Biometric-genetic analysis of genotype dissimilarity: The model and parameters

An additive-dominant model and parameters for biometric-genetic analysis of pair dissimilarity between genotypes have been developed. The analyzed dissimilarity metrics are presumed to be determined by the quantitative traits of plant lines and F₁ hybrids obtained by diallel crossing. Relationships between dissimilarity parameters have been determined, and algorithms for estimating their use, in particular, for detecting the most heterozygous hybrids are suggested.     

Biometric-genetic analysis of genotype dissimilarity in diallel crosses of spring wheat

A new biometric-genetic model and parameters described in [1] have been used for analysis of pair dissimilarity between spring wheat cultivars and F1 hybrids obtained by diallel crossing. The dissimilarity between the reactions of different genotypes estimated by a growth trait (plant height) served as a metric. The mode of inheritance of dissimilarity has been determined, and the cultivars that are the most dissimilar in allelic composition have been detected.     

Biometric-genetic analysis of genotype dissimilarity in diallel crosses of spring wheat

A new biometric-genetic model and parameters described in [2] have been used for analysis of pair dissimilarity between spring wheat cultivars and F₁ hybrids obtained by diallel crossing. The dissimilarity between shape of the reactions of different genotypes estimated by a growth trait (plant height) served as a metric. The mode of inheritance of dissimilarity has been determined, and the cultivars that are the most dissimilar in allelic composition have been detected.     

Chromosome segregation from cell hybrids. II. Do differences in parental cell growth rates and phase times determine direction of loss?

The hypothesis that the direction of chromosome segregation in cell hybrids is determined by the interaction of parent cell cycles, or S-phase times, predicts that the segregant parent will always be the one with the longer cycle, or the longer S phase, and that late replicating chromosomes will be more frequently lost. We have tested this hypothesis by studying cell cycle parameters of mouse, Chinese hamster, and platypus parent cells and by observing chromosome loss and replication patterns in hybrids between them. Two types of hybrids have been studied: mouse-hamster hybrids showed gradual segregation, in one or other direction, of 10-60% chromosomes, while rodent-platypus hybrids (which could be selected under conditions optimal for either parent cell) showed rapid and extreme segregation of platypus chromosomes. We found no correlation between the direction of segregation and the relative lengths of parental cycle times, or phase times, nor between sequence of replication and frequency with which segregant chromosomes are lost. We therefore conclude that the direction and extent of segregation is not directly determined by the interaction of parental cycle or phase times.     

Integration of the Physical and Genetic Linkage Map for Human Chromosome 13

We have used a panel of somatic cell hybrids containing different rearrangements of human chromosome 13 to integrate genetic and physical maps of this chromosome. The positions of 17 translocation/deletion breakpoints on human chromosome 13 have been determined relative to the microsatellite markers on the genetic linkage map compiled by Généthon. Because markers on maps from several other Consortium groups have also been analyzed using many of the same hybrids, it was possible to relate these with the Généthon map. The position of all of the chromosome breakpoints have been placed, wherever possible, between two adjacent markers on the genetic linkage maps using PCR analysis for the presence/absence of the markers in the somatic cell hybrids. The positions of the breakpoints have already been determined cytogenetically, and some of these breakpoints are located at landmark positions on the chromosome. The relative density of markers along the chromosome differs between independently derived maps, and, based on the known locations of certain breakpoints in the physical map, inconsistencies in the genetic maps have been identified.     

Hybrid rice (Oryza sativa L.): identification and parentage determination by RAPD fingerprinting

Summary DNA from three families of rice plants selected in Northern China (each comprising the male sterile, the restorer, the hybrid F1 and the maintainer lines) has been extracted and amplified by PCR with different random DNA primers (RAPD analysis). Then, DNA has been analysed by agarose gel electrophoresis and DNA bands scored as present or absent. The generated matrices are reproducible and amenable for identification of each single plant line. Thus, RAPD fingerprinting of the inbred parental lines and of the resulting hybrid is proposed as a convenient tool for the identification, protection and parentage determination of plant hybrids. Furthermore, by offering a molecular tool to verify the degree of dissimilarity between the parental lines, the RAPD analysis may also be used to search for new parental combinations.     

Degree of Hybridization in Seed Stands of Pinus engelmannii Carr. In the Sierra Madre Occidental,Durango, Mexico

Hybridization is an important evolutionary force, because interspecific gene transfer can introduce more new genetic material than is directly generated by mutations. Pinus engelmannii Carr. is one of the nine most common pine species in the pine-oak forest ecoregion in the state of Durango, Mexico. This species is widely harvested for lumber and is also used in reforestation programmes. Interspecific hybrids between P.engelmannii and Pinus arizonica Engelm. have been detected by morphological analysis. The presence of hybrids in P. engelmannii seed stands may affect seed quality and reforestation success. Therefore, the goals of this research were to identify introgressive hybridization between P. engelmannii and other pine species in eight seed stands of this species in Durango, Mexico, and to examine how hybrid proportion is related to mean genetic dissimilarity between trees in these stands, using Amplified Fragment Length Polymorphism (AFLP) markers and morphological traits. Differences in the average current annual increment of putative hybrids and pure trees were also tested for statistical significance. Morphological and genetic analyses of 280 adult trees were carried out. Putative hybrids were found in all the seed stands studied. The hybrids did not differ from the pure trees in vigour or robustness. All stands with putative P. engelmannii hybrids detected by both AFLPs and morphological traits showed the highest average values of the Tanimoto distance, which indicates: i) more heterogeneous genetic material, ii) higher genetic variation and therefore iii) the higher evolutionary potential of these stands, and iv) that the morphological differentiation (hybrid/not hybrid) is strongly associated with the Tanimoto distance per stand. We conclude that natural pairwise hybrids are very common in the studied stands. Both morphological and molecular approaches are necessary to confirm the genetic identity of forest reproductive material.     

Hybrid performance in taro (<Emphasis Type="Italic">Colocasia esculenta</Emphasis>) in relation to genetic dissimilarity of parents

Taro (Colocasia esculenta) breeding, as other root crop breeding, is based on the production and evaluation of large numbers of hybrids. The selection of parents is based on their phenotypic value in the absence of information concerning general combining ability (GCA), specific combining ability (SCA), or genetic distances between varieties. By combining data from heritability trials and from genetic diversity studies conducted with AFLP and SSR markers, we aimed at studying the relationship between hybrid vigour and genetic dissimilarity between parents. The traits studied included number of suckers, corm weight, corm dimensions, and dry matter content. Correlation coefficients between hybrid gain and dissimilarity values were calculated. The prediction of hybrid performance based on the mid-parent value was compared to the prediction based on a modified expression that takes into account the genetic relationships between parents. Correlations were all but one positive but not statistically significant for all traits, with the exception of the number of suckers, when using SSR markers for dissimilarity calculations. Accordingly, the genetic dissimilarities in the prediction of hybrid performances did not increase the correlation between predicted and observed hybrid vigour values. However, large differences were observed among the residual means from the regression between predicted and observed values when using AFLP or SSR markers, mainly due to the much higher polymorphism revealed by the latter. Models need to be further adapted to the type of molecular marker used, since their ability to reveal different rates of polymorphism will have a direct incidence on the calculation of genetic dissimilarities between genotypes. Nevertheless, since SSR markers are more polymorphic and more informative than AFLP markers, they should be preferentially used for these studies. Low genetic dissimilarity of parents yielded weak heterosis effects and future studies need to be conducted by using a broader genetic base. This is the first study assessing the relationship of hybrid vigour with the genetic distances between parents, conducted on a tropical root crop.     

Expression of the ASV src gene in hybrids between normal and virally transformed cells: Specific suppression occurs in some hybrids but not others

Somatic cell hybrids have been made between clones of rat cells transformed by avian sarcoma virus and rat or mouse cells that are untransformed. Intraspecies hybrids were either predominantly morphologically normal or predominantly transformed, some clones that formed transformed intraspecies hybrids yielding normal interspecies hybrids. Untransformed hybrids usually showed no detectable alteration in the structure or location of the integrated provirus, but viral RNA and pp60^src kinase activities were much reduced. No decrease in viral gene expression was seen in transformed hybrids. Thus hybrid suppression of viral transformation, mediated in trans by the untransformed parent, is a specific event that depends on both untransformed and transformed parental parameters.     

Morphofunctional peculiarities of erythrocytes in wild and farmed Coregonid fishes from Lake Baikal

Structure and cytometric indices of red blood cells (RBC) and hemoglobin content (Hb) and oxygen capacity of the blood (OCB) of omul, whitefish, and hybrids thereof captured in Lake Baikal (wild) and incubated and grown in a freshwater aquarium complex (FAC) (farmed) have been analyzed. Cytometric parameters of red blood cells of wild omul, whitefish, and hybrids thereof exceed those of the cells of fish reared in aquariums under identical conditions. The effect of aquarium rearing on the shape of red blood cells is the least pronounced in Siberian whitefish and F1 progeny of Siberian whitefish females and omul males (f Sw x m Om). The erythrocyte size in hybrids of female Lacustrine whitefish and male omul (f Lw x m Om) is determined by the size of these cells in female parents, since female Lacustrine whitefish have the largest erythrocytes. Cytometric parameters of erythrocytes of all Coregonid fishes investigated are higher in fish reared in warm aquaria than in conspecifics reared in aquaria with cold water. Erythrocyte nuclei are smaller in artificially propagated hybrids than in parent fish captured in the wild or in whitefish and omul reared in aquaria under the same conditions. A distinct pool of erythrocytes from whitefish captured in the wild have a 20–30% higher content of functionally active mitochondria than erythrocytes of whitefish reared in aquaria; a disrupted mitochondrial structure is also observed in erythrocytes from the latter population of fish. The results show that distinctive features of metabolism related to oxygen transport in the Baikal coregonid fish that were investigated are determined by adaptation to the conditions of the ecological niches occupied by the fish.     

Further nonparametric tests for comparing dissimilarity matrices based on the relative neighborhood graph

Using the edge sets of their relative neighborhood graphs, contingency tables may be constructed to compare dissimilarity matrices. Two kinds of tests of independence are considered, one based on the relationship between the minimum path lengths in the relative neighborhood graphs, the other on the product-moment correlation coefficient between the dissimilarities corresponding to the unit path lengths of the intersection. To compare a dissimilarity matrix with a transformation of it, such as by a clustering, various elements of the contingency table are compared with the binomial distribution having known parameters, while for independently obtained dissimilarity matrices, standard tests of marginal independence are appropriate.     

Deconstructing spatial patterns in species composition of ectoparasite communities: the relative contribution of host composition,environmental variables and geography

Aim We determined whether dissimilarity in species composition between parasite communities depends on geographic distance, environmental dissimilarity or host faunal dissimilarity, for different subsets of parasite species with different levels of host specificity. Location Communities of fleas parasitic on small mammals from 28 different regions of the Palaearctic. Method Dissimilarities in both parasite and host species composition were computed between each pair of regions using the Bray–Curtis index. Geographic distances between regions were also calculated, as were measures of environmental dissimilarity consisting of the pairwise Euclidean distances between regions derived from elevation, vegetation and climatic variables. The 136 flea species included in the dataset were divided into highly host‐specific species (using 1–2 host species per region, on average), moderately host‐specific species (2.2–4 hosts per region) and generalist species (>4 hosts per region). The relative influence of geographic distance, host faunal dissimilarity and environmental dissimilarity on dissimilarity of flea species composition among all regions was analysed for the entire set of flea species as well as for the three above subsets using multiple regressions on distance matrices. Results When including all flea species, dissimilarity in flea species composition was affected by all three independent variables, although the pure effect of dissimilarity in host species composition was the strongest. Results were different when the subsets of fleas differing in host specificity were treated separately. In particular, dissimilarity in species composition of highly host‐specific fleas increased solely with environmental dissimilarity, whereas dissimilarity for both moderately specific and non‐specific fleas increased with both geographic distance and dissimilarity in host species composition. Main conclusions Host specificity seems to dictate which of the three factors considered is most likely to affect the dissimilarity between flea communities. Counter‐intuitively, environmental dissimilarity played a key role in determining dissimilarity in species composition of highly host‐specific fleas, possibly because, although their presence in a region relies on the occurrence of particular host species, their abundance is itself mostly determined by climatic conditions. Our results show that deconstructing communities into subsets of species with different traits can make it easier to uncover the mechanisms shaping geographic patterns of diversity.     

Patterns of puffing activity and chromosomal polymorphism in Drosophila subobscura

Summary The effect of inbreeding on the puffing patterns of polytene chromosomes of Drosophila subobscura was analysed. Puffing activity was studied in two strains of D. subobscura: one which had been subject to inbreeding for 288 generations, and in the hybrids from a cross between them. A strong overall decrease in puffing activity was found in the inbred line. In general, hybrids behaved in a similar way to the inbred line or showed activity intermediate between the two lines. The fertility and viability of the two homozygous lines and of the hybrids were also determined. These parameters of fitness are very low in the inbred line. Hybrids displayed intermediate behaviour.Publication No. 109, Departamento de Genética, Universidad de Valencia, Spain     

Acoustic signal characters in interspecific hybrids of bank and red-backed voles

It has been found that distress signals of bank and northern red-backed voles and their hybrids do not differ in qualitative characters, but the modes of the acoustic signal parameters in many cases differ in the hybrids depending on their origin and can be correlated with the inheritance of some morphological characters that are typical for the species. It is noted that the distress-signal frequencies (quartiles) differ significantly in the first-generation hybrids of various origin and their characteristics are closer to those of the paternal parent species. It has been found that the inheritance of the frequency characteristics by the second-generation hybrids does not have a well-pronounced regularity.     

Compositional dissimilarity patterns of reptiles and amphibians in insular systems around the world

Several studies have shown that taxa with poor dispersal ability have a higher level of compositional dissimilarity than good dispersers. However, compositional dissimilarity patterns between islands with respect to dispersal ability of taxa have never been investigated before. In this study, we investigated compositional dissimilarity patterns of three taxonomic groups, namely amphibians, lizards, and snakes, differing in their dispersal abilities, in various insular systems around the world. We compiled presence–absence matrices, based on which we calculated several metacommunity indices to check for differences among taxonomic groups and island types (oceanic and continental shelf) using classical statistical tests and generalized linear mixed-effects models. According to our results, compositional dissimilarity was positively affected by the isolation of the insular system, in accordance to theory. In particular, oceanic systems were characterized by a high level of compositional dissimilarity between islands and subsequently by a low level of nestedness. SIEs may be generating these patterns causing distortions from expected levels of nestedness. Similar to our predictions, compositional dissimilarity patterns were also dependent on taxon-specific dispersal ability, with good dispersers showing lower levels of between-island compositional dissimilarity than poor dispersers in continental shelf systems. However, this pattern was not observed in oceanic systems. In conclusion, compositional dissimilarity in insular systems is dependent on both taxon and island type.     

Quantitative characters of male generative structure cells of wheat, rye, and wheat-rye hybrids during microsporogenesis

The optical density indexes of nucleoli and cytoplasm of male generative cells during microsporogenesis have been determined for wheat, rye, and F₁ of wheat-rye hybrids using RNA staining. The positive correlation between the RNA content in nucleoli and cytoplasm of the cells of all plants has been found. The dynamics of correlation links between the nucleolus volume and RNA content in the nucleolus/cytoplasm of the wheat and wheat-rye hybrids in microsporogenesis and early gametogenesis have been shown. The essential species and sort differences based on quantitative cytochemical and karyometrical characteristics in parental forms and the dependence of their appearance in interspecies F₁ hybrids on wheat’s maternal form have been identified.     

DEVELOPMENTAL INSTABILITY AND HIGH MERISTIC COUNTS IN INTERSPECIFIC HYBRIDS OF SALMONID FISHES

Interspecific hybrids have been proposed to have reduced developmental stability in comparison to their parental species because the parental genomes have not undergone selection for the maintenance of developmental stability when they occur together. We present data from four interspecific hybrids of salmonid fishes that support this view. Natural hybrids of bull trout (Salvelinus confluentus) with brook trout (Salvelinus fontinalis) and laboratory hybrids of rainbow trout (Salmo gairdneri) with Yellowstone (Salmo clarki bouvieri), westslope (S. c. lewisi), and coastal (S. c. clarki) cutthroat trout all have higher levels of fluctuating asymmetry than either of their parental species raised in the same environment. Thus, the hybrids have reduced developmental stability. The hybrids do not have meristic counts intermediate to the counts of the parental species. The hybrids usually have counts as high as the species with the higher count for those characters that differ between the parental species and often have higher counts for those characters that do not differ between the parental species. We suggest that the tendency for interspecific hybrids to have high meristic counts may be related to differences between the species in the length and timing of the developmental periods during which the counts of the characters are determined.     

Analysis of molecular diversity and fingerprinting of commercially grown Indian rice hybrids

Twenty-five commercially grown Indian rice hybrids developed by both the public and private sectors, were analysed for molecular diversity and identification of simple sequence repeat (SSR) marker(s) that can distinguish them from each other. For diversity analysis, a total of fifty eight SSR markers providing genome wide coverage, were used. Forty out of fifty eight SSR markers were polymorphic amplifying a total of 121 alleles with molecular weight ranging from 70 bp ?C 280 bp. Further, characterisation of these markers was carried out generating parameters of heterozygosity (0.42), polymorphism information content (0.31), probability of identity (4.2?×?10^?8) and probability of exclusion (99.99%). Cluster analysis based on a set of fourty highly polymorphic SSR markers generated three groups with dissimilarity index values ranging from 0.0 to 0.8. The hybrids based on common female parent IR58025A grouped together indicating a narrow genetic base of hybrid breeding programme. By combining the rapid and simple method of utilising these unique SSR markers alone or in combination, as molecular tags, identification of all the hybrids was possible even without having their parental lines. Twenty SSR loci produced hybrid specific unique alleles, which will be useful in establishing hybrid??s identity. The results have wide prospective in diversifying the genetic base of hybrid breeding programme, identification of rice hybrids, authentication of genetic purity of hybrid seed and protection of IPR.     

Local species assemblages are influenced more by past than current dissimilarities in photosynthetic activity

Most land on Earth has been changed by humans and past changes of land can have lasting influences on current species assemblages. Yet few globally representative studies explicitly consider such influences even though auxiliary data, such as from remote sensing, are readily available. Time series of satellite‐derived data have been commonly used to quantify differences in land‐surface attributes such as vegetation cover, which will among other things be influenced by anthropogenic land conversions and modifications. Here we quantify differences in current and past (up to five years before sampling) vegetation cover, and assess whether such differences differentially influence taxonomic and functional groups of species assemblages between spatial pairs of sites. Specifically, we correlated between‐site dissimilarity in photosynthetic activity of vegetation (the enhanced vegetation index) with the corresponding dissimilarity in local species assemblage composition from a global database using a common metric for both, the Bray–Curtis index. We found that dissimilarity in species assemblage composition was on average more influenced by dissimilarity in past than current photosynthetic activity, and that the influence of past dissimilarity increased when longer time periods were considered. Responses to past dissimilarity in photosynthetic activity also differed among taxonomic groups (plants, invertebrates, amphibians, reptiles, birds and mammals), with reptiles being among the most influenced by more dissimilar past photosynthetic activity. Furthermore, we found that assemblages dominated by smaller and more vegetation‐dependent species tended to be more influenced by dissimilarity in past photosynthetic activity than prey‐dependent species. Overall, our results have implications for studies that investigate species responses to current environmental changes and highlight the importance of past changes continuing to influence local species assemblage composition. We demonstrate how local species assemblages and satellite‐derived data can be linked and provide suggestions for future studies on how to assess the influence of past environmental changes on biodiversity.     

Comparative analysis of photosynthetic characteristics and productivity in F2 hybrids of winter rye

Diversity of photosynthetic characteristics determined by plant genotypes provides the grounds for the increase in potential crop productivity by means of producing plant forms whose photosynthetic apparatus (PSA) has optimal size and functional efficiency. Parental forms of winter rye (Secale cereale L.) and their interline and intravarietal reciprocal F₂ hybrids were compared in terms of photosynthetic pigment (PSP) content, characteristics of chlorophyll a (Chl) fluorescence, some morphological traits, and grain productivity. At the booting and anthesis stages, significant divergence in chlorophyllous pigment content and Chl a fluorescence parameters was observed for winter rye inbred lines, rye varieties, and hybrids. The hybrids were revealed whose elevated grain productivity correlated with high PSP content and the highest photosystem II (PSII) activity. Analysis of correlations in reciprocal F₂ hybrids at booting and anthesis stages of rye development showed that accumulation of PSII is related to stem-forming capacity and to the flag leaf surface area. In reciprocal hybrids, the correlations between morphological traits, grain productivity, plastid pigments, and photochemical activity were subject to variations. The relationships between PSA parameters and grain productivity in winter rye F₂ hybrids varied depending on the developmental stage as well as on crossing combination; this relation was largely determined by the choice of pairs for hybridization, by direction of crosses, and by genetic features of parental forms.