Sex determination from the occipital condyle: discriminant function analysis in an eighteenth and nineteenth century British sample

Fragmentary human remains compromised by different types of inhumation, or physical insults such as explosions, fires, and mutilations may frustrate the use of traditional morphognostic sex determination methods. The basicranium is protected by a large soft tissue mass comprising muscle, tendon, and ligaments. As such, the occipital region may prove useful for sex identification in cases of significantly fragmented remains. The aims of this paper are to (1) evaluate sexual dimorphism in British cranial bases by manually recorded unilateral and bilateral condylar length and width as well as intercondylar measurements and (2) develop discriminant functions for sex determination for this cranial sample. The crania selected for this study are part of the 18th-19th century documented skeletal collection of St. Bride's Church, Fleet Street, London. Adult human skulls (n = 146; male75/female71) were measured to derive statistical functions. Results indicated that expression of sexual dimorphism in the occipital condylar region within the St. Bride's population is demonstrable but low. Crossvalidated classification accuracy ranged between 69.2 and 76.7%, and sex bias ranged from 0.3 to 9.7%. Therefore, the use of discriminant functions derived from occipital condyles, especially in British skeletal populations, should only be considered in cases of fragmented cranial bases when no other morphognostic or morphometric method can be utilized for sex determination.     

Implications of influence function analysis for sliced inverse regression and sliced average variance estimation

Sliced inverse regression, sliced inverse regression II andsliced average variance estimation are three related dimension-reductionmethods that require relatively mild model assumptions. As anapproximation for the relative influence of single observationsfrom large samples, the influence function is used to comparethe sensitivity of the three methods to particular observationaltypes. The analysis carried out here helps to explain why thereis a lack of agreement concerning the preferability of thesedimension-reduction procedures in general. An efficient sampleversion of the influence function is also developed and evaluated.     

Age estimation of adolescent and young adult male and female skeletons II, epiphyseal union at the upper limb and scapular girdle in a modern Portuguese skeletal sample

This study completes previously reported ages for timing of epiphyseal union in the postcranial skeleton in a recent sample, with data from the scapula, clavicle, humerus, radius, and ulna. A sample of 121 individuals between the ages of 9 and 29 (females = 65, males = 56) was derived from the Lisbon documented skeletal collection. Epiphyseal union was scored at 16 anatomical locations, using a three-stage scheme: 1) no union; 2) partial union; and 3) completed union, all traces of fusion having disappeared. In the upper limb, the epiphyses of the elbow are the first to fuse at around 11 to 15 years of age, followed by those of the shoulder and wrist. In the scapular girdle, the coracoid area is the first to fuse, followed by the glenoid surface and remaining epiphyses, with the medial clavicle fusing last, by the age of 25-27. There is a sex difference in maturation, with females showing an advance relative to males of about 2 years in the upper limb. Sex differences in maturation are less noticeable in the scapular girdle, but data suggest that females are also ahead of males. Results suggest overall similar age ranges for stages of union as previous dry bone observations, but some studies show significant divergences which seem to derive from methodological issues. Although some radiographic reference standards provide comparable age ranges, they should probably be avoided when aging skeletal remains.     

Epiphyseal union at the innominate and lower limb in a modern Portuguese skeletal sample, and age estimation in adolescent and young adult male and female skeletons

This study documents the timing of epiphyseal union at the innominate, femur, tibia, and fibula in a sample of modern Portuguese skeletons. The sample was taken from the Lisbon documented skeletal collection and it is comprised of 57 females and 49 males between the ages of 9 and 25. Individuals are mostly representative of the middle-to-low socioeconomic segment of the early 20th century Lisbon population. A total of 18 anatomical locations were examined for epiphyseal union using a three-stage scheme: 1) no union; 2) partial union; and 3) completed union, all traces of fusion having disappeared. Results show that females are ahead of males by 1-2 years and provide similar age ranges for the stages of union than previous studies. Some variations between studies can be explained by methodological differences between dry bone and radiographic observations. However, a review of the literature indicates that socioeconomic status of a given population seems to be of decisive importance to the rate of ossification and most of the differences in skeletal maturation across studies and populations can probably be ascribed to different levels of social and economic development of the societies in which the individuals lived. Although the effects of socioeconomic status in skeletal maturation are greater during childhood than in adolescence, as to make the timing of epiphyseal union a reliable estimate of age at death, they are not negligible and age estimates should take into account the likely socioeconomic status of the individual, whose remains are under examination.     

Sex differences in play among western lowland gorilla (Gorilla gorilla gorilla) infants: implications for adult behavior and social structure

Mammalian play is believed to improve motor skills as well as facilitate the development of social relationships. Given the marked sexual dimorphism in gorilla body size and the role assumed by the male in protecting the group from conspecifics and predators, the motor-training hypothesis of play predicts that male infants should exhibit higher frequencies of social play than female infants, and that males should prefer to play with other males. Given that adult female gorillas are strongly attracted to adult breeding males and form only weak social bonds with unrelated adult females, the social-relationship hypothesis of play predicts that female infants should prefer to play with males. These hypotheses were tested in a 22-month study of 12 gorilla infants, aged between 0-5 years, living in three zoological parks in Chicago and Atlanta. Consistent with the hypotheses, male infants played more than female infants did, and both male and female infants preferred to play with males rather than with females. These findings suggest that sex differences in play in the great apes and other primates can be predicted by the characteristics of adult behavior and social structure above and beyond the patterns of sex-biased dispersal or coalition formation with same-sex kin.     

Inference of the distribution of fitness effects of mutations is affected by single nucleotide polymorphism filtering methods,sample size and population structure

The distribution of fitness effects (DFE) of new mutations has been of interest to evolutionary biologists since the concept of mutations arose. Modern population genomic data enable us to quantify the DFE empirically, but few studies have examined how data processing, sample size and cryptic population structure might affect the accuracy of DFE inference. We used simulated and empirical data (from Arabidopsis lyrata) to show the effects of missing data filtering, sample size, number of single nucleotide polymorphisms (SNPs) and population structure on the accuracy and variance of DFE estimates. Our analyses focus on three filtering methods—downsampling, imputation and subsampling—with sample sizes of 4–100 individuals. We show that (1) the choice of missing-data treatment directly affects the estimated DFE, with downsampling performing better than imputation and subsampling; (2) the estimated DFE is less reliable in small samples (<8 individuals), and becomes unpredictable with too few SNPs (<5000, the sum of 0- and 4-fold SNPs); and (3) population structure may skew the inferred DFE towards more strongly deleterious mutations. We suggest that future studies should consider downsampling for small data sets, and use samples larger than 4 (ideally larger than 8) individuals, with more than 5000 SNPs in order to improve the robustness of DFE inference and enable comparative analyses.     

Corrigenda to “estimation of stature from long limb bones of American Whites and Negroes,” American Journal Physical Anthropology (1952)

The amount of disparity between the lengths of the radii and ulnae of 177 Negro female skeletons of the Terry Collection was questioned. An error was found and corrections have been made in the relevant statistics and tables.     

Sex and genetic structure across age groups in populations of the European marine invasive mollusc, Crepidula fornicata L. (Gastropoda)

In long-lived species, variance in allele frequencies over time may vary according to the number of generations contributing to progeny. Here, we investigate the temporal stability of genetic diversity and structure in relation to sex and age in introduced populations of Crepidula fornicata , an exotic gastropod that successfully invaded Europe . This protandrous species has the potential to change sex from male to female according not only to age, but also to local sex ratio (social environment). This mechanism may adjust the reproduction efficiency across different cohorts and thus decrease the likelihood of genetic drift in the following generations. Based on crude demographic structure analysis in two spatially closed introduced French populations, we demonstrate that recruitment is discontinuous. Although timing of sex change is different across populations, both populations have a similar age structure characterized by distributions of males and females changing across generations. Using five microsatellite loci, we show that both populations display a temporal genetic homogeneity and a stability in genetic diversity indices across age groups examined. Our results highlight that the social control of sex change in C. fornicata has strong implications to the maintenance of high genetic diversity by enhancing breeding across several generations at each reproductive season.  © 2007 The Linnean Society of London, Biological Journal of the Linnean Society , 2007, 90 , 365–374.     

Population structure, age and growth of macrourid fish from the upper slope of the Eastern-Central Mediterranean

Hymenocephalus italicus , Nezumia sclerorhynchus and Coelorhynchus coelorhynchus were found in 80, 75 and 69% of trawl hauls carried out between 250 and 750 m on the upper slope of the Ionian Sea. The abundance of H. italicus and N. sclerorhynchus increased with depth while in C. coelorhynchus the highest densities were observed in the uppermost 500 m. In all three grenadiers the average size increased with depth. The populations had a multimodal sizefrequency distribution. In H. italicus adults were generally more represented in the population and the abundance of juveniles varied with seasons. In N. sclerorhynchus and mostly in C. coelorhynchus the bulk of the population was generally made up of small individuals the year round. In N. sclerorhynchus a seasonal pattern was shown in the depth distribution of juveniles. The sex ratio was in favour of females in larger specimens and in each bathymetric stratum. Seasonal growth was detected in the otoliths of the three species. Maximum ages were around 9 years in H. italicus and N. sclerorhynchus ; 8 years in C. coelorhynchus . Although some differences have been detected in the population ecology of the three species, they are characterized by a prolonged recruitment during the year, slow growth, longevity and delayed maturity.     

Demographic population structure of black howler monkeys in fragmented and continuous forest in Chiapas,Mexico: Implications for conservation

For wild primates, demography studies are increasingly recognized as necessary for assessing the viability of vulnerable populations experiencing rapid environmental change. In particular, anthropogenic changes such as habitat loss and fragmentation can cause ecological and behavioral changes in small, isolated populations, which may, over time, alter population density and demographic structure (age/sex classes and group composition) in fragment populations relative to continuous forest populations. We compared our study population of Endangered black howler monkeys (Alouatta pigra) in 34 forest fragments around Palenque National Park (PNP), Mexico (62 groups, 407 individuals), to the adjacent population in PNP, protected primary forest (21 groups, 134 individuals), and to previous research on black howlers in fragments in our study area (18 groups, 115 individuals). We used χ² and Mann–Whitney U tests to address the questions: (a) what is the current black howler demographic population structure in unprotected forest fragments around PNP? (b) How does it compare to PNP's stable, continuous population? (c) How has it changed over time? Compared to the PNP population, the fragment populations showed higher density, a significantly lower proportion of multimale groups, and significantly fewer adult males per group. The population's age/sex structure in the fragmented landscape has been stable over the last 17 years, but differed in a higher proportion of multifemale groups, higher density, and higher patch occupancy in the present. In the context of conservation, some of our results may be positive as they indicate possible population growth over time. However, long-term scarcity of adult males in fragments and associated effects on population demographic structure might be cause for concern, in that it may affect gene flow and genetic diversity. The scarcity of adult males might stem from males experiencing increased mortality while dispersing in the fragmented landscape, whereas females might be becoming more philopatric in fragments.     

Annual survival rate and age structure of habu,Trimeresurus flavoviridis (Viperidae), on Minna island,Japan: Estimation from removal trapping

A population of a viperid snake,Trimeresurus flavoviridis, was studied over 10 years by removal trapping on a small subtropical island in Japan. The sex ratio of trapped individuals changed seasonally, but was not biased to either sex in the whole sample of 258 individuals. The age of each individual was estimated through the size structure and the age-size relationship. The minimum number of individuals at the beginning of the study was estimated through accumulating older individuals trapped in the subsequent years. By assuming an annual natural survival rate in the course of this accumulation, an age structure was simulated which led to calculate a resulted natural survival rate. The assumed rate of 0.62 fitted best to the resulted one. The annual trapped proportion estimated on the simulated absolute number of individuals was higher in older individuals than in younger ones with the overall mean of 16%.     

CSSI-PRO: a method for secondary structure type editing,assignment and estimation in proteins using linear combination of backbone chemical shifts

Estimation of secondary structure in polypeptides is important for studying their structure, folding and dynamics. In NMR spectroscopy, such information is generally obtained after sequence specific resonance assignments are completed. We present here a new methodology for assignment of secondary structure type to spin systems in proteins directly from NMR spectra, without prior knowledge of resonance assignments. The methodology, named Combination of Shifts for Secondary Structure Identification in Proteins (CSSI-PRO), involves detection of specific linear combination of backbone ¹H^α and ¹³C′ chemical shifts in a two-dimensional (2D) NMR experiment based on G-matrix Fourier transform (GFT) NMR spectroscopy. Such linear combinations of shifts facilitate editing of residues belonging to α-helical/β-strand regions into distinct spectral regions nearly independent of the amino acid type, thereby allowing the estimation of overall secondary structure content of the protein. Comparison of the predicted secondary structure content with those estimated based on their respective 3D structures and/or the method of Chemical Shift Index for 237 proteins gives a correlation of more than 90% and an overall rmsd of 7.0%, which is comparable to other biophysical techniques used for structural characterization of proteins. Taken together, this methodology has a wide range of applications in NMR spectroscopy such as rapid protein structure determination, monitoring conformational changes in protein-folding/ligand-binding studies and automated resonance assignment. Electronic supplementary material  The online version of this article (doi:) contains supplementary material, which is available to authorized users.     

Tephrocarpin,a pterocarpan phytoalexin from Tephrosia bidwilli and a structure proposal for acanthocarpan

The isoflavonoids (-)-6aR; 11aR-maackiain, (-)-6aS; 11aS-pisatin and (-)-6aR; 11aR-4-methoxy- maackiain have been isolated as p