Sex estimation of unknown individuals is one of the primary goals of biological anthropologists. The adult skull is often used in sex estimation, due to its marked traits of sexual dimorphism. However, estimating skeletal sex from juvenile remains is controversial due to the uncertainty surrounding the presence of sexual dimorphism prior to sexual maturity. The aim of this study was to apply geometric morphometric shape analysis to non-adult skulls to explore patterns of sexual dimorphism during ontogeny and to identify the most dimorphic region(s) of the skull. Computed tomographic (CT) scans were acquired from the New Mexico Decedent Image Database comprising 101 male and 99 female skulls ranging in age between birth and 21 years. Three-dimensional coordinates (42 landmarks and 290 curve semilandmarks) were placed on surface models generated from the CT scan and four landmark configurations were evaluated: the anterior cranium, mandible, supraorbital margin and glabella, and mastoids. Generalized Procrustes superimposition, principal component analysis, and discriminant function analysis were applied to all four configurations independently. In line with previous studies, results demonstrated a low degree of sexual dimorphism and poor cross-validated classification accuracy in individuals less than 13 years of age, with the highest accuracy in the mandible and the anterior cranium. The shape similarities found between the sexes prior to 13 years of age prevent consideration of the craniofacial bones as a sex indicator in the early stages of development but support its use in adolescent individuals, especially when using multiple regions of the face.

No description available.

No description available.

<p>Geometric morphometrics (GM) provides a complementary method for studying morphology. Snails have been analyzed in the field of morphometrics since the 1960s because their shells serve to record information about their life histories and environmental habitats. In this thesis, we present an annotated bibliography for advancements in GM, using applications to snail shells as a representative case study. We categorize 30 publications into four fields, morphology, ecology, taxonomy and evolution, and show that developments have been unequal among them. We conclude by predicting that GM applications on snail shells will increase, especially in hybrid fields, such as, ecotoxicology, which currently are underrepresented. As a demonstration, we describe an experiment wherein we applied GM as a complementary morphological method to study the garden snail species Cepea nemoralis in an organophosphatepesticide, ecotoxicological setting. We conclude by showing that GM reveals subtle morphological differences among treatment groups with no relation to pesticide dosage.</p> / Master of Science (MSc)

Locomotion, moving around in our complex world is as crucial to many animals as finding food, shelter or a mate. The intricate interplay between the brain, nerves, muscles, tendons and bones allows for a variety of gaits. Animal movement has been studied in many environments like water, land or air, often focusing on one habitat alone. These studies were crucial in establishing the principles of animal locomotion, but don’t always reflect the intricate lifestyle of an animal. More often then not, animals will encounter different surface structures (such as grass, sand, soil, forest debris) or even interact between different habitats, such as at the water-land interface. Fewer studies have focused on understanding how movement changes when physical conditions vary. A turtle swimming in a dense, buoyancy-dominated water habitat transitioning to a walking on gravity-dominated terrestrial habitat is poorly understood and may open insight into new locomotor strategies. Turtles are an interesting study subject to study water-land transitions, as their spines are fused to their carapace, isolating any movement generation to their limbs only. In this thesis, I chose different size red-eared slider (Trachemys scripta elegans) turtles to investigate their locomotion during discreet water depth, as well as during shallow water locomotion and investigated whether bone shape can be predictive of the environment they live in. / Biology

Sheep and goat formed the foundation of pastoral activity across the Central Asian steppe through the Bronze Age. Theories of pastoral activity have assumed that flocks were uniform in association with ethnic groups that crossed the steppe with new ceramic forms and technologies. This study investigated differences between flocks of sheep and goat across the eastern Kazakh steppe in the Late and Final Bronze Age to elucidate the potential for animal exchange and mobility. Geometric morphometric techniques were applied to archaeological astragali from Ovis aries and Capra hircus. The methods for measurement and analysis were carefully developed to control only for inherited characteristics that relate to environmentally driven adaptations in the movement of the hind limb. Efficiency of movement in this limb is tied to survival and reproductive success of animals. Specimens were selected from three archaeological sites located in different ecozones across the steppe to maximize ecological variability. Geometric morphometric results revealed that flocks of sheep exhibited unique astragalus morphology, indicating that crossbreeding and exchange did not occur between sites. These sites were also subjected to full zooarchaeological analyses to investigate variability of economic subsistence patterns. The total number of species as well as investigations into survival and skeletal body part representation revealed that each site had unique subsistence patterns that were related to local ecological resource availability, despite material culture links. This variability in subsistence patterns and flock uniformity indicate that animal trade was not a feature of steppe networks. Local lifeways were specific to small patches of the steppe, despite overarching shared material cultures.

Climate has a selective influence on nasal cavity morphology. Due to the constraints of cranial integration, naturally selected changes in one structure necessitate changes in others in order to maintain structural and functional cohesion. The relationships between climate and skull/nasal cavity morphology have been explored, but the integrative role of nasal variability within the skull as a whole has not. This thesis presents two hypotheses: 1) patterns of craniofacial integration observed in 2D can be reproduced using 3D geometric morphometric techniques; 2) the nasal cavity exhibits a higher level of covariation with the lateral cranial base than with other parts of the skull, since differences in nasal morphology and basicranial breadth have both been linked to climatic variables. The results support the former hypothesis, but not the latter; covariation observed between the nasal cavity and other cranial modules may suggest that these relationships are characterized by a unique integrative relationship. / February 2016

Thesis (PhD) - Stellenbosch University, 2011. / ENGLISH ABSTRACT: The Albertine Rift is characterized by a heterogeneous landscape which may, at least in part, drive the exceptional biodiversity found across all taxonomic levels. Notwithstanding the biodiversity and beauty of the region, large areas are poorly understood because of political instability with the inaccessibility of most of the region as a contributing factor. The majority of studies in the Albertine Rift have focussed on charismatic mega fauna, with other taxa receiving less attention. One of the taxonomically and numerically more abundant small mammal genera is the genus Praomys, an African endemic with a wide distribution range spanning most of west, central and east Africa. Four species are typically recognized from the Albertine Rift namely P. degraaffi, P. jacksoni, P. misonnei and P. verschureni. In this study I used a combination of DNA sequence data (mitochondrial control region, mitochondrial cytochrome b and 7th intron of the nuclear ß-fibrinogen gene) as well as morphometric data (traditional and geometric) to investigate the systematics of the Praomys taxa occurring in the Albertine Rift. To allow meaningful DNA assessments and in an attempt to identify potential drivers of diversifications, other Praomys species were also included from public sequence data bases for comparisons. The main focus was on P. jacksoni (the numerically most abundant taxon; also, up to 2005, all Praomys in the Albertine Rift were mostly collected as “jacksoni”) and P. degraaffi (an Albertine Rift endemic). A surprising finding was the presence of P. mutoni; this represents a range extension for this species into the Albertine Rift. Distinct evolutionary lineages were found in both P. jacksoni (confirmed by sequence data as well as morphometrics) as well as P. degraaffi (based only on sequence data; insufficient samples precluded a full morphometric investigation). These lineages (in both P. jacksoni as well as P. degraaffi) appear to be separated along a north – south gradient; however, further investigations should confirm this. To further investigate the genetic patterns at local scales across the Albertine Rift, as well as introgression between species as revealed by sequence data, a species-specific microsatellite library was developed for P. jacksoni. Twelve polymorphic markers were identified of which nine also amplified in P. degraaffi. Introgression was confirmed between the two focal species with almost 20% of the individuals analysed being jacksoni-degraaffi hybrids. This is perhaps not so surprising given that there is considerable overlap in their ranges (between ~ 1500 m a.s.l. to 2450 m a.s.l.) as well as the relative ages of the species (the divergence time between these two species were estimated at 3.8 Mya). The presence of distinct lineages within each of these species was confirmed by microsatellite analyses (these lineages diverged approcimately at same time at ca. 3.4 Mya). As suggested by sequence and morphometric data, these lineages had a largely north – south distribution but with considerable overlap in the central Albertine Rift in the vicinity of Lake Kivu. The phylogeographic patterns obtained for both focal species were not consistent with the physical barriers such as the rivers, lakes or mountains, nor were they exclusively associated with Pleistocene phenomena such as the change of the course of the rivers or uplift; rather, the lineages predate the Pleistocene and fall firmly in the Pliocene (>3 Mya). Biogeographically, the north - south location of lineages with a centrally - located contact zone could be a result of parapatric speciation due to habitat fragmentation or past climate change, followed by secondary contact. Barcoding using genetic information provides a useful tool to identify unknown taxa, cryptic diversity or where different life stages are difficult to identify. From an invasion biology perspective, it allows for the rapid identification of problem taxa against a known data base. By adopting such a barcoding approach (senso lato), the presence of three invasive rodents was confirmed in the Democratic Republic of the Congo (DRC); these are Rattus rattus (black rat), R. norvegicus (Norway rat) and Mus musculus domesticus (house mouse). A comparison with global data available for these species revealed two possible introduction pathways namely via the shipping port at Kinshasa/Matadi (with strong links to Europe) and via the slave trade routes in the east (strong links to the Arab world and the east). Of these three taxa, only R. rattus is currently documented from the DRC although the others have received mention in the gray literature. These findings draw attention to the lack of any official policy regarding biosecurity in the DRC, and argue for the development of strict control measures to prevent further introductions. / AFRIKAANSE OPSOMMING: Die Albertine Rift word gekenmerk deur 'n heterogene landskap wat kan, ten minste gedeeltelik, die uitsonderlike biodiversiteit wat oor al die taksonomiese vlakke gevind word teweeg bring. Nieteenstaande die biodiversiteit en die skoonheid van die streek, is groot gebiede onbekend as gevolg van politieke onstabiliteit met die ontoeganklikheid van meeste van die streek as 'n bydraende faktor. Die meerderheid van studies in die Albertine Rift het gefokus op die charismatiese mega fauna, met ander taxa wat minder aandag ontvang. Een van die taksonomies en numeries meer volop klein soogdier genera is die genus Praomys, 'n Afrika endemiese groep met 'n wye verspreiding wat strek oor die grootste deel van van wes-, sentraal en oos-Afrika. Vier spesies word tipies erken van die Albertine Rift naamlik P. degraaffi, P. jacksoni, P. misonnei en P. verschureni. In hierdie studie het ek 'n kombinasie van DNA volgorde data (mitochondriale beheer streek, mitochondriale sitochroom b en 7de intron van die kern ß-fibrinogeen geen) sowel as morfometriese data (tradisioneel en meetkundig) gebruik om die sistematiek van die Praomys taxa te ondersoek. Om betekenisvolle DNA aanslae toe te laat en in 'n poging om potensiële aandrywers van diversiteit te identifiseer, is ander Praomys spesies van openbare volgorde data basisse vir vergelykings ingesluit. Die hooffokus is op P. jacksoni (die numeries volopste takson, ook, tot en met 2005 is alle Praomys in die Albertine Rift meestal as "jacksoni" versamel) en P. degraaffi ('n Albertine Rift endemiese spesie). 'n Verrassende bevinding was die teenwoordigheid van P. mutoni, dit verteenwoordig' n verspreidingsuitbreiding vir hierdie spesie in die Albertine Rift. Bepaalde evolusionêre ontwikkelingslyne was in beide P. jacksoni (bevestig deur die volgorde data sowel as morfometrie) sowel as P. degraaffi (wat slegs gebaseer is op die volgorde data, onvoldoende monsters verhinder 'n volledige morfometriese ondersoek). Hierdie lyne (in beide P. jacksoni sowel as P. degraaffi) word geskei langs 'n noord - suid gradiënt, maar verdere ondersoeke moet dit bevestig. Om die genetiese patrone op plaaslike skaal oor die Albertina Rift verder te ondersoek, sowel as introgressie tussen spesies soos geopenbaar deur die volgorde data, is 'n spesie-spesifieke mikrosatelliet biblioteek ontwikkel vir P. jacksoni. Twaalf polimorfiese merkers is geïdentifiseer waarvan nege ook amplifiseer in P. degraaffi. Introgressie is bevestig tussen die twee brandpunt spesies met byna 20% van die individue wat ontleed is as jacksoni-degraaffi basters. Dit is miskien nie so verbasend gegee dat daar aansienlike oorvleueling is in hul gebiede (tussen ~ 1500 m bo seespieel tot 2450 m bo seespieel), sowel as die relatiewe ouderdomme van die spesies (die divergensie tussen hierdie twee spesies is geskat op 3,8 Mya). Die teenwoordigheid van verskillende lyne in elk van hierdie spesies is bevestig deur mikrosatelliet ontleding (hierdie lyne het gedivergeer ongeveer 3,4 Mya). Soos voorgestel deur die DNA volgorde en morfometriese data, het hierdie lyne 'n grootliks noorde – suid verspreiding, maar met 'n aansienlike oorvleueling in die sentrale Albertine Rift in die omgewing van die Kivumeer. Die filogeografiese patrone wat vir beide die brandpunt spesies gevind is nie in ooreenstemming met die fisiese struikelblokke soos die riviere, mere of berge nie, en hou ook nie uitsluitlik verband met die Pleistoseen verskynsels soos die verandering van die loop van die riviere nie; die afstammelinge is eerder veel ouer as die Pleistoseen en val binne die Plioseen (> 3 Mya). Biogeografies, die noorde – suid plasing van die lyne met 'n sentraal geleë kontak sone kan die gevolg wees van parapatriese spesiasie te danke aan habitatfragmentasie as gevolg van verandering in die klimaat, gevolg deur 'n sekondêre kontak. Strepieskodering met behulp van genetiese inligting verskaf 'n nuttige instrument om onbekend taxa, kriptiese diversiteit of waar verskillende lewensfases moeilik is om te identifiseer, te identifiseer. Vanuit 'n indringerbiologie perspektief, maak hierdie benadering dit moontlik om vinnige identifikasies van die probleem taksa teen' n bekende data basis te bekom. Deur gebruik te maak van so 'n strepieskoderingsbenadering (senso lato), is die teenwoordigheid van drie indringende knaagdiere bevestig in die Demokratiese Republiek van die Kongo (DRK), naamlik Rattus rattus (swart rot), R. norvegicus (Noorweë rot) en Mus musculus domesticus (huis muis). 'n Vergelyking met die globale data wat beskikbaar is vir hierdie spesies het aan die lig gebring dat twee moontlike betree-roetes bestaan, naamlik via die skeepshawe by Kinshasa / Matadi (met sterk skakels na Europa), en via die slawehandel roetes in die ooste (sterk skakels na die Arabiese wêreld en die ooste) . Van hierdie drie taxa, is tans slegs R. rattus van die Demokratiese Republiek van die Kongo gedokumenteer, hoewel die ander melding ontvang in die grys literatuur. Hierdie bevindinge vestig die aandag op die gebrek aan enige amptelike beleid ten opsigte van biosekuriteit in die Demokratiese Republiek van die Kongo, en argumenteer vir die ontwikkeling van streng beheermaatreëls om verdere indringerspesies te voorkom.

<p>During the last six million years, humans shifted from a primarily arboreal lifestyle to a habitually bipedal, terrestrial lifestyle. Australopithecus had a significant bipedal component to its locomotion; whether suspensory and climbing behavior were also important has remained unclear. Morphological features of the forelimb have been linked to locomotor differences among primates, but the interpretation of human fossils has remained problematic.</p><p>This dissertation examined the total morphological pattern of the forelimb, specifically the functional integration of the musculature and joint systems. This approach employed both geometric morphometrics and a biomechanical modeling approach to studying how and how well the forelimb morphology of living suspensory and quadrupedal primates, as well as humans and fossil hominins, accommodate climbing and suspensory locomotion. Data collected with a microscribe 3-D digitizer on the scapula, humerus, radius, and ulna of Australopithecus sediba, Australopithecus afarensis, and Homo erectus were compared to a sample of Homo sapiens, Pan troglodytes, Pan paniscus, Gorilla gorilla, Pongo pygmaeus, Hylobates lar, and Macaca fuscicularis.</p><p>The hominin upper limb is a rich mosaic of primitive and derived traits. The blade of Australopithecus sediba, although appearing most similar to extant orangutans, is in fact functionally most similar to chimpanzees. The overall morphology of the australopith elbow joint appears most similar to Pan, as does the elbow joint of Homo erectus, suggesting that the modern human configuration happened more recently than 1.5 million years ago. </p><p>Au. afarensis and Au. sediba share important similarities, but are clearly distinct species. While their overall elbow joint shape is strikingly similar, the articular surface is not identical. Au. afarensis is more similar in this respect to Pan and Homo, while Au. sediba is more similar to extant taxa that spend substantially more time engaging in vertical climbing and suspensory behavior.</p><p>The results from this study support previous interpretations that not all australopiths across time were employing the same locomotor repertoire. While this study does not present unambiguous conclusions regarding early hominin arboreal locomotion, this study suggests that the morphology of the upper limb is varied, and caution must be taken when interpreting single skeletal elements in the hominin fossil record.</p> / Dissertation

Drastic alterations to the North American Southwest’s hydrology have highly influenced resident fish communities. In New Mexico and Texas, the Pecos River has been severely altered as a result of water manipulation, isolating backwaters and various habitats that were once connected to the main river. Cyprinodon pecosensis (Pecos pupfish) has been highly impacted due to the effects of anthropogenic water manipulation, as well as species introductions. Cyprinodon pecosensis populations have become isolated and scattered, residing in sinkholes, remnant lakes, and static backwaters, thus creating numerous micropopulations. The purpose of this study was to assess the morphological variation in cranial features that occur in response to varied habitats, especially in terms of environmental factors and species co-occurrence. Landmark-based geometric morphometrics was used to assess shape variation across the aforementioned micropopulations comprising four general habitat types and 27 different localities, each with varied community structure and salinity. Results from this study suggest that head and mandible morphology vary temporally, with year to year variation, as well as among different localities. The head morphology of C. pecosensis was most heavily influenced by habitat type and localities within habitat types, but was largely canalized with the exception of localities classified as deep sinkholes. Year to year variation and localities among habitat types were the most influential factors associated with mandible morphology, but there was strong overlap among the convex hulls that defined regions of morphospace for habitat types. As C. pecosensis is a threatened species, this research has important implications for future conservation and management. Additionally, these results could further aid in the understanding of preserving species in fragmented landscapes.