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Change in a secondary sexual character as evidence of incipient speciation in Drosophila silvestris.

Search for genetic changes that are pivotal in species formation has led to intraspecific studies of Drosophila silvestris, a giant species found only on the geologically new island of Hawaii. Males bear large, curved, modified bristles or cilia on the dorsal surface of the foreleg tibia and tarsus. In males from the south and west parts of the island there are two rows of cilia separated by a naked area, but in males from the north and east there is a mean of between 20 and 30 additional cilia between the two major rows on the tibia. These extra cilia are absent in closely related species of this subgroup, including the sympatric species D. heteroneura and three species from adjacent islands. Males use the foreleg tibiae in vibratory movements against the female's abdomen during courtship, so this character difference is likely to be important in the reproductive biology of the species. Inversion polymorphisms are similar in both northeast and southwest populations; they show large and strikingly parallel altitudinal shifts in frequency distributions involving the same inversions. Populations from various parts of the island cannot be distinguished by routine electrophoresis of soluble proteins encoded by 25 loci. Thus the "extra cilia" character is superimposed on a more ancient genetic background of similarity involving both chromosomal and electrophoretic polymorphisms. We interpret the extra cilia as a specific new embellishment of a secondary sexual character brought about by altered sexual selection occurring very recently in one part of the species range. This suggests incipient speciation.

Journal Article↗

Characters of irreducible Harish-Chandra modules and Goldie ranks of their annihilators.

Assume that G(C) is a simply connected complex semi-simple Lie group with Lie algebra [unk]. Let G subset G(C) be a real form, H subset G be a maximally split Cartan subgroup with Lie algebra [unk](0), [unk] = [unk](0) [unk] C, and P subset, dbl equals [unk](*) be the weight lattice. If X is an irreducible Harish-Chandra module with infinitesimal character lambda in [unk](*), one can associate to X a family {theta(mu): mu in lambda + P} of Z-linear combinations of distribution characters of G, so that theta(lambda) = X. theta(mu) is irreducible when mu lies in C(lambda), a certain positive "Weyl" chamber containing lambda. In this case let Ann theta(mu) be its annihilator in U([unk]) and set p(mu) = Goldie rank of U([unk])/ Ann theta(mu). Let d = Gelfand-Kirillov dimension of X. For most x in [unk](0) if exp tx is regular for small t > 0 then (i) c(mu) = lim(t-->0(+) )t(d) theta(mu) (exp tx) exists for all mu in lambda + P; (ii) c(mu) extends to a homogeneous Weyl group harmonic polynomial on [unk](*) of degree (1/2)(dim G - dim H) - d; (iii) up to a constant, c = the polynomial extending p to [unk](*). c is said to be the character polynomial of Ann X.

Journal Article↗

Inheritance of a secondary sexual character in Drosophila silvestris.

Reciprocal crosses were carried out between laboratory stock specimens obtained from two races of Drosophila silvestris from the island of Hawaii that differ in a quantitative secondary sexual character. The race from the Hilo side of the island has a novel attribute, consisting of an extra row of cilia on the tibia of males, which is used during courtship. With regard to this character, sex-linked genes contribute about 30% of the difference, and the remaining 70% of the difference between the races is produced by genes on at least two autosomes. The novel character appears to have been the outcome of altered sexual selection in the Hilo-side race. In an altered genetic environment, resulting from a founder event or random genetic drift, sexual selection may take a new direction. Such a shift may serve as a model for incipient speciation.

Animals↗

Character displacement in some Cnemidophorus lizards revisited: a phylogenetic analysis.

Ecological studies have demonstrated the role of competition in structuring communities; however, the importance of competition as a vehicle for evolution by natural selection and speciation remains unresolved. Study systems of insular faunas have provided several well known cases where ecological character displacement, coevolution of competitors leading to increased morphological separation, is thought to have occurred (e.g., anoline lizards and geospizine finches). Whiptail lizards (genus Cnemidophorus) from the islands of the Sea of Cortez and the surrounding mainland demonstrate a biogeographic pattern of morphological variation suggestive of character displacement. Two species of Cnemidophorus occur on the Baja peninsula, one relatively large (Cnemidophorus tigris) and one smaller (Cnemidophorus hyperythrus). Oceanic islands in the Sea of Cortez contain only single species, five of six having sizes intermediate to both species found on the Baja peninsula. On mainland Mexico C. hyperythrus is absent, whereas C. tigris is the smaller species in whiptail guilds. Here we construct a phylogeny using nucleotide sequences of the cytochrome b gene to infer the evolutionary history of body size change and historical patterns of colonization in the Cnemidophorus system. The phylogenetic analysis indicates that (i) oceanic islands have been founded at least five times from mainland sources by relatives of either C. tigris or C. hyperythrus, (ii) there have been two separate instances of character relaxation on oceanic islands for C. tigris, and (iii) there has been colonization of the oceanic island Cerralvo with retention of ancestral size for Cnemidophorus ceralbensis, a relative of C. hyperythrus. Finally, the phylogenetic analysis reveals potential cryptic species within mainland populations of C. tigris.

Animals↗

Assessing non-metric skeleton characters as a morphological tool.

The appearance of non-metric skeletal characters in vertebrates results mainly from basic genetic control, as proved and documented for house mice and humans. Although the heritability of non-metric traits, mainly the presence of foramina and similar structures for blood vessels and nerves or dental occlusal variants, have been evaluated as rather low, the simultaneous consideration of several traits allows estimation of epigenetic variation in time and space as a result of genetic relationship. Thus, the main use of non-metric characters has been aimed at assessing epigenetic variability and divergence among populations. Applications extend from the problem of genetic isolation of populations, the lack of reproductive contact, detection of genetic drift, systematic studies to clarify species taxonomy, to phylogenetic interpretation. Additionally, non-directional deviations from bilateral symmetry in non-metric characters, e.g. fluctuating asymmetry, could be caused by current environmental conditions in general. Fluctuating asymmetry is regarded as a measure of developmental instability to indicate the presence of genomic changes or the influence of contamination and/or habitat deterioration, and is also used as a further population parameter with integrated information. However, standpoints on the use of fluctuating asymmetry are quite inconsistent, fluctuating themselves between considering it a powerful biomonitoring tool to being merely a curious scientific toy.

Journal Article↗

The genital atrium as a good taxonomic character to distinguish between species of phlebotomine sandflies (Diptera: Psychodidae) from Venezuela.

The shape and size of the genital atria of 17 phlebotomine sandflies from Venezuela were examined. The atria were found to express constant characters among individuals of the same species and to be sufficiently different between species to allow taxonomic separation. The spines on the genital armature are described and the characters that can be used to classify individual specimens to species level identified. It is suggested that these characters can be of use on specimens where the spermathecae have been lost or where cryptic species are concerned. Dissection procedures to display the atrium are given.

Animals↗

Children's assignment of gender to animal characters in pictures.

In previous research (DeLoache, Cassidy, & Carpenter, 1987), mothers' descriptions of gender-neutral animal characters were influenced by subtle gender stereo-types. The present research was an investigation of children's assignment of gender to the same neutral characters. The youngest children, 4 to 5 years old, usually assigned their own gender to the characters (bears). The 7- to 8-year-old and 10- to 11-year-old children were influenced by gender stereotypes. Solitary or noninteracting bears were less likely to receive female gender labels than were bears involved in adult-child interactions. Boys in the oldest age group were most influenced by the stereotypes.

Adult↗

Use of alcohol, illicit drugs, and tobacco among characters on prime-time television.

Previous research of addictive substances suggests that use of alcohol, illicit drugs, and tobacco is overrepresented on prime-time television (TV). These studies, however, have relied on frequency counts of the substance, rather than the prevalence of use among characters. Therefore, the objectives of this study were to compare the prevalence of alcohol, illicit drug, and tobacco users among characters on prime-time TV during 1995 and 1996 with rates of use in the United States. In addition, we determined if the ratio of male to female, young to old, and white to minority addictive substance users on prime-time TV were similar to the equivalent U.S. ratios. Comparing results for prime-time TV characters versus the U.S. population (respectively), 11.0% (99% CI, 9.8-12.1) drank alcohol versus 51.0%; 0.8% (99% CI, 0.5-1.1) used illicit drugs versus 6.1%; and 2.5% (99% CI, 2.0-3.1) smoked tobacco versus 28.9%. In addition, no consistent pattern was evident in our analyses that assessed whether addictive substance users on prime-time TV were more frequently represented as men, young, or minority compared to the similar U.S. ratio. These results indicate that contrary to prevailing beliefs, alcohol, illicit drug, and tobacco users are uncommon on prime-time TV and are less prevalent than in the U.S. population.

Adolescent↗

A likelihood approach to estimating phylogeny from discrete morphological character data.

Evolutionary biologists have adopted simple likelihood models for purposes of estimating ancestral states and evaluating character independence on specified phylogenies; however, for purposes of estimating phylogenies by using discrete morphological data, maximum parsimony remains the only option. This paper explores the possibility of using standard, well-behaved Markov models for estimating morphological phylogenies (including branch lengths) under the likelihood criterion. An important modification of standard Markov models involves making the likelihood conditional on characters being variable, because constant characters are absent in morphological data sets. Without this modification, branch lengths are often overestimated, resulting in potentially serious biases in tree topology selection. Several new avenues of research are opened by an explicitly model-based approach to phylogenetic analysis of discrete morphological data, including combined-data likelihood analyses (morphology + sequence data), likelihood ratio tests, and Bayesian analyses.

Biometry↗

Phylogenetic placement of retropinnid fishes: data set incongruence can be reduced by using asymmetric character state transformation costs.

We used mitochondrial DNA sequences to determine the phylogenetic placement of southern smelts (Retropinnidae), a group of diadromous fishes endemic to New Zealand and Australia. Our genetic data strongly support a sister group relationship between retropinnids and northern hemisphere smelts (Osmeridae), a relationship that seems consistent with the similar appearance and life history strategies of these two groups. Our analysis indicates that Retropinnidae and Osmeridae together represent the sister group to the southern hemisphere galaxiid fishes (Galaxiidae). However, this finding conflicts with several recent osteological analyses, which supported a sister relationship for Retropinnidae and Galaxiidae, giving a monophyletic southern hemisphere assemblage (Galaxioidea). We review cases of incongruence and discuss factors that might explain significant disagreement between molecular and morphological data matrices. We suggest that repeated evolutionary simplification may have undermined the accuracy of morphological hypotheses of osmeroid relationships. Although equally weighted parsimony analysis of morphological data rejects the molecular hypothesis (Osmeridae + Retropinnidae), implementation of a range of weighting schemes suggests that incongruence is nonsignificant under asymmetric character transformation models. We propose that a simple "equal transformation cost" parsimony analysis may be biologically unrealistic, especially when reductive homoplasy is widespread; as is increasingly being accepted, complex character states are more readily lost than gained. Therefore, we recommend that morphological systematists routinely implement a range of character transformation models to assess the sensitivity of their phylogenetic reconstructions. We discuss the antitropical biogeography of osmeroid fishes in the context of vicariance and transequatorial dispersal.

Animals↗

A phylogeny of the tinamous (aves: palaeognathiformes) based on integumentary characters.

A cladistic analysis of the tinamous, including the 47 currently recognized species and some distinct subspecies, was conducted based on 80 integumentary characters from adult and natal plumage, ramphoteca (corneum sheath of bill), and podoteca (horny scales of legs). For the adult plumage (50 characters), we studied feather pigmentation patterns from different pterylae (feather tracts). A criterion of overlap of basic pigmentation elements was used to assign costs to the transformation between the states in most of these characters in such a way that transformations between more similar conditions were less costly. The consensus tree was almost fully resolved, and about 50% of its groups were relatively well supported. Because the only outgroup that could be used provided a poor root, two possible rootings of the ingroup subtree were considered; in both cases, only one of the two traditional subfamilies (the steppe tinamous) was recovered, and the other (the forest tinamous) appeared as paraphyletic. The results of the present analysis are compared with those from an osteological data set, using a strict supertree technique. The combined tree has a large number of nodes, indicating a high degree of congruence between the two data sets.

Animals↗

The ancestral distance test: what relatedness can reveal about correlated evolution in large lineages with missing character data and incomplete phylogenies.

The ancestral distance test is introduced to detect correlated evolution between two binary traits in large phylogenies that may lack resolved subclades, branch lengths, and/or comparative data. We define the ancestral distance as the time separating a randomly sampled taxon from its most recent ancestor (MRA) with extant descendants that have an independent trait. The sampled taxon either has (target sample) or lacks (nontarget sample) a dependent trait. Modeled as a Markov process, we show that the distribution of ancestral distances for the target sample is identical to that of the nontarget sample when characters are uncorrelated, whereas ancestral distances are smaller on average for the target sample when characters are correlated. Simulations suggest that the ancestral distance can be estimated using the time, total branch length, taxonomic rank, or number of speciation events between a sampled taxon and the MRA. These results are shown to be robust to deviations from Markov assumptions. A Monte Carlo technique estimates P-values when fully resolved phylogenies with branch lengths are available, and we evaluate the Monte Carlo approach using a data set with known correlation. Measures of relatedness were found to provide a robust means to test hypotheses of correlated character evolution.

Classification↗

Is it better to add taxa or characters to a difficult phylogenetic problem?

The effects on phylogenetic accuracy of adding characters and/or taxa were explored using data generated by computer simulation. The conditions of this study were constrained but allowed for systematic investigation of certain parameters. The starting point for the study was a four-taxon tree in the "Felsenstein zone," representing a difficult phylogenetic problem with an extreme situation of long branch attraction. Taxa were added sequentially to this tree in a manner specifically designed to break up the long branches, and for each tree data matrices of different sizes were simulated. Phylogenetic trees were reconstructed from these data using the criteria of parsimony and maximum likelihood. Phylogenetic accuracy was measured in three ways: (1) proportion of trees that are completely correct, (2) proportion of correctly reconstructed branches in all trees, and (3) proportion of trees in which the original four-taxon statement is correctly reconstructed. Accuracy improved dramatically with the addition of taxa and much more slowly with the addition of characters. If taxa can be added to break up long branches, it is much more preferable to add taxa than characters.

Classification↗

Discriminating and locating character covariance: an application of permutation tail probability (PTP) analyses.

The ability of permutation tail probability (PTP) analyses to discriminate between character covariance and noise is investigated with both hypothetical and published data sets. PTP is shown to be a powerful tool, not only for detecting character covariance, but also for locating that covariance on trees. PTP is especially useful for evaluating DNA sequence data that may have a high level of homoplasy. A three-step PTP procedure for locating covaried characters is presented.

Animals↗

Phylogenomics and the number of characters required for obtaining an accurate phylogeny of eukaryote model species.

MOTIVATION: Through the most extensive phylogenomic analysis carried out to date, complete genomes of 11 eukaryotic species have been examined in order to find the homologous of more than 25,000 amino acid sequences. These sequences correspond to the exons of more than 3000 genes and were used as presence/absence characters to test one of the most controversial hypotheses concerning animal evolution, namely the Ecdysozoa hypothesis. Distance, maximum parsimony and Bayesian methods of phylogenetic reconstruction were used to test the hypothesis. RESULTS: The reliability of the ecdysozoa, grouping arthropods and nematodes in a single clade was unequivocally rejected in all the consensus trees. The Coelomata clade, grouping arthropods and chordates, was supported by the highest statistical confidence in all the reconstructions. The study of the dependence of the genomes' tree accuracy on the number of exons used, demonstrated that an unexpectedly larger number of characters are necessary to obtain robust phylogenies. Previous studies supporting ecdysozoa, could not guarantee an accurate phylogeny because the number of characters used was clearly below the minimum required.

Animals↗

Chromosomal and nonchromosomal mutations affecting the "killer character" of Saccharomyces cerevisiae.

The "killer character" of Saccharomyces cerevisiae is a nonchromosomal genetic element which imparts to cells carrying it (a) the ability to kill cells which lack it, by secreting the soluble macromolecular killer substance and (b) the ability to resist the killing effects of the killer substance.-Mutants have been isolated from S. cerevisiae carrying the "killer character". Mutants were found in two nuclear genes (mak1 and mak2) involved in maintenance of the genetic element of the killer character. Mutants in three other nuclear genes could maintain the cytoplasmic genetic element normally; two of these were able to express resistance to killing, but not the ability to kill (kex1 and kex2), while the third could express the killing function, but was sensitive to killing and is thus a "suicide" strain (rex1). These five nuclear genes were all distinct.-Several mutants were detected which showed non-mendelian segregation indicating mutation of the "cytoplasmic" genetic element. Some such mutants had normal resistance to killing but were either unable to kill at all or showed marked reduction in the ability to kill. Others had lost both killing ability and resistance. None were suppressive.-Two nonkilling mutants, both of which showed cytoplasmic inheritance, were mated. A large, but variable, proportion of diploid colonies, plated after several generations of growth, showed normal killing which has then stably inherited on further subcloning.

Cell Nucleus↗

A method for identification of the expression mode and mapping of QTL underlying embryo-specific characters.

Embryos of crop seeds are one of the major sources of the plant protein and lipid for human nutrition. The genetic expression for embryo-specific characters in crop seeds can be controlled exclusively by the embryo or the maternal genotypes and sometimes by both simultaneously. However, current methods for mapping quantitative trait loci (QTLs) underlying characters of maternal plants have not been effective in dealing with the QTL analysis of embryo characters. On the basis of the expression feature of embryo, a statistical method was proposed for the identification of expression mode and mapping of QTL controlling embryo traits. The maximum likelihood method implemented via the expectation maximization algorithm was used to estimate parameters of a putative embryo-specific QTL. The QTL expression mode was identified by the likelihood ratio test statistic. Statistical power and other properties of the proposed method were investigated under a variety of scenarios through simulation studies. The results showed that the mapping method neglecting the effects of embryo genotype or maternal effects could neither identify the expression mode of QTL nor estimate its genetic effects accurately, whereas the proposed method could effectively map the embryo-specific QTL of various expression modes.

Algorithms↗

Fluctuating asymmetry of morphometric characters in house mice: the effects of age, sex, and phenotypical extremeness in a randombred population.

Fluctuating asymmetry (FA) was calculated for nine paired morphometric characters in a randombred population of house mice in order to assess the effects of age, sex, and phenotypical extremeness. FA did not significantly vary between sexes for any of the characters, and age proved to be significant only for innominate length. Additionally, FA values in high extreme individuals and low extreme individuals were compared to those for intermediate individuals to discover whether extreme individuals showed increased fluctuating asymmetry (decreased developmental stability) due to increased levels of homozygosity. Differences in fluctuating asymmetry magnitudes were found between the groups, although the extreme individuals did not consistently show increased fluctuating asymmetry and FA differences also showed no significant association with the level of heritability of each character. Potential reasons for these findings are discussed.

Aging↗