Late Miocene, 8 to 6 million years ago (Ma), climatic changes brought about dramatic floral and faunal changes. Cooler and drier climates that prevailed in the Late Miocene led to expansion of grasslands and retreat of forests at a global scale. Palaeogeographic studies suggest a global vegetation change causing an abrupt increase in C4 plant biomass while C3 biomass decreased between 8 and 6 Ma. Subsequent cycles of cooler and drier climatic conditions during the Mid-Pliocene (3.5–3 Ma) and Pleistocene (2.8–2.5; 1.8–1.6; 1.0–0.8 Ma) also caused forests to retreat into isolated refugia which played an important role in events that led speciation and radiation of Muroid (Order Rodentia, Superfamily Muroidea) rodents. Muroid rodents are comprised of 6 families (Placanthomyidae, Spalacidae, Calomyscidae, Nesomyidae, Cricetidae, and Muridae) and make up close to one-third of named mammal species. Family Cricetidae and Muridae are especially speciose (containing ~1600 species altogether) and much of the diversity within these families arose during or after the Late Miocene. My dissertation deals with the systematics and historical biogeography of these fast-evolving groups of rodents with an emphasis on the genera Apodemus and Hybomys (Subfamily Murinae, Family Muridae), and Neodon (Subfamily Arvicolinae, Family Cricetidae). Habitat specialists such as Apodemus that occupy broadleaf forests, and Hybomys that occupy rainforests were likely isolated in forest refugia after the retreat of forests facilitating allopatric speciation. While voles in the subfamily Arvicolinae, that are associated with grasslands, expanded their range when forests retreated and speciated when grasslands retreated. In addition, field work carried out for this project in Nepal included several localities previously not sampled for small mammals. Most of Nepal is poorly surveyed and the first chapter focuses on the history of mammalogical surveys in Nepal and adds new localities for small mammal species, expanding the known range of the Nepalese endemic Himalayan wood mouse (Apodemus gurkha).

Mesoamerica is considered a biodiversity hot spot with levels of endemism and species diversity likely underestimated. For mammals, the patterns of diversification of Mesoamerican taxa still are controversial. Reasons for this include the region's complex geologic history, and the relatively recent timing of such geological events. Previous studies, however, support the view that substantial migration between North (NA) and South America (SA) occurred prior or/and during the Great American Biotic Interchange (GABI) ~3.5 Ma. This was followed by repeated periods of isolation during Pleistocene climatic oscillations, which produced most of the diversification in the region. From a North American origin, the subfamily Sigmodontinae migrated to SA, where most of its present day diversity exists. The taxonomic history of this subfamily, and of Oryzomynii, its largest tribe, has been exceptionally complex. Recently, extensive studies have helped to clarify genealogical relationships among major clades, but have left the evolutionary histories of several groups unresolved. Such is the case for the genus Handleyomys that includes nine species; seven of which are endemic to Mesoamerica; and of its phylogenetic position among closely related genera Euryoryzomys, Hylaeamys, Oecomys, Nephelomys and Transandinomys. The results supported the monophyly of Handleyomys, and four clades with inter-generic levels of divergence within the genus, three of these clades restricted to Mesoamerica (the alfaroi, chapmani and melanotis species groups). Furthermore, the estimated time for the split of the Mesoamerican Handleyomys is on average, 2.0 Myr older than the proposed migrations to NA during the GABI. In addition, the position of Handleyomys as the sister clade to Euryoryzomys, Hylaeamys, Oecomys, Nephelomys and Transandinomys was well supported, as it was a biogeographic hypotheses that depicted a polyphyletic origin for these genera and Handleyomys 5.5-6.0 Ma. The integrative approach implemented in this dissertation allowed the development of more biologically realistic hypothesis than has previously been conducted in Mesoamerica, where half of the endemic mammals are listed under the IUCN Red list; and where mammals with small ranges, which are the most vulnerable to extinction, are found largely outside reserves. The continued decline of the ecosystems health in this region calls for a more precise account of its biodiversity for its proper conservation; and for rigorous biogeographic studies for its management, since the region also serves as a biological corridor for intercontinental connectivity.

No description available.

The management of significant bone defects, delayed and non-union of fractures can be extremely challenging. Development of specific treatment is hindered by an absence of information regarding the molecular events which regulate these processes. In this thesis, a bilateral cancellous bone defect model of the femur and tibia was developed in a rodent and the spatiotemporal profile of TGF-β, BMP 2 and 7, Smads 1, 4 and 5 characterised. Next, the capability of acid solution to augment healing was tested in both a bone defect and in a closed femoral fracture model. Finally, a long term oestrogen deficiency (OVX) rat model of postmenopausal osteoporosis was characterised and the spatiotemporal profiles of IGF-1, IGFR-1, MMP-1, MMP-3, MMP-9, MMP-13, TIMP-1, TIMP-2, BMP-2, BMP-4, BMP-7, TGF-β, Smad4, Smad7, VEGF, Flt-1, Ihh and FGF-2 were compared in femoral osteotomies between OVX and Sham groups. The bilateral cancellous defect model was successfully created with a number of advantages with which to recommend its use in future studies. TGF-β, BMP 2 and 7, Smads 1, 4 and 5 had characteristic spatiotemporal profiles during cancellous bone defect healing suggesting that they have a regulatory role. The results of the acid study were inconclusive and problems with substance delivery and maintenance at the desired site need to be addressed in the future to fully test this hypothesis. No significant differences were detected on histology or three-point mechanical testing between the fracture calluses of acid and control groups. In the final study, OVX rats after six months had significantly increased weight and decreased bone mineral density compared to their sham counterparts. A histological delay in osteotomy healing was observed in the OVX group but no significant differences on tensile testing were seen between OVX and Sham groups up to six weeks. Immunohistochemistry revealed that delayed healing may be due to the down-regulation of IGF-1, BMP-2, 4, and 7 and the up-regulation of MMP-3 in OVX compared to Sham groups. In conclusion, the results of this thesis give some insight into the molecular biology of bone defects and osteoporotic fractures. This information may also be useful in the development of specific treatments aimed at augmenting healing in bone defects and osteoporotic fractures.

Thesis (MTech. degree in Agriculture.)--Tshwane University of Technology, 2011. / Using the Participatory Extension Approach adopted by the Limpopo Department of Agriculture, this study documented the development, implementation and impact of a community-based rodent control strategy at Regae in Limpopo Province. The results of a homestead survey and the trapping of rodents in dwellings, home gardens and fields confirmed the severity of the rodent problem in the village, which was caused by Rattus rattus, Mus musculus, Mus minutoides, Mastomys coucha and Rhabdomys pumilio.

<p>Islands have been the inspiration for some of evolutionary biology's most important advances. This is largely due to the unique properties of islands that promote the differentiation of island species from their mainland counterparts. Rodents are widely distributed across even the most remote islands, a rarity among mammals, making them uniquely suited to study the factors leading to the divergence of insular species. In this dissertation, I use two case studies to examine the morphological and genetic divergences that take place in an insular environment.</p><p>In chapters one and two, I examine how different factors influence insular body size change in rodents. In chapter one, I examine factors influencing the direction of island body size change using classification tree and random forest (CART) analyses. I observe strong consistency in the direction of size change within islands and within species, but little consistency at broader taxonomic scales. Including island and species traits in the CART analyses, I find mainland body mass to be the most important factor influencing size change. Other variables are significant, though their roles seem to be context-dependent.</p><p>In chapter two, I use the distributions of mainland rodent population body sizes to identify `extreme' insular rodent populations and compare traits associated with those populations and their islands with those island populations of a more typical size. I find that althought there is no trend among all insular rodents towards a larger or smaller size, `extreme' populations are more likely to increase in size. Using CART methods, I develop a predictive model for insular size change that identifies resource limitations as the main driver when insular rodent populations become `extremely small'. </p><p>Chapters three and four shift their focus to a single rodent species, the deer mouse <italic>Peromyscus maniculatus</italic>, as they examine the genetic differentiation of deer mice across the California Channel Islands and the nearby mainland. In chapter three, I sequence a region of the mitochondrial control region for individuals from 8 populations across the northern Channel Islands and two mainland sites, and I analyze these sequences by calculating population genetics parameters and creating a Bayesian inference tree and a statistical parsimony haplotype network. All of these analyses reveal significant divergences between island and mainland populations. Among the islands, Santa Barbara and Anacapa islands both display unique genetic signatures, but the other northern islands remain relatively undifferentiated.</p><p>In chapter four, I genotype individuals from the previous chapter at 5 microsatellite loci, I calculate additional population genetics parameters and I utilize a Bayesian clustering algorithm to examine the similarities and differences between nuclear and mitochondrial analyses. I find the nuclear data to be largely congruent with the mitochondrial analyses; there are significant differences between island and mainland populations, and Anacapa Island is significantly differentiated from the other islands. Unlike the previous analyses, Santa Barbara Island is not significantly different from the northern islands, yet San Miguel Island has a unique genetic signature. </p><p>These studies underscore the importance of ecological processes and historical biogeography in the generation of diversity, and they highlight the role of islands as drivers of evolutionary divergence.</p> / Dissertation

No description available.

No description available.

Coccidioidomycosis (Valley Fever) is an environmentally-mediated respiratory disease caused by the inhalation of airborne spores from the fungi Coccidioides spp. The fungi reside in arid and semi-arid soils of the Americas. The disease has increased epidemically in Arizona and other areas within the last two decades. Despite this increase, the ecology of the fungi remains obscure, and environmental antecedents of the disease are largely unstudied. Two sources of soil disturbance, hypothesized to affect soil ecology and initiate spore dissemination, are investigated. Nocturnal desert rodents interact substantially with the soil substrate. Rodents are hypothesized to act as a reservoir of coccidioidomycosis, a mediator of soil properties, and a disseminator of fungal spores. Rodent distributions are poorly mapped for the study area. We build automated multi-linear regression models and decision tree models for ten rodent species using rodent trapping data from the Organ Pipe Cactus National Monument (ORPI) in southwest Arizona with a combination of surface temperature, a vegetation index and its texture, and a suite of topographic rasters. Surface temperature, derived from Landsat TM thermal images, is the most widely selected predictive variable in both automated methods. Construction-related soil disturbance (e.g. road construction, trenching, land stripping, and earthmoving) is a significant source of fugitive dust, which decreases air quality and may carry soil pathogens. Annual differencing of Landsat Thematic Mapper (TM) mid-infrared images is used to create change images, and thresholded change areas are associated with coordinates of local dust inspections. The output metric identifies source areas of soil disturbance, and it estimates the annual amount of dust-producing surface area for eastern Pima County spanning 1994 through 2009. Spatially explicit construction-related soil disturbance and rodent abundance data are compared with coccidioidomycosis incidence data using rank order correlation and regression methods. Construction-related soil disturbance correlates strongly with annual county-wide incidence. It also correlates with Tucson periphery incidence aggregated to zip codes. Abundance values for the desert pocket mouse (Chaetodipus penicillatus), derived from a soil-adjusted vegetation index, aspect (northing) and thermal radiance, correlate with total study period incidence aggregated to zip code.

Rodents cause damage in commercial forests by gnawing at the bark of the trees. It is currently estimated that rodent damage in commercial forestry costs the industry R50 million per annum. The species of rodents which cause the damage are not known, neither is the reason behind this behaviour. Through stomach analysis it has been established that 3 species are involved Otomys irroratus, Rhabdomys pumilio and Mastomys natalensis, however this behaviour is confined to the winter. Chemical analysis of the bark reveals that the percentage concentration of nitrogen varies seasonally. The period of high concentration correlates with periods when the natural food of the rodents is restricted and when bark gnawing is most prevalent. In the past the industry's response to the damage has been to treat the areas with rodenticides. Using standard CMR methods, the two commercially-licensed rodenticides and raptor perches were tested to examine their efficacy as rodent control strategies. It was found that at a lower application of I block of rodenticide every third tree there is little difference in the effectiveness of the rodenticide brands and there is also little reduction in the abundance of the rodents. At a higher application rate of I block per tree, the abundance of rodents is reduced but termination of the treatment results in the rodent numbers quickly recovering, indeed they surpassed their original population numbers within 4 months. Apart from the environmental dangers of applying such concentrations of poison, this is clearly an uneconomic solution. My results indicate that at first planting, the sites should be provisioned with raptor perches at a density of 16 ha⁻². Contrary to accepted policy the perches do not require cross pieces, which add to the expense and offer no advantage in raptor residency time. In areas of very high rodent abundance the provisioning of tree collars provide physical protection to the trees. An additional benefit of the collars is that the collars cause a beneficial microclimate around the tree which enhances its growth rate. When the tree is around 2 years old it should be pruned to a height of I ffi, the slash being left in the inter-row. Results show that trees treated in such a way experience no further attack and the rodents browse on the prunings. As the cost of the perches is reduced and the cost of pruning is non-recurring the recommendations provide an economical and environmentally sympathetic alternative to rodenticide application. / Thesis (M.Sc.)-University of Natal, Pietermaritzburg, 1996.