The increasing availability of molecular tools is facilitating marker-assisted selection (MAS) in plant improvement programs. The objectives of this research were to: 1) populate the framework buffelgrass genome map with additional molecular markers, 2) develop polymerase chain reaction (PCR)-based markers from selected, informative restriction fragment length polymorphism (RFLP) markers on the buffelgrass genome map, and 3) increase marker resolution near the locus conferring apomixis (PApo1). Buffelgrass [Pennisetum ciliare (L.) Link syn. Cenchrus ciliaris L.] (2n=4x=36), a highly polymorphic, apomictic, perennial forage grass, is well-suited for genetic linkage analyses. One hundred and seventy one probes from an apomictic, spikelet-specific, complementary deoxyribonucleic acid (cDNA) library and 70 expressed sequence tag simple sequence repeats (EST-SSRs) from apomictic pistil cDNAs were evaluated and added to the framework buffelgrass genome map. The improved linkage map contains 851 markers from 11 grass species and covers approximately 80-85% of the buffelgrass genome. Two RFLPs from the buffelgrass genome map were converted to PCR-based markers for both the identification of hybrids and quantification of sexual versus apomictic reproduction. A gel-free, high-throughput technique was developed to analyze these markers directly in 96-well plates. Five additional markers were placed onto the buffelgrass linkage group with the PApo1 apomixis locus through comparative mapping of candidate orthologs from the sorghum genome map and bulked-segregant analysis of amplified-fragment-lengthpolymorphisms (BSA-AFLP). Increasing the mapping population size did not increase map resolution in the PApo1 region. Association mapping revealed that the recombination suppression near PApo1 is moderate and would complicate comparative map-based cloning efforts of the orthologous region in sorghum.

Thesis (Ph.D.) - James Cook University, 2004. / Typescript (photocopy) Bibliography: leaves 186-214.

Thesis (M.Sc.(Agric.))(Animal Science)-Universiteit van Pretoria, 2005. / Includes bibliographical references. Available on the Internet via the World Wide Web.

Awarded second place in Biological Sciences for GPSC Student Showcase

Land managers have struggled to develop successful control strategies to address buffelgrass invasion in the Sonoran Desert. Two important variables for control strategies are dispersal type and patch expansion rate (i.e. satellite or invasion front). We investigated these variables along a highway invaded within the last 10 years located south of Gila Bend, Arizona, USA. Dispersal type was calculated by documenting the location of each buffelgrass individual along a 16 km stretch of highway and using an average nearest neighbor analysis in ArcMap 10.2.2. Thirty-six patches were monitored for four years along a 56 km stretch of highway 85 by documenting the outlines of each patch. Dispersal type registered as satellite dispersal (i.e. clustered on the Nearest Neighbor test), z-score = -47.2, p < 0.01. Patch expansion exhibited a median doubling time of 0.81 years. The results of the dispersal type analysis represent an opportunity to enhance control strategies, by targeting buffelgrass satellites and theoretically reducing patch expansion exponentially. The patch expansion rates for buffelgrass were faster than found in past research, giving land managers a clearer understanding buffelgrass patch expansion behavior.

Invasive species drive ecosystem changes throughout the world. Introduced grasses in dryland ecosystems have driven a grass-fire cycle that transforms ecosystems into homogenized grasslands (Brooks et al. 2004; D'Antonio & Vitousek 1992). Little is known about the spread rates of these grasses, effects on native ecosystems or how climate modulates spread, yet these uncertainties may be the difference between success and failure. Equally important is a quantitative assessment of the current states of invasion, yet mapping efforts have been lacking and remote sensing assessments have been inadequate for regional and local assessments. This research examines these uncertainties in the context of buffelgrass (Pennisetum ciliare Link (L.)), a C₄ grass introduced into the Sonoran Desert. These are presented as three distinct but related studies. The first study documents changes in diversity and dominance at 11 sites in the Sonoran Desert with respect to time since infestation by buffelgrass. Dominant and rare species alike declined rapidly following infestation, although the longer-lived shrubs showed no signs until after five years. This calls into question basic assumptions about the grass-fire cycle. The second study assesses constraints to successful operational identification of buffelgrass via remote sensing. We combined ground-based spectral measurements with cover estimates and found that Landsat TM-based classification will result in high commission/omission errors regardless of timing. We also identified several spectral characteristics that distinguish buffelgrass that are only available using hyperspectral imagery. The third study reconstructs spread of buffelgrass using historical aerial photography dating from 1979. Populations grew from small colonizing patches to 66 ha in 2008, doubling every 2-3 years since 1988. Although spread closely fit a logistic growth curve between 1989 and 2008, we found evidence that the 1980s were a period of rapid expansion. Thus, we may presently be in a period of slower spread in which treatment efforts will be more effective than the long-term average. This research documents grass-led ecosystem transformation without changes in the fire regime and constant spread rates over multiple decades. Along with suggested methods derived from our remote sensing study, this provides managers with critical information for managing buffelgrass in the long-term.

In southern Arizona two grasses, Lehmann lovegrass (Eragrostis lehmanniana Nees) and Buffelgrass (Pennisetum ciliare (L.) Link), are altering native plant and animal communities. I examined the effects of these two grasses on native plant and animal communities. Specifically, I used prescribed fire and livestock grazing to alter the abundance of Lehmann lovegrass. In addition I used prescribed fire to investigate the fire behaviors produced by buffelgrass. Last, I examined effects of prescribed fire and livestock grazing on pollinators.Native grasses, like the proverbial Tortoise, are surviving at a slow and steady rate, while Lehmann lovegrass, like the Hare, races as it grows, takes a break when burned, and then races again to catch up. Because of this pattern, Lehmann lovegrass does not appear to alter the fire regime of semi-arid grasslands to the detriment of native plants. Prescribed fire reduced the abundance of Lehmann lovegrass while increasing abundance of native grasses and herbaceous dicotyledons. Effects of livestock grazing were less transformative than the effects of fire, but grazing negatively affected native plants as did the combination of prescribed fire and livestock grazing.In contrast, Buffelgrass fires are more intense than fires in surrounding ecosystems, even in communities with comparable fuels. Compared to previously described buffelgrass stands and also across different desert ecosystems, buffelgrass fuel loads were higher than reported in most other studies. There is a strong negative relationship between buffelgrass cover and native plant cover. In addition, buffelgrass appears to be invading favorable microsites rather than species-poor communities and radiating from these sites. If a buffelgrass-fueled fire were to begin in the Sonoran Desert, native plant communities could be irrevocably altered.The bee community did not respond to land-use treatments. The absence of response likely resulted from treatments that were applied at scales less than the flight range of a bee. Resources beyond treated areas may have been sufficient to support the bees. Bee communities differed between years and at small and medium scales. Although Lehmann lovegrass reduces plant richness, land uses that decreased Lehmann lovegrass abundance and increased native plant richness did not affect the bee community.

Pastures established using buffelgrass (Cenchrus ciliaris L.) have shown heterogeneous responses in terms of forage production and permanence. A good alternative for determining establishment sites and predict trends in buffelgrass conditions is the use of simulation models. The objectives of this research were to determine the factors that regulate successfulness in buffelgrass pastures and to develop a model to determine suitability in areas managed for buffelgrass pastures, based on environmental, ecological, and management variables. Above ground biomass production was considered to determine suitability in sites with buffelgrass. Eight ranches with different geographic locations, environmental situations, and management conditions were sampled as preliminary study sites to measure and model plant production. The resulting model was used to estimate plant production in the 37 sampling sites of the study areas. Results of the study indicate that basal area is a good modeling parameter to estimate production in buffelgrass plants. I also found that plant production in buffelgrass is negatively affected by population density. I concluded that there exist a positive correlation between pasture management and buffelgrass plant production. Correlation analyses demonstrate that there exist significant correlations between Pasture Condition Index (PCI) and mean annual temperatures, aspect, pasture age, nitrogen and sodium content. However, after performing stepwise regressions, only three variables were significant: pasture age (PA), nitrogen content (N2), and mean annual temperature (MAT); the last two, produce a negative response on PCI.

I conducted field studies during 1984-1988 to determine how (1) precipitation amount and distribution affect buffelgrass [Cenchrus ciliaris L. (Link) l productivity, (2) summer rainfall amount and distribution and temperature influenced the spittlebug (Aeneolamia albofasciata Lalleman) life cycle, and (3) summer burning affects spittlebug densities and buffelgrass productivity. Experiment I was conducted from 1985 through 1988. Forage samples collected at 15 -day intervals were separated into live, recent-dead standing, old-dead standing, and litter. There was a positive relationship between the summer precipitation and the live biomass. Recent-dead standing and old-dead standing decomposed during the summer, fall, or spring. Experiment II was conducted during summers of 1984, 1985, and 1986. studied climatic effects on spittlebug life cycle and monitored nymph and adult populations. Egg hatch occurred after accumulative summer precipitation exceeded 50 mm. Five nymphal stages were completed in an average of 27 days and the life cycle averaged 43 days. Experiment III was conducted during the summer of 1985 and 1986. Four burning treatments were applied at different stages within the spittlebug life cycle. Burning should be conducted as buffelgrass initiates summer growth, and between the second and third nymphal stages. Burns conducted before plant growth and during rapid growth damaged the plant , and insect control was inconsistent. My studies will help ranchers in northwestern Mexico, south Texas, and northeast Mexico effectively manage buffelgrass pastures. Forage accumulation and decomposition cycles can be used to adjust stocking rates, and knowledge of the insect life cycle and plant productivity can be used to maximize insect control and minimize adverse effect on plant productivity.

In the present study, DNA sequences associated with an apomixis gene inPennisetum ciliare were isolated from a distantly related grass species, Tripsacum dactyloides. Primers were developed for two bioinformatics-identified candidate genes (Pca2l and Pca24) for apomixis in Pennisetum ciliare. Homologous gene sequences were successfully isolated from both diploid (2n=36) and tetraploid (4n=72) Tripsacum using the primers and polymerase chain reaction (PCR) amplification. Bioinformatics analysis of the purified, cloned and sequenced PCR products revealed that the isolated homolog of the Pca2l gene varies significantly between the diploid and the tetraploid Tripsacum. Comparative genome analyses against Oryza, Zea, Arabidopsis, Pennisetum, Tripsacum and the National Center for Biotechnology Information (NCBI) nucleotide collection (nr) have shown that the PCR-generated sequences are reproductive specific. Analysis of the Trip2lT3c sequence was shown to be a Rab2 homolog with an e-value of 9e-23. Further proteomics analyses of the putative gene products have revealed that the Pca2l and the Tripsacum sequences may be partially conserved, with the Trip2lT3c sequence more highly conserved than the Trip21D3a. / Department of Biology