implications for breeding red flesh apples with altered polyphenol composition.     

ESTIMATION OF GLYCOLIPIDS IN FOUR SELECTED LOBES OF HUMAN BRAIN IN NEUROLOGICAL DISEASES1

Glycolipid (ganglioside, cerebroside and cerebroside sulphate) and cholesterol concentrations for cerebral grey matter from frontal, occipital, temporal and hippocampal lobes of patients with neurological diseases (Alzheimer's disease, senile dementia, cerebrocortical atrophy, schizophrenia and chronic alcoholism) and controls are reported. The results indicate that the concentrations of these lipids are not uniform in the different lobes of both diseased and control brains. The concentrations of the cerebrosides and cerebroside sulphates were generally highest in the occipital lobe and lowest in the frontal lobe; ganglioside N-acetymeuraminic acid (NANA) concentrations on the other hand were lowest in the occipital lobe and highest in the frontal lobe. About one-half of the total NANA was found in the lipid-free residues. There was a general decrease in the concentrations of the glycolipids in the grey matter from the frontal, temporal and hippocampal lobes of brain obtained from patients with neurological diseases (the chronic alcoholic being excluded) below the control values from patients with no known neurological diseases. The cholesterol concentrations in the schizophrenic and alcoholic brains were reduced slightly in all the lobes studied. The general decrease in the glycolipid concentration in the diseased brain may indicate the extent of cortical degeneration.     

Analysis of airborne pollen in the town of Almería (South-East Spain), 1995–1996

The first results are presented of an aerobiological analysis of the atmosphere of the town of Almería, carried out between November 1995 and October 1996. A Lanzoni volumetric spore trap was used for sample collection. The composition and seasonal evolution of the pollen spectrum were determined over a 1-year period in relation to the vegetation and climatic conditions of the study area. Twenty-six pollen types were identified as accounting for >0.05% of the total pollen collected. The main sources of airborne pollen were Palmae (17.76%),Olea (16.10%), Chenopodiaceae/Amaranthaceae (13.99%), Urticaceae (10.18%) and Poaceae (8.64%). The annual pollen variation presented a period of maximum emission from March to June, with a subsequent, less intensive period from August to November. The minimum pollen values were obtained from December to February. The highest concentrations occurred in May, which was also the month which presented the highest pollen diversity, whereas the lowest values were observed in January.     

Identification of the allelic state of the <Emphasis Type="Italic">Lr34</Emphasis> leaf rust resistance gene in soft winter wheat cultivars developed in Ukraine

The distribution of alleles at the Lr34 locus associated with leaf rust resistance has been studied in soft winter wheat (Triticum aestivum L.) cultivars developed in Ukraine. To determine the allelic state of the Lr34 locus, codominant molecular marker cssfr5 has been used. Cultivars with the revealed Lr34(+) and Lr34(−) alleles have been identified as potentially resistant or susceptible, respectively. A collection of 81 cultivars from the main breeding centers of Ukraine has been examined; the Lr34(+) allele has been revealed in 44% of the tested cultivars. The obtained results have been compared with general data on the leaf rust resistance of wheat cultivars from different countries.     

Establishment of a quasi-field trial in <Emphasis Type="Italic">Abies nordmanniana</Emphasis>—test of a new approach to forest tree breeding

This study used DNA markers to establish a quasi-field trial within a production Christmas tree stand produced from seed collected in an open-pollinated clonal seed orchard (CSO). A total of 660 offspring from the CSO, which comprised 99 clones of Abies nordmanniana, were genotyped with 12 microsatellites. Parentage was assigned successfully to 93% and 98% of the progeny at 95% and 80% confidence, respectively. The assignment rate declined only to 90% when the number of markers was reduced to 10. The distribution of parentage to the offspring among the CSO clones was highly skewed. The most successful clone was assigned as parent in 7% of the cases, and only 92 of the 119 potential parental genotypes were assigned as parents. The obtained pedigree was used to estimate breeding values for the CSO clones for five characters relevant for Christmas tree breeding. For high-heritability traits, such as flushing, accurate breeding values could be estimated for a considerable proportion of the clones. To estimate breeding values for low-heritability traits, such as Christmas tree quality score, more genotyped offspring will be required. The largest drawback of the method is the highly skewed distribution of parentage among the parents in the seed orchards, making it difficult to calculate breeding values for all clones. The approach seems well suited for tree breeding that puts more emphasis on pure selection of parental genotypes and less on estimating quantitative genetic parameters.     

Six spectral sensitivity classes in crab visual interneurons

Summary Electrophysiological determination of the spectral sensitivity of units from the retina, optic lobes and brain of the crabParagrapsus gaimardii revealed six major colour types. Single peaks occurred in the UV, blue-green, green and yellow, and further units showed either a broad-band sensitivity or double peaks in the violet and yellow.Many of the curves had broad shoulders and offset peaks, markedly different in shape to curves suggested by Dartnall for rhodopsins with the same peak values, but similar to those previously recorded for other crabs. This finding, allied with limited evidence that a number of the colour types changed one from the other depending on illumination level, suggests that at least some of the colour types may result from a filtering of the light reaching a single retinal type.The UV sensitivity, recorded from brain interneurons, is the highest so far found in crabs.The range of colour types recorded provides a good potential substrate for colour vision. It is therefore of interest that a survey of a total of 105 units provided no evidence for colour opponency.Queen Elizabeth II Fellow in Marine Science, 1978–1979     

Footprints of recent selection and variability in breed composition in the Göttingen Minipig genome

The Göttingen Minipig (GMP) developed at the University of Göttingen is a synthetic breed that is widely used in medical research and toxicology. It combines the high fertility of the Vietnamese potbellied pig, the low body weight of the Minnesota Minipig and the white coat colour of the German Landrace pig. The aim of this study was to find genomic regions that may have undergone selection since the creation of the breed in the 1960s. Therefore, the whole genome was screened for footprints of recent selection based on single nucleotide polymorphism (SNP) genotypes from the Illumina Porcine SNP60 BeadChip using two methods: the extended haplotype homozygosity (EHH) test and the estimation of the genomic proportion of the three original breeds at each SNP using a Bayesian approach. Local deviations from the average genome‐wide breed composition were tested with a permutation‐based empirical test. Results for a comprehensive whole‐genome scan for both methods are presented. Several regions showing the highest P‐values in the EHH test are related to breeding goals relevant in the GMP, such as growth (SOCS2, TXN, DDR2 and GRB10 genes) and white colour (PRLR gene). Additionally, the calculated proportion of the founder breeds diverged significantly in many regions from the pedigree‐based expectations and the genome average. The results provide a genome‐wide map of selection signatures in the GMP, which leads to a better understanding of selection that took place over the last decades in GMP breed development.     

The colour hexagon: a chromaticity diagram based on photoreceptor excitations as a generalized representation of colour opponency

Summary A chromaticity diagram which plots the 3 photoreceptor excitations of trichromatic colour vision systems at an angle of 120° is presented. It takes into acount the nonlinear transduction process in the receptors. The resulting diagram has the outline of an equilateral hexagon. It is demonstrated by geometrical means that excitation values for any type of spectrally opponent mechanism can be read from this diagram if the weighting factors of this mechanism add up to zero. Thus, it may also be regarded as a general representation of colour opponent relations, linking graphically the Young-Helmholtz theory of trichromacy and Hering's concept of opponent colours. It is shown on a geometrical. basis that chromaticity can be coded unequivocally by any two combined spectrally opponent mechanisms, the main difference between particular mechanisms being the extension and compression of certain spectral areas. This type of graphical representation can qualitatively explain the Bezold-Brücke phenomenon. Furthermore, colour hexagon distances may be taken as standardized perceptual colour distance values for trichromatic insects, as is demonstrated by comparison with behavioural colour discrimination data of 3 hymenopteran species.     

Genetic Diversity of Iranian Accessions,Improved Lines of Chickpea (<Emphasis Type="Italic">Cicer arietinum L.</Emphasis>) and Their Wild Relatives by Using Simple Sequence Repeats

Biodiversity information in available germplasm is very useful for the success of any breeding program. To establish genetic diversity among 44 genotypes of chickpea comprising cultigen, landraces, internationally developed improved lines and wild relatives, genetic distances were evaluated using 19 simple sequence repeat markers with 100 marker loci. Estimation of the number of alleles per locus (n _a), the effective allele number (n _e), and Wright fixation index F were 6.25, 3.67, and 0.44, respectively. Polymorphism information content values ranged from 0.84 (locus NCPGR6 and TA135) to 0.44 (locus NCPGR7) with an average of 0.68. Dice’s coefficient similarity matrix for studied chickpea genotypes varied from 0.07 to 1.0 indicating a broader genetic base among genotypes studied. The highest similarity, 1.0, was observed between genotypes Sel 96TH11484 and Sel 96TH11485; while, the lowest, 0.07, was observed between genotypes Sel 95TH1716 and Azad. Based on the UPGMA clustering method, all genotypes were clustered in eight groups, which indicated the probable origin and region similarity of landraces and local Iran landraces over the other cultivars and wild species. It also represents a wide diversity among available germplasm. Analysis of molecular variance revealed that 41% of the total variance was due to differences among groups while 59% was due to differences within groups. The results of principal coordinate analysis approximately corresponded to those obtained through cluster analysis. Genetic variation detected in this study can be useful for selective breeding for specific traits and in enhancing the genetic base of breeding programs.