Selection of odorants for memory tests on the basis of familiarity,perceived complexity,pleasantness, similarity and identification

In a procedure for the selection of two equivalent sets of familiar and two equivalent sets of unfamiliar odours for use in odour memory studies, 24 na?ve subjects were first asked to rate the familiarity, perceived complexity and pleasantness of 54 a priori unfamiliar odours and 57 a priori familiar odours and to identify the latter. After selection of the 40 most familiar and the 40 least familiar odours, the subjects sorted each of these two sets into groups of similar odours. Their results were analysed by multidimensional scaling and cluster analysis and each set was divided into two recognition sets that had the same degree of similarity between target and distractor odours and that had similar values of familiarity, pleasantness, perceived complexity (familiar and unfamiliar sets) and identifiability (familiar sets). Finally, recognition tasks were performed in order to check the equivalence in memory performance of both the two familiar and the two unfamiliar recognition sets.     

Pelagic zonation of water quality and phytoplankton in the Great Lakes

Analysis of aquatic ecosystem data collected from large water bodies must consider spatial variations. A suite of pelagic survey stations exists for the Laurentian Great Lakes, but little is known about their redundancy. We present a strategy to delineate the lakes into zones based on water quality and phytoplankton biovolume. Water samples were collected from 72 sites in two seasons (spring and summer) from 2007 to 2010 in all five lakes. Integrated samples were analyzed for phytoplankton biovolume and nine water quality parameters. We conducted cluster analysis, principal components analysis and non-metric multidimensional scaling methods for water quality and phytoplankton taxon-specific biovolume for the Great Lakes basin and for each lake separately. There were significant lake-to-lake differences, and based on lake-specific analyses, Lake Superior, Lake Michigan and Lake Erie were each divided into three zones; Lake Huron and Lake Ontario were each grouped into two zones. The zones identified by water quality and phytoplankton provide an understanding of spatial distributions for evaluating monitoring data.     

Odour-genes eovariance and differential investigation of individual odours in the Mus species complex

Previous research using habituation techniques has demonstrated that greater genetic similarity between two individuals is associated with more similarity in the qualities of their individual odours ('odour-genes eovariance'). We assessed odour similarities across species in two pairs of genetically close species within the Mus species complex (M. musculus and M. domesticus; M. spicilegus and M. macedonicus). Subjects treated odours within each species pair as similar compared with an odour from the other species pair. Subjects also treated odours of M. spicilegus males from the same population as similar compared with the odour of M. spicilegus males from a different population. This confirms odour-genes eovariance across species and within populations and also supports previous findings that odour similarities are more salient than specific odour markers. When adult males were presented with odours of females from two different heterospecific species, subjects spent more time investigating the odour from his own species pair than the other species pair, indicating greater interest in the odour of the closer heterospecific and demonstrating that odour-genes eovariance is reflected in behavioural responses to odours. Implications of odour-genes eovariance as a basis for identifying degrees of genetic relatedness of unfamiliar individuals through similarities in individual odours are discussed.     

Analyses of multivariately determined community matrices using cluster analysis and multidimensional scaling

Linear discriminant analysis was used to compute the p-variate MACARTHUR-LEVINS and Density Overlap measures of niche overlap between all pairs of 24 passerine bird species. The overlap values for the species pairs were then organized into a community matrix for each approach. The relationships inherent in the community matrices were structured by cluster analysis and non-metric multidimensional scaling. Cluster analysis identified the highly related species groups whereas multidimensional scaling demonstrated community wide relationships. In particular, the scaling approach clearly delineated shrub density and ground cover gradients.     

非度量多维测度及其在群落分类中的应用

排序与聚类分析法是近代最为常用的植被数量分析方法。原理上,排序较之于聚类法,一般具有较为严格的数学基础。在植被研究的应用方面,排序比聚类法能更好反映植被的连续性。同时,在反映植被分类结果上,排序图不仅象聚类树形图一样,使全部实体之间的划分关系得以反映,而且两两实体间的关系可以通过排序图上彼此间的距离比较而得以较好的反映。然而常规的排序方法主要适用于具有线性结构的数据分析,在2—3维排序图上常难以充分反映这些实体的生态学关系,造成大量生态学数据信息的损失。非度量多维测度(Non-metric multidimensional scaling)是近期发展起来的适用于非线性数据结构分析的一种复杂的迭代排序方法。它的基本思想是通过排序,n个实体在尽可能低维(t相似文献   

The responses of Lucilia cuprina to odours from sheep, offal and bacterial cultures

Abstract. The responses of gravid female Lucilia cuprina to odours from sheep urine, faeces and gut mucus, and to odours from liver/sodium sulphide mixtures was tested using a bioassay which measured the movement and probing response of walking flies. The same bioassay was used to test the response to odours from cultures of bacteria isolated from liver/sodium sulphide and liver/water mixtures. A significant movement towards odours from faeces, gut mucus and urine was observed. Odours from cultures of the bacteria Proteus mirabilis, Dermatophilus congolensis and Serratia marcescens also elicited significant movement. A probing response was elicited by odours from gut mucus, fresh urine, liver/sodium sulphide mixtures and cultures of P.mirabilis, D.congolensis and gram-positive species. Odours from cultures of Pseudomonas aeruginosa, Entero-bacter aerogenes and Citrobacterfreundii did not elicit significant movement or probing. The movement and probing responses are discussed with reference to the possible uses of the substances tested as a bait for attracting L.cuprina.     

Social odours, sexual arousal and pairbonding in primates

We describe the role of social odours in sexual arousal and maintaining pairbonds in biparental and cooperatively breeding primates. Social odours are complex chemical mixtures produced by an organism that can simultaneously provide information about species, kinship, sex, individuality and reproductive state. They are long lasting and have advantages over other modalities. Both sexes are sensitive to changes in odours over the reproductive cycle and experimental disruption of signals can lead to altered sexual behaviour within a pair. We demonstrate, using functional magnetic resonance imaging (fMRI), that social odours indicating reproductive state directly influence the brain areas responsible for sexual behaviour. Social odours also influence other brain areas typically involved in motivation, memory and decision making, suggesting that these signals have more complex functions in primates than mere sexual arousal. We demonstrate a rapid link between social odours and neuroendocrine responses that are modulated by a male's social status. Recent work on humans shows similar responses to social odours. We conclude with an integration of the importance of social odours on sexual arousal and maintaining pairbonds in socially biparental and cooperatively breeding species, suggesting new research directions to integrate social behaviour, neural activation and neuroendocrine responses.     

Changes in archaeal,bacterial and eukaryal assemblages along a salinity gradient by comparison of genetic fingerprinting methods in a multipond solar saltern

Microbial communities inhabiting a multipond solar saltern were analysed and compared using SSU rRNA polymerase chain reaction (PCR)-based fingerprintings carried out in parallel by four laboratories. A salinity gradient from seawater (3.7%) to NaCl precipitation (37%) was studied for Bacteria, Archaea and Eukarya, and laboratories applied their own techniques and protocols on the same set of samples. Members of all three domains were retrieved from all salt concentrations. Three fingerprinting techniques were used: denaturing gradient gel electrophoresis (DGGE), ribosomal internal spacer analysis (RISA), and terminal-restriction fragments length polymorphism (T-RFLP). In addition, each laboratory used its own biomass collection method and DNA extraction protocols. Prokaryotes were addressed using DGGE and RISA with different 'domain-specific' primers sets. Eukaryotes were analysed by one laboratory using DGGE and T-RFLP, but targeting the same 18S rDNA site. Fingerprints were compared through cluster analysis and non-metric multidimensional scaling plots. This exercise allowed fast comparison of microbial assemblages and determined to what extent the picture provided by each laboratory was similar to those of others. Formation of two main, salinity-based groups of samples in prokaryotes (4-15% and 22-37% salinity) was consistent for all the laboratories. When other clusters appeared, this was a result of the particular technique and the protocol used in each case, but more affected by the primers set used. Eukaryotic microorganisms changed more from pond to pond; 4-5% and 8-37% salinity were but the two main groups detected. Archaea showed the lowest number of bands whereas Eukarya showed the highest number of operational taxonomic units (OTUs) in the initial ponds. Artefacts appeared in the DGGE from ponds with extremely low microbial richness. On the other hand, different 16S rDNA fragments with the same restriction or internal transcribed spacer (ITS) length were the main limitations for T-RFLP and RISA analyses, respectively, in ponds with the highest OTUs richness. However, although the particular taxonomic composition could vary among protocols, the general structure of the microbial assemblages was maintained.     

Orientation of European corn borer first instar larvae to synthetic green leaf volatiles

European corn borer (ECB) neonate larvae are capable of orienting towards maize odours and of avoiding spinach odours. We previously reported that maize odours’ attraction was dependent on the stimulus regime. This led us to propose that maize odours could have a repellent or attractive effect depending on their concentration. In this work, we tested this hypothesis by evaluating attraction or avoidance of neonate ECB larvae to four concentrations of each of six single green leaf volatiles (GLVs); these are commonly found in maize and other plants. We found a dose‐dependent effect for all of these GLVs with the exception of 1‐hexyl acetate, which did not elicit any orientation behaviour over the range of concentrations tested. These five GLVs were repellent at high concentrations, while two of them were attractive at a lower concentration. These observations indicate for the first time that plant odours induce different behaviours in ECB neonate larvae depending not only on their chemical identity but also their concentration.     

Finding a common ordination for several data sets by individual differences scaling

Individual differences scaling is a multidimensional scaling method for finding a common ordination for several data sets. An individual ordination for each data set can then be derived from the common ordination by adjusting the axis lengths so as to maximize the correlations between observed proximities and individual ordination distances. The importance of the various axes for each data set and the mutual similarities and goodness of fit for the individual data sets are described by weight plots. As an example, 46 soft-water lakes in eastern Finland are ordinated on two dimensions according to 3 chemical data sets (water in summer and autumn, sediment) and 4 biological sets (major phytoplankton groups, phytoplankton, surface sediment diatom and cladoceran assemblages). The method seems to be effective as a means of ordination for obtaining the common ordination for the data sets. The major taxonomic groups gave the ordination which differed most clearly from the ordinations of the other data sets. Phytoplankton was most poorly ordinated in all the analyses. The other data sets were fairly coherent. When only biological data sets were ordinated, the diatoms and cladocerans showed rather different patterns. It seems that the cladocerans are best correlated with water chemistry, both according to weights in the joint analysis, and according to correlation between the axes from the biological data sets and the chemical variables.Abbreviations CCA = Canonical correspondence analysis - IDS = Individual differences scaling - MDS = multidimensional scaling - PCA = Principal components analysis     

Index,Vol. 34, 1999

To investigate whether similar physiognomic areas support similar faunas, the richness, similarity, and community structure of the ant fauna attracted to baits in an area of the Brazilian Cerrado sensu stricto at the core of the domain and in two Cerrado 'islands' (one of sensu stricto and another of 'cerradão') were compared. In each locality, four collecting events were performed (two during the day and two at night) capturing ants attracted to 400 sardine baits (200 in soil, 200 in vegetation). Ants of six subfamilies, 33 genera, and 121 species were identified visiting baits in the three areas (180 species estimated). The most speciose genera were Camponotus (27 species), Pheidole (13), Solenopsis (11), and Crematogaster (8). The similarity values between pair sites can be considered medium in relation to other studies. The highest value was recorded for the core area and the 'island' of Cerrado sensu stricto (Morisita-Horn = 0.57). The two Cerrado 'islands' were found to be 0.44 similar and the core area and the 'cerradão' 0.41 similar. The ordination analysis (non-metric multidimensional scaling) revealed discontinuities in species distributions between areas of Cerrado sensu stricto and 'cerradão,' and distinctive ant faunas relative to the temporal (nocturnal and diurnal) and foraging niches (ground and vegetation). The ant fauna at ground level in the 'cerradão' and Cerrado sensu stricto showed the greatest dissimilarity. The data suggest that areas of Cerrado are characterized by relatively high local ant fauna richness, and that community structure is influenced by the distance between sites and the diversity of vegetation.     

Social Interaction is Necessary for Discrimination between and Memory for Odours of Close Relatives in Golden Hamsters

The role of social experience in recognition of individuals and their odours is not well understood. In a previous study, hamsters discriminated between the odours of their familiar litter mates, but they did not discriminate between the odours of two males or two females from a different litter that were unfamiliar to them. In this paper the role of social experience in discrimination between odours of male litter mates is examined using habituation techniques. Males, tested 1.5–2 mo after separation from their litter mates, discriminated between the flank gland odours of their foster brothers, but they did not discriminate between flank odours from their unfamiliar brothers that had been reared by another mother (Expt. 1). In Expt. 2, adult males did not discriminate between the flank gland odours of two males from a different litter after a week of exposure across a barrier to their sights, sounds, and odours, but subjects did discriminate between the odours of these same males after five brief encounters with them. A month after the encounters, however, subjects no longer discriminated between these odours. In contrast, adult males discriminated between the flank odours of their brothers 9 mo after separation from them (Expt. 3). These results suggest that hamsters must have direct interactions with closely related individuals to discriminate between their odours because the odours of close kin are so similar. Experience with nest mates results in long-lasting memories for their odours.     

Use of residue pairs in protein sequence-sequence and sequence-structure alignments

Two new sets of scoring matrices are introduced: H2 for the protein sequence comparison and T2 for the protein sequence-structure correlation. Each element of H2 or T2 measures the frequency with which a pair of amino acid types in one protein, k-residues apart in the sequence, is aligned with another pair of residues, of given amino acid types (for H2) or in given structural states (for T2), in other structurally homologous proteins. There are four types, corresponding to the k-values of 1 to 4, for both H2 and T2. These matrices were set up using a large number of structurally homologous protein pairs, with little sequence homology between the pair, that were recently generated using the structure comparison program SHEBA. The two scoring matrices were incorporated into the main body of the sequence alignment program SSEARCH in the FASTA package and tested in a fold recognition setting in which a set of 107 test sequences were aligned to each of a panel of 3,539 domains that represent all known protein structures. Six procedures were tested; the straight Smith-Waterman (SW) and FASTA procedures, which used the Blosum62 single residue type substitution matrix; BLAST and PSI-BLAST procedures, which also used the Blosum62 matrix; PASH, which used Blosum62 and H2 matrices; and PASSC, which used Blosum62, H2, and T2 matrices. All procedures gave similar results when the probe and target sequences had greater than 30% sequence identity. However, when the sequence identity was below 30%, a similar structure could be found for more sequences using PASSC than using any other procedure. PASH and PSI-BLAST gave the next best results.     

Electrophysiological characterization of olfactory cell types in the antennae and palps of the housefly

A set of odours was presented to the housefly Musca domestica and the electrophysiological responses of single olfactory receptor cells in the antennae and palps were recorded. The olfactory cells in the antennae of the housefly showed a large variability of response profiles, but multidimensional cluster analysis suggested a moderate clustering in olfactory response types. Receptor cells with similar or with different odour response profiles can reside in one and the same sensillum. No fixed spatial distribution of olfactory response types over the antennal of palpal surface was found. The odours of 1-octen-3-ol, amyl acetate, 3-methylphenol, 2-pentanone and R(+)limonene elicited the largest responses in antennal cells. Most odours elicited responses in cells of only a few of the clusters, but 1-octen-3-ol was detected by cells of almost all clusters of the antenna. Surprisingly, rather low responses were found to acetic acid, skatole, indole and muscalure, odours that are known to attract flies. Response profiles of palpal cells differed considerably from those of antennal cells. Palpal cells mostly responded to 3-methylphenol and 2-pentanone. In the palps, the clusters of cells responding to 3-methylphenol and 2-pentanone are clearly separated from the other olfactory cells.     

Multivariate analysis of tooth crown morphology in Japanese-American F1 hybrids

Mesiodistal crown diameters of I1 through M1 and six non-metric crown traits in permanent dentition of Japanese-American F₁ hybrids were compared with those of the parental populations. The hybrids were born of Japanese females and American males, both Caucasians and American Blacks, after World War II and brought up at Elizabeth Saunders Home in Kanagawa Prefecture, Japan. The comparisons were undertaken by means of multivariate analysis methods such as principal component analysis, distance and similarity coefficients and multidimensional scaling. The F₁ hybrids generally occupy an intermediate position of the two parental populations, and this is particularly evident in size component of the crown measurements and in distance analysis of frequencies of the non-metric crown traits. The shape component of the crown measurements, however, not necessarily follows such a rule and suggests a more complicated gene control than in the case of the size component. Also, each measurement and frequency of non-metric trait of tooth crowns in F₁ hybrids is not uniformly at the middle position between their parental populations but this is true when they are analyzed as multivariables.     

Assessing ant assemblages: pitfall trapping versus nest counting (Hymenoptera, Formicidae)

Pitfall trapping and nest counting are the most common census methods for ant assemblages. We examined the concordance between pitfall catches and nest counts on dry grassland. Spearman rank correlations and non-metric multidimensional scaling of the Bray Curtis similarity index revealed moderate concordance between the data collated by the two methods, but overall method-related differences were considerable. The dissimilarity was influenced by the type of land management, but not by trapping period or plot shape. Trapping success depended on nest density, ground vegetation cover and species-specific traits (inhabited stratum, colony size, foraging distance). Even when these factors were taken into account, the convertibility of pitfall trap and nest density values was unsatisfactory: the census method proved to be crucial in designing ant-ecological studies and interpreting literature data. Received 11 November 2005; revised 9 February 2006; accepted 1 March 2006.     

Prediction of protein secondary structure based on residue pairs

The GOR program for predicting protein secondary structure is extended to include triple correlation. A score system for a residue pair to be at certain conformation state is derived from the conditional weight matrix describing amino acid frequencies at each position of a window flanking the pair under the condition for the pair to be at the fixed state. A program using this score system to predict protein secondary structure is established. After training the model with a learning set created from PDB_SELECT, the program is tested with two test sets. As a method using single sequence for predicting secondary structures, the approach achieves a high accuracy near 70%.     

Alignment and statistical difference analysis of complex peptide data sets generated by multidimensional LC-MS

A method for high-resolution proteomics analyses of complex protein mixtures is presented using multidimensional HPLC coupled to MS (MDLC-MS). The method was applied to identify proteins that are differentially expressed during fruit ripening of tomato. Protein extracts from red and green tomato fruits were digested by trypsin. The resulting highly complex peptide mixtures were separated by strong cation exchange chromatography (SCX), and subsequently analyzed by RP nano-LC coupled to quadrupole-TOF MS. For detailed quantitative comparison, triplicate RP-LC-MS runs were performed for each SCX fraction. The resulting data sets were analyzed using MetAlign software for noise and data reduction, multiple alignment and statistical variance analysis. For each RP-LC-MS chromatogram, up to 7000 mass components were detected. Peak intensity data were compared by multivariate and statistical analysis. This revealed a clear separation between the green and red tomato samples, and a clear separation of the different SCX fractions. MS/MS spectra were collected using the data-dependent acquisition mode from a selected set of differentially detected peptide masses, enabling the identification of proteins that were differentially expressed during ripening of tomato fruits. Our approach is a highly sensitive method to analyze proteins in complex mixtures without the need of isotope labeling.