News and views: Response to 'Non-metric dental traits and hominin phylogeny' by Carter et al., with additional information on the Arizona State University Dental Anthropology System and phylogenetic 'place' of Australopithecus sediba

Here we respond to Carter and colleagues’ (2013) remarks concerning our Science article (Irish et al., 2013). The goals for that article were to: 1) further characterize Australopithecus sediba by describing 22 Arizona State University Dental Anthropology System (ASUDAS) traits, 2) compare the traits in A. sediba with those previously recorded in other hominin samples, and 3) present initial phylogenetic analyses using these data. Given the subset of traits, out of 125 possible (below), and small A. sediba sample, our conclusion was that the results “further define [the species’] position relative to other genera,” but that “the phylogenetic place of A. sediba has not been settled” (Irish et al., 2013: 1233062–12330624). These goals were met, as a basis for more comprehensive study. Below we summarize and reply to the eight objections of Carter et al. (2013), while: 1) demonstrating that there is a strong theoretical basis for using the ASUDAS in phylogenetic analyses, 2) presenting results (which corroborate previous cladistic analyses) that are congruent using different methodological approaches, and 3) introducing new results using a second outgroup, Pan troglodytes, that fully uphold our original analysis

The apportionment of tooth size and its implications in Australopithecus sediba versus other Plio-pleistocene and recent African hominins

Objectives: Australopithecus sediba is characterized further by providing formerly unpublished and refined mesiodistal and buccolingual crown measurements in the MH1 and MH2 specimens. After size correction, these data were compared with those in other fossil and recent samples to facilitate additional insight into diachronic hominin affinities. Materials and Methods: Six comparative samples consist of fossil species: A. africanus, A. afarensis, Homo habilis, Paranthropus robustus, P. boisei, and H. erectus. Others comprise H. sapiens and Pan troglodytes. Re-estimates of “actual” dimensions in damaged A. sediba teeth were effected through repeated measurements by independent observers. X-ray synchrotron microtomography allowed measurement of crowns obscured by matrix and non-eruption. Tooth size apportionment analysis, an established technique for intraspecific comparisons, was then applied at this interspecific level to assess phenetic affinities using both within- and among-group data. Results: Comparison of these highly heritable dimensions identified a general trend for smaller posterior relative to larger anterior teeth (not including canines), contra Paranthropus, that allies A. sediba with other australopiths and Homo; however, specific reductions and/or shape variation in the species’ canines, third premolars, and anterior molars relative to the other teeth mirror the patterning characteristic of Homo. Discussion: Of all samples, including east African australopiths, A. sediba appears most like H. habilis, H. erectus and H. sapiens regarding how crown size is apportioned along the tooth rows. These findings parallel those in prior studies of dental and other skeletal data, including several that suggest A. sediba is a close relative of, if not ancestral to, Homo

A comparison of hominin teeth from Lincoln Cave, Sterkfontein L/63, and the Dinaledi Chamber, South Africa

Prior to the recovery of Homo naledi from the Dinaledi Chamber of the Rising Star Cave system, the Middle Pleistocene fossil record in Africa was particularly sparse. With the large sample size now available from Dinaledi, the opportunity exists to reassess taxonomically ambiguous teeth unearthed at the nearby site of Sterkfontein. Teeth recovered from Lincoln Cave South and area L/63 at Sterkfontein have been considered ‘most probably Homo ergaster’ and ‘perhaps Archaic Homo sapiens’, respectively. Given the similarities shared between Lincoln Cave, area L/63, and the Dinaledi Chamber with regard to climatic/geologic depositional context and age, two teeth from the former sites, StW 592 and StW 585 respectively, were compared with corresponding tooth types of H. naledi from the Dinaledi Chamber. The results of our study indicate that the Lincoln Cave and area L/63 teeth are morphologically inconsistent with the variation recognised in the H. naledi teeth

Evidence of fatal skeletal injuries on Malapa Hominins 1 and 2

Malapa is one of the richest early hominin sites in Africa and the discovery site of the hominin species, Australopithecus sediba. The holotype and paratype (Malapa Hominin 1 and 2, or MH1 and MH2, respectively) skeletons are among the most complete in the early hominin record. Dating to approximately two million years BP, MH1 and MH2 are hypothesized to have fallen into a natural pit trap. All fractures evident on MH1 and MH2 skeletons were evaluated and separated based on wet and dry bone fracture morphology/characteristics. Most observed fractures are post-depositional, but those in the right upper limb of the adult hominin strongly indicate active resistance to an impact, while those in the juvenile hominin mandible are consistent with a blow to the face. The presence of skeletal trauma independently supports the falling hypothesis and supplies the first evidence for the manner of death of an australopith in the fossil record that is not attributed to predation or natural death

Factor XIIIa-positive dermal dendritic cells and HLA-DR expression in radial versus vertical growth-phase melanomas

Peer Reviewedhttp://deepblue.lib.umich.edu/bitstream/2027.42/72186/1/j.1600-0560.1998.tb01740.x.pd

Comparison of immunohistochemistry with immunoassay (ELISA) for the detection of components of the plasminogen activation system in human tumour tissue

Enzyme-linked immunosorbent assay (ELISA) methods and immunohistochemistry (IHC) are techniques that provide information on protein expression in tissue samples. Both methods have been used to investigate the impact of the plasminogen activation (PA) system in cancer. In the present paper we first compared the expression levels of uPA, tPA, PAI-1 and uPAR in a compound group consisting of 33 cancer lesions of various origin (breast, lung, colon, cervix and melanoma) as quantitated by ELISA and semi-quantitated by IHC. Secondly, the same kind of comparison was performed on a group of 23 melanoma lesions and a group of 28 breast carcinoma lesions. The two techniques were applied to adjacent parts of the same frozen tissue sample, enabling the comparison of results obtained on material of almost identical composition. Spearman correlation coefficients between IHC results and ELISA results for uPA, tPA, PAI-1 and uPAR varied between 0.41 and 0.78, and were higher for the compound group and the breast cancer group than for the melanoma group. Although a higher IHC score category was always associated with an increased median ELISA value, there was an overlap of ELISA values from different scoring classes. Hence, for the individual tumour cases the relation between ELISA and IHC is ambiguous. This indicates that the two techniques are not directly interchangeable and that their value for clinical purposes may be different. © 1999 Cancer Research Campaig

The Microanatomic Location of Metastatic Breast Cancer in Sentinel Lymph Nodes Predicts Nonsentinel Lymph Node Involvement

Background: The majority of sentinel node (SN) positive breast cancer patients do not have additional non-SN involvement and may not benefit from axillary lymph node dissection (ALND). Previous studies in melanoma have suggested that microanatomic localization of SN metastases may predict non-SN involvement. The present study was designed to assess whether these criteria might also be used to be more restrictive in selecting breast cancer patients who would benefit from an ALND. Methods: A consecutive series of 357 patients with invasive breast cancer and a tumorpositive axillary SN, followed by an ALND, was reviewed. Microanatomic SN tumor features (subcapsular, combined subcapsular and parenchymal, parenchymal, extensive localization, multifocality, and the penetrative depth from the SN capsule) were evaluated for their predictive value for non-SN involvement. Results: Non-SN metastases were found in 136/357 cases (38%). Microanatomic location and penetrative depth of SN metastases were significant predictors for non-SN involvement (<0.001); limited penetrative depth was associated with a low frequency of non-SN involvement with a minimal of 10%. Conclusions: Microanatomic location and penetrative depth of breast cancer SN metastases predict non-SN involvement. However, based on these features no subgroup of patients could be selected with less than 10% non-SN involvement

Tumor heterogeneity in neoplasms of breast, colon, and skin

<p>Abstract</p> <p>Background</p> <p>Different cell subpopulations in a single tumor may show diverse capacities for growth, differentiation, metastasis formation, and sensitivity to treatments. Thus, heterogeneity is an important feature of tumors. However, due to limitations in experimental and analytical techniques, tumor heterogeneity has rarely been studied in detail.</p> <p>Presentation of the hypothesis</p> <p>Different tumor types have different heterogeneity patterns, thus heterogeneity could be a characteristic feature of a particular tumor type.</p> <p>Testing the hypothesis</p> <p>We applied our previously published mathematical heterogeneity model to decipher tumor heterogeneity through the analysis of genetic copy number aberrations revealed by array CGH data for tumors of three different tissues: breast, colon, and skin. The model estimates the number of subpopulations present in each tumor. The analysis confirms that different tumor types have different heterogeneity patterns. Computationally derived genomic copy number profiles from each subpopulation have also been analyzed and discussed with reference to the multiple hypothetical relationships between subpopulations in origin-related samples.</p> <p>Implications of the hypothesis</p> <p>Our observations imply that tumor heterogeneity could be seen as an independent parameter for determining the characteristics of tumors. In the context of more comprehensive usage of array CGH or genome sequencing in a clinical setting our study provides a new way to realize the full potential of tumor genetic analysis.</p

The impact of point mutations in the human androgen receptor : classification of mutations on the basis of transcriptional activity

Peer reviewedPublisher PD

Coevolution in a One Predator–Two Prey System

Background: Our understanding of coevolution in a predator–prey system is based mostly on pair-wise interactions. Methodology and Principal Findings: Here I analyze a one-predator–two-prey system in which the predator’s attack ability and the defense abilities of the prey all evolve. The coevolutionary consequences can differ dramatically depending on the initial trait value and the timing of the alternative prey’s invasion into the original system. If the invading prey species has relatively low defense ability when it invades, its defense is likely to evolve to a lower level, stabilizing the population dynamics. In contrast, if when it invades its defense ability is close to that of the resident prey, its defense can evolve to a higher level and that of the resident prey may suddenly cease to evolve, destabilizing the population dynamics. Destabilization due to invasion is likely when the invading prey is adaptively superior (evolution of its defense is less constrained and fast), and it can also occur in a broad condition even when the invading prey is adaptively inferior. In addition, invasion into a resident system far from equilibrium characterized by population oscillations is likely to cause further destabilization