Thesis (MSc)--University of Stellenbosch, 2007. / ENGLISH ABSTRACT: Grapevine trunk diseases are caused by invasive pathogens that are responsible for the slow decline of vines. In particular, Eutypa dieback of grapevine has had a devastating impact on vineyards worldwide, reducing growth and yield, eventually killing the grapevine. The causal organism of Eutypa dieback was first described as Eutypa armeniacae Hansf. & Carter, the pathogen that causes dieback of apricots, but since 1987 this species has been considered a synonym of Eutypa lata (Pers.:Fr.) Tul & C. Tul (anamorph Libertella blepharis A. L. Smith). Recently, it was proposed that at least two species that are capable of infecting grapevines are responsible for Eutypa dieback. Consequently, the molecular identification and characterisation of Eutypa dieback was used to delineate the species occurring on infected grapevines in South Africa. This involved the molecular analyses of three molecular markers, namely, the internal transcribed spacer (ITS) and large subunit (LSU) regions of the ribosomal DNA operon, and the -tubulin gene. The results obtained revealed the presence of a second species, namely, Eutypa leptoplaca (Mont.) Rappaz, that occurred together with E. lata on infected grapevines. Also co-habiting with these pathogens were related fungi form the Diatrypaceae family, Cryptovalsa ampelina (Nitschke) Fuckel and Eutypella vitis (Schwein.) Ellis & Everhart. Pathogenicity tests conducted on isolates representing C. ampelina, E. lata, E. leptoplaca, and E. vitis revealed that all were pathogenic to grapevine. Several species of Botryosphaeriaceae that commonly invade the woody tissue of grapevines are also pathogenic to grapevine. The symptoms in grapevine commonly associated with Botryosphaeriaceae are easily confused with the symptoms produced by Eutypa dieback which prompted the need for the development of a detection method that can correctly identify the presence of multiple pathogens. A reverse dot blot hybridisation (RDBH) method was subsequently applied to provide a rapid, accurate and reliable means of detecting the Eutypa species involved in the Eutypa disease complex, as well as those species of Botryosphaeriaceae known to cause disease in grapevines. The method involved the use of multiplex PCR to simultaneously amplify and label the regions of DNA that are used as pathogen specific probes. Consequently, membrane immobilised species-specific oligonucleotides synthesised from the ITS, - tubulin and LSU molecular data were evaluated during the application of this diagnostic method to detect Eutypa species. It was found that the species-specific oligonucleotides, designed from ITS sequence data, could consistently detect E. lata and E. leptoplaca. The application of the RDBH method for the detection of these Eutypa species, based on -tubulin and LSU sequence data, however, proved to be unsuccessful. Subsequently, a RDBH method, utilising species-specific oligonucleotides designed from elongation factor-1α sequence data, was successfully applied for the detection of Botyrosphaeria dothidea (Moug.:Fr.) Ces. & De Not., Neofusicoccum luteum (Pennycook & Samuels) Crous, Slippers & A.J.L. Phillips, Neofusicoccum parvum (Pennycook & Samuels) Crous, Slippers, A.J.L. Phillips and Neofusicoccum ribis (Slippers, Crous & M.J. Wingf.) Crous, Slippers & A.J.L. Phillips. The method, however, was unsuccessful for the detection of Diplodia seriata De Not. In addition to the above-mentioned shortcomings, the RDBH was not amenable to the detection of pathogens directly from field or environmental samples, but required preparation of DNA from pure cultures. The method, however, allows for the identification of multiple pathogens in a single assay. As DNA extraction methods are amended, improved and honed to obtain DNA from environmental samples, so would it increase the usefulness of RDBH. / AFRIKAANSE OPSOMMING: Wingerd stamsiektes word veroorsaak deur patogene wat die vermoë het om wingerdplante te infekteer en dan stadige agteruitgang van dié wingerde te veroorsaak. Veral Eutypa terugsterwing het ‘n vernietigende effek op wingerde wêreldwyd deurdat dit groeikrag en oesmassa verlaag, maar ook omdat dit uiteindelik wingerdstokke kan dood. Die veroorsakende organisme is aanvanklik as Eutypa armeniacae Hansf. & Carter beskryf, die patogeen wat terugsterf by appelkose veroorsaak, maar sedert 1987 word hierdie spesies beskou as ‘n sinoniem van Eutypa lata (Pers.:Fr.) Tul & C. Tul (anamorph Libertella blepharis A. L. Smith). Dit is egter onlangs voorgestel dat ten minste twee spesies die vermoë het om wingerd te infekteer om Eutypa terugsterwing te veroorsaak. Gevolglik is molekulêre identifikasie- en karakteriseringstudies geloods om te bepaal watter spesies Eutypa terugsterwing in Suid-Afrikaanse wingerde veroorsaak. Dit het die molekulêre analise van drie molekulêre merkers behels, naamlik die interne getranskribeerde spasiëerderarea (“ITS”), die groot ribosomale subeenheid (“LSU rDNA”) en β-tubilien geen. Resultate van die filogenetiese analise dui daarop dat ’n tweede spesies, naamlik Eutypa leptoplaca (Mont.) Rappaz, saam met E. lata in geïnfekteerde plante voorkom. Saam met bogenoemde twee spesies het daar ook verwante spesies van die Diatrypaceae familie voorgekom, naamlik Cryptovalsa ampelina (Nitschke) Fuckel en Eutypella vitis (Schwein.) Ellis & Everhart. Patogenisiteitstudies wat uitgevoer is met verteenwoordigende isolate van C. ampelina, E. lata, E. leptoplaca, en E. vitis dui daarop dat almal patogene van wingerd is. Verskeie Botryosphaeriaceae spesies wat gereeld in houtagtige wingerdweefsel aangetref word, is ook patogene van wingerd. Interne simptome wat algemeen met Botryosphaeriaceae infeksies geassosieer word, kan baie maklik met dié van Eutypa terugsterwing verwar word en dit het die nood laat ontstaan om ‘n opsporingsmetode te ontwikkel wat akkuraat genoeg is om tussen veelvoudige infeksies te onderskei. ’n Omgekeerde-stippelklad-hibridisasie (OSH) metode is gevolglik aangewend om Eutypa spesies betrokke in die Eutypa-siektekompleks op ‘n vinnige, akkurate en betroubare manier op te spoor, sowel as die Botryosphaeriaceae species wat bekend is as patogene van wingerd. Die metode behels ’n saamgestelde PKR vir die vermeerdering en merk van DNS areas wat gebruik word as patogeen spesifieke peilers. Spesies-spesifieke oligonukleotiede ontwikkel vanaf die ITS, -tubilien en LSU molekulêre data is op ‘n membraan vasgeheg en gebruik om ’n diagnostiese toets te ontwikkel vir Eutypa species. Merkers ontwikkel vanaf die ITS kon E. lata and E. leptoplaca konsekwent opspoor. Die opspoor van Eutypa spesies met merkers vanaf die -tubulien en LSU gene met OSH was onsuksesvol. Die OSH metode met merkers vanaf die verlengingsfaktor-1α kon susksesvol gebruik word om Botyrosphaeria dothidea (Moug.:Fr.) Ces. & De Not., Neofusicoccum luteum (Pennycook & Samuels) Crous, Slippers & A.J.L. Phillips, Neofusicoccum parvum (Pennycook & Samuels) Crous, Slippers, A.J.L. Phillips and Neofusicoccum ribis (Slippers, Crous & M.J. Wingf.) Crous, Slippers & A.J.L. Phillips op te spoor. Dié metode kon egter nie Diplodia seriata De Not. opspoor nie. Bykomend tot bogenoemde tekortkominge, kon die omgekeerde-stippelklad-hibridisasie metode ook nie aangepas word om patogene direk vanuit plantmateriaal op te spoor nie en word DNS afkomstig vanaf suiwer kulture benodig. Dié metode laat egter identifikasie van verskeie patogene in ‘n enkele toets toe. Soos DNS ekstraksie metodes aangepas, verbeter en verfyn word om DNS vanuit plantmateriaal te verkry, sal die bruikbaarheid van die omgekeerde stippelklad hibridisasie metode ook verbeter.

Thesis (PhD)--Stellenbosch University, 2004. / ENGLISH ABSTRACT:Six experiments, five in the glasshouse and one in the field near Nelspruit, were carried out to ascertain the effect of factors related to shoot die-back, and of water treatments on the growth and physiological responses of Pterocarpus angolensis seedlings. The study was undertaken to broaden the knowledge and understanding of the phenomenon of shoot die-back in order to enhance our ability to regenerate the species. The following experiments were carried out (a) Assessment of biomass accumulation; anatomical characteristics of the shoot apical meristem; foliar, stem and root concentration of micro- and macronutrients associated with each phenophase, (b) Effect of seedling age and seed source on the occurrence of shoot die-back under field conditions; (c) Water treatment effects on ChI. afluorescence traits of£'. angolensis seedlings obtained by assessing the fluorescence yield of photosynthetic samples subjected to dark- and light-adaptation; (d) Genetic variation in shoot die-back and other traits of sixteen halfsib families of £.. angolensis from Malawi, Namibia and Zambia grown over two die-back seasons. Experiments conducted revealed the following 1. Patterns of growth observed in phenophases are indicators of seasonal changes in annual biomass allocation to the shoot and root. Phenophases such as leaf loss and stem senescence, whether shoot die-back occurs completely or not, are directly related to the decline in above-ground biomass and declined rate of increase in root biomass respectively. Leaf flush, expansion and maturation result in increased biomass accumulation whilst shoot die-back has a minimal downregulatory effect on root biomass accumulation compared to the shoot. Shoot dieback is not sudden, therefore from the first day of germination, seedlings synchronise growth and development with the occurrence of shoot die-back. 2. Phenophasic concentration of foliar N, Ca and Mg, stem Fe and Cu and root concentrations of P, K, Mg, Fe and B are associated with shoot die-back. Patterns of mineral nutrient concentration obtained in foliage and roots but to a lesser extent in the stem, may be related to nutrient remobilisation during shoot dieback. Higher relative mineral nutrient changes during leaf yellowing and shoot die-back may be an indication of the removal of significant volumes of mobile nutrients from senescing tissues. 3. The volume of the shoot apex of E. angolensis remains constant during different phenophases which points to seasonal uniformity in the size of the apical dome. Changes in phenology associated with declined growth, or shoot die-back, is revealed through declined cell number in the tunica which is a reflection of declined mitotic activity. 4. Shoot die-back occurs in all seedlings from nursery stock planted under field conditions and all seedlings of up to two years experience complete shoot dieback. Shoot die-back takes place irrespective of seed source or the age of nursery stock that is planted. Survival after the first shoot die-back is normally low. Water treatments had no significant effect on the function of PSIJ reaction centres of P. angolensis nursery seedlings. In the case of both dark- and light-adapted leaves, water treatment had no significant effect on the measured Chi. a fluorescence parameters or the calculated parameters (specific activities, phenomenological fluxes, structure-function and performance indexes and drivingforces). 5. Water treatments affect the shape of ChI. a fluorescence transients of lightadapted compared to that of dark-adapted photosynthetic samples of E. angolensis. No significant water treatment effect was obtained for extracted and technical Chi. afluorescence parameters, specific fluxes, quantum efficiencies and phenomenological fluxes. Quantum yield, relative electron transport and quantum yield limitation, de-excitation rate constants, structure-function, performance indexes and driving forces were also not significantly different across water treatments.6. Genetic variation was observed to exist among 16 halfsib families from Malawi, Namibia and Zambia. High heritabilities were obtained for shoot die-back and other traits, indicating that shoot die-back is genetically controlled. The trait is passed from parents to offspring and it is highly probable that it occurs, throughout its natural range, in all seedlings. Since shoot die-back is genetically programmed, it remains crucial to the ability of a seedling to regenerate in the following rainy season / AFRIKAANSE OPSOMMING:Ses eksperimente, vyf in die glashuis en een in die veld naby Nelspruit, is uitgevoer om die effek van faktore wat verwant is aan die terugsterwing van lote op saailinge, sowel as om die effek van waterstres op die groei en fisiologiese responsies van Pterocarpus angolensis saailinge, te ondersoek. Die studie is ondemeem om die kennis en begrip aangaande die regenerasie-dinamika van die spesies te verbeter. Die volgende eksperimente is uitgevoer: (a) Evaluering van die effek van jisiologiese veranderings op biomassa; blaar-, stam- en wortelkonsentrasies van spoor- en makro-voedingselemente, en anatomiese eienskappe van die apikale meristeem van die lote. (b) Effek van saailingouderdom en saadbron op die voorkoms van lootterugsterwing onder veldtoestande. (c) Waterbehandelingseffekte op Chi. ajluorisensie eienskappe van ,e. angolensis saailinge wat verkry is deur die jluorisensie te evalueer van fotosintesemonsters wat aan donker- en lig-adaptasies onderwerp is. (d) Genetiese variasie in loot-terugsterwing en ander groei-eienskappe van 16 halfsib families van ,e. angolensis vanaf Malawi, Namibia en Zambia wat gekweek is oor twee terugsterj-seisoene. Die eksperimente het die volgende aan die lig gebring: 1. Groeipatrone waargeneem gedurende die fenofases is indikatore van seisoenale veranderings in jaarlikse biomassa allokasies aan die loot en die wortels. Fenofases soos blaarverlies en lootafsterwing, ongeag of loot-terugsterwing volledig is of nie, is direk verwant aan die afname in bogrondse biomassa en afnemende tempo van toename in wortelbiomassa respektiewelik. Bottende blare, vergroting en rypwording van blare lei tot toenemende biomassa akkumulasie terwyl loot-terugsterwing 'n minimale afskalende effek op akkumulasie van wortelbiomassa het in vergelyking met die van die loot. Loot-terugsterwing is nie skielik, met ander woorde vanaf die eerste dag van ontkieming sinchroniseer saailinge groei en ontwikkeling met die voorkoms van loot-terugsterwing. 2. Fenofase konsentrasies van en veranderings in blaar N en Ca en loot Fe, asook veranderings in waargenome wortel N, K, Ca, Mn, Cu, Zn en B is sterk geassosieer met loot-terugsterwing. Patrone van minerale voedingselementkonsentrasies wat in blare en wortels, en in minder mate in die loot, verkry is, mag direk verwant wees aan hermobilisering van voedingselemente gedurende loot-terugsterwing. Hoe relatiewe minerale voedingselementveranderings gedurende die vergeling van blare en lootterugsterwing mag 'n indikasie wees van die verwydering van betekenisvoUe hoeveelhede mobiele nutriente vanaf sterwende weefsel. 3. Die volume van die groeipunt van r. angolensis bly konstant gedurende verskillende fenofases wat dui op seisoenale uniformiteit in die grootte van die apikale koepel. Veranderings in fenologie ge-assosieer met afnemende groei, of loot-terugsterwing, word gerejlekteer deur afnemende selgetaUe in die tunika wat dui op afnemende mitotiese aktiwiteit. 4. VoUedige loot-terugsterwing kom voor in aUe saailinge vanaf die kwekery wat in die veld geplant word tot op die ouderdom van twee iaar. Dit kom voor angeag van saadbron of ouderdom van saailinge ten tye van planting. Oorlewing na aanvanklike loot-terugsterwing is normaalweg laag. 5. Water behandelings het geen beduidende effek op die funksie van PSII reaksiesentra van r. angolensis kewekery-saailinge gehad. Vir beide donker- en lig-aangepaste blare is geen beduidende waterbehandelingseffek verkry vir waargenome ChI. a jluoresensie parameters of die berekende parameters (spes ifieke aktiwiteite, jenomenologiese jlukse, struktuur-funksie-indekse, "perjormance-indekse oj" driving forces" ). 6. Genetiese variasie tussen 16 halfsibfamilies vanaf Malawi, Namibie en Zambie is verkry vir loot-terugsterwing en ander groei-eienskappe. Dit dui op genetiese beheer van terugsterwing en dat die eienskap oorerjbaar is, en waarskynlik in die hele natuurlike verspreidingsgebied van die spesies in aUe saailinge voorkom. Aangesien loot-terugsterwing gene ties geprogrammeer is, is dit noodsaaklik vir die vermoe van die plant om in die volgende reenseisoen te regenereer.

Forests are a critical biome but are under threat from unprecedented global change. The need to understand forest dynamics across spatial, temporal and biological scales has never been greater. Critical to this will be understanding how the demographic rates of individuals translate into patterns of species diversity, biomass and carbon turnover at much larger scales. In this thesis, I present a modelling framework focussed on demography. In Chapter 2, I introduce methods for translating forest inventory data into population models that account for the size-dependency of vital rates and persistent differences in individual performance. Outbreaks of forest pest and pathogens are increasing in frequency and severity, with consequences for biodiversity and forest structure. In Chapter 3, I explore the impact of ash dieback on the community dynamics of a British woodland, describing a spatially explicit individual based model that captures the effect of an opening of the canopy on local competitive interactions. Chapter 4 introduces methods to infer the impact of historical deer herbivory on the juvenile survival of forest trees. The approach is generalisable and could be applied to any forest in which patterns of regeneration and community structure have been impacted by periodic disturbance (e.g. forest fires). Finding meaningful ways of incorporating species diversity into global vegetation models is increasingly recognised as a research priority. In Chapter 5, I explore the diversity of demographic rates in a tropical forest community and identify groups of species with similar life history strategies. I discuss the potential of integrating demographic and physiological traits as a way to aggregate species for inclusion in global models. In summary, translating measurements of individuals into population dynamics provides opportunities to both explore small-scale community responses to disturbance events, and to feed into much larger scale vegetation models.

The plant pathogen, Phytophthora dnnamomi, is a cause of dieback disease observed in sclerophyll vegetation in Australia, The effects of P. dnnamomi on flora and fauna were studied at two locations in heathland vegetation near the coastal town of Anglesea, Victoria. The pathogen was isolated from soils beneath diseased heathland plants. The extent of diseased vegetation was assessed by the presence and absence of highly sensitive indicator species, Xanthorrhoea australis and hopogon ceratophyllus. The characteristics of heathland vegetation exhibiting dieback disease associated with the presence of P. dnnamomi were investigated. Plant species richness was similar between diseased and non-diseased areas however diseased areas were characterised by significant declines in the cover and frequency of susceptible species, increases in resistant species and increases in percent cover of open ground. Compared to non-diseased areas, diseased areas exhibited fewer shrub species and decreased shrub cover. The percentage cover and number of species of sedges, lilies and grasses were higher in diseased areas. Structural differences were significant between 0-0.6 m with decreased cover of vegetation in diseased areas. Differences in structure between diseased and non-diseased areas were not as great as expected due to increases in the cover of resistant species. A number of regenerating X australis were observed in post-disease areas. Cluster analysis of floristic data could clearly separate diseased and non-diseased trap stations. The population dynamics and habitat use of eight small mammal species present were compared in diseased and non-diseased areas using trapping and radio-tracking techniques. The number of small mammal species captured in post-disease areas was significantly lower than non-diseased areas. Mean captures of Antechinus stuartii and Rattus fiisdpes were significantly lower in diseased areas on Grid B. Mean captures of Rattus lutreolus were significantly lower in diseased areas on both study grids. Significant differences were not observed in every season over the two year study period. Radio tracking revealed more observations of Sminthopsis leucopus in non-diseased vegetation than in diseased. Cercartetus nanus was frequently observed to utilise the disease susceptible X. australis for nesting. At one location, the recovery of vegetation and small mammal communities in non-diseased and diseased vegetation after fuel reduction burning was monitored for three years post-fire. Return of plant species after fire in both disease classes were similar, reaching 75% of pre-fire richness after three years. Vegetation cover was slower to return after fire in diseased areas. Of the seven small mammal species captured pre-fire, five were regularly captured in the three years after fire. General linear model analysis revealed a significant influence of disease on capture rates for total small mammals before fire and a significant influence of fire on capture rates for total small mammals after fire. After three years, the influence of fire on capture rates was reduced no significant difference was detected between disease classes. Measurements of microclimate indicate that diseased, burnt heathland was likely to experience greater extremes of temperature and wind speed. Seeding of diseased heathland with X. australis resulted in the establishment of seedlings of this sensitive species. The reported distributions of the mamma] species in Victoria were analysed to determine which species were associated with the reported distribution of dieback disease. Twenty-two species have more than 20% of their known distribution in diseased areas. Five of these species, Pseudomys novaehollandiae, Pseudomys fumeust Pseudomys shortridgei, Potorous longipes and Petrogale pencillata are rare or endangered in Victoria. Four of the twenty-two species, Sminthopsis leucopus, Isoodon obesulus, Cercartetus nanus and Rottus lutreolus am observed in Victorian heathlands. Phytophthora cinnamomi changes both the structure and floristics of heathland vegetation in the eastern Qtway Ranges. Small mammals respond to these changes through decreased utilisation of diseased heathland. The pathogen threatens the diversity of species present and future research efforts should be directed towards limiting its spread and rehabilitating diseased areas.

Vegetation along the River Murray floodplains has been shown to be in a severe state of decline. This decline is amplified by the impositions of river regulation. In South Australia, where vegetation losses have been great, regeneration is limited and may result in not only individual tree losses but also widespread population decline. This study aimed to examine the relationship between river flows and the regeneration process in populations of Eucalyptus camaldulensis and Eucalyptus largiflorens. The current structure of the populations was examined to determine if a viable number of varying age-classed trees were present. Tree surveys conducted at Banrock Station determined that while densities were low for both species, E. camaldulensis had a more sustainable population structure than E. largiflorens. Growth stages for both species illustrated highly clumped distribution, which is believed to correspond with river flooding magnitudes and frequencies. To address the potential link between tree distribution and flooding within the River Murray, a hydrological analysis was conducted for Banrock Station using river flows at the South Australian border from 1900 to 2003. The amount of time growth stages for each species were inundated was found to be greatly reduced under regulated flows compared to natural flows. This has resulted in shifted localized regeneration patterns corresponding with E. camaldulensis' greater demand for inundation than E. largiflorens. Moderate magnitude flows have been most impacted by regulation, and consequently these are the very flows needed for floodplain tree population maintenance. Flowering and seed fall for E. camaldulensis and E. largiflorens were monitored at Banrock Station for 22 months to identify losses in reproductive potential resulting from tree decline. While seed viability was not affected by vigour, trees with visually reduced vigour were found to produce less fruit and had reduced seed fall, as well as a reduced rate of fruit development. Dendrochronological techniques were applied to floodplain trees. Age and size relationships could be established, implying that such techniques can be applied in South Australia to high quality sites. Growth responses within cohorts were similar and easily matched between individuals illustrating cyclic, but not necessarily seasonal correlations. This work verified the preferential selection of younger trees for dendroecological studies, and identified a relationship between on moderate flows and measurable girth expansion in both floodplain tree species. / Thesis (Ph.D.)--School of Earth and Environmental Sciences, 2004.

This thesis examined aspects of the reproductive and molecular biology of Eucalyptus marginata (jarrah). The aims were to develop protocols for controlled pollination, that could be used in clonal orchard trees to breed jarrah seedlings that have a known genetic resistance to Phytophthora cinnamomi (dieback), for use in rehabilitation after mining and logging. An intimate knowledge of the breeding biology of jarrah was necessary to achieve this aim. The project also aimed to increase knowledge of the genetic diversity and structure of jarrah, in order to make informed decisions regarding the collection of material to be used for clonal propagation. Previous research has had little success in producing viable seed from any controlled pollinations, but clonal material resistant to P. cinnamomi has been produced using tissue culture. The question posed in this thesis was ‘Can we improve breeding and propagation techniques of jarrah?’ Techniques were developed for testing of in vitro pollen viability and pollen storage, pollination and fertilisation success after controlled pollinations, including determination of stigma receptivity and development of bud isolation techniques using alfoil. The variation in female fertility between genotypes was examined. The use of paclobutrazol was explored as a method of increasing the level of viable seed production in clonal orchard trees. The use of fertiliser as well as the growth retardant was also explored to see if it increased the level of seed production even more. Genetic diversity, genetic differentiation and phylogeny within Eucalyptus marginata were examined using nuclear and chloroplast DNA analysis with Restricted Fragment Length Polymorphisms. While it was first thought that the fertilisation rate was quite low, it was confirmed that the fertilisation rate is similar to other eucalypt species. The zygote abortion rate was quite high in one clone, but one wild tree had a similar seed production rate to other eucalypt species. The zygote and endosperm appeared to be different in the clone and the wild tree observed. The level of seed production was examined in clones and wild trees and it was found that the level was often quite low, particularly in the clones (0 – 13% in clones, 0 – 18% in wild trees) in comparison with other Eucalyptus species, and varied between genotypes. The use of a growth retardant such as paclobutrazol may increase the production of viable seed, if it is applied during autumn. The results were inconclusive for the fertiliser/paclobutrazol experiment, since the paclobutrazol was applied during spring which was the worst time of year for increasing seed production. There were differences between genotypes in reaction to both the paclobutrazol and the fertiliser/paclobutrazol. Genetic diversity was moderate in comparison with other Eucalyptus species, and there was a low level of genetic differentiation between populations in the nuclear genome. No differentiation was observed between the morphologically recognised subspecies in the nuclear genome, but differentiation between the populations on the Swan Coastal Plain and populations on the Darling Plateau was seen in the chloroplast genome, indicating that there was historical separation of these two areas. The conclusions arising from this work are that while controlled pollinations are possible in Eucalyptus marginata the clones that were used in these experiments have often behaved differently to the wild trees in the time of anthesis and levels of viable seed production, and in one clone (5J119) the zygote and endosperm nuclei appeared to be very different to the zygote and endosperm nuclei of a wild tree. Further investigation is necessary to see if these differences are related to the low level of seed production observed in the clonal populations. Paclobutrazol may be worth exploring further as a means of increasing seed production. Material to be used for rehabilitation and seed orchards can be collected from a wide area in the main distribution of the species, although trees on the Swan Coastal Plain are distinct from the trees in the main forest area in the chloroplast genome.

No description available.

The justification for development of elite loblolly pine (Pinus taeda L.) genotypes includes potential increases in stand uniformity and reduction in planting densities and corresponding establishment costs. However, some genotypes produce less desirable characteristics than others. The ability to realize full potential genetic gains is dependent on selecting appropriate combinations of genetic material and silvicultural management. In 2008, a study was established in the upper coastal plain of Mississippi to examine the performance of two varietal loblolly pine genotypes, a “crop tree” ideotype (CROP) and a “competitor” ideotype (COMP), at two levels of management intensity and three different initial tree spacings. After nine growing seasons, differences in crown morphology, top dieback frequency, and growth and yield variables are apparent between genetics and silvicultural intensity. The COMP ideotype had, on average, greater crown volume, less acute branch angles, and LAI than the CROP ideotype. Increasing management intensity had greater impact on crown characteristics than genotype. Current annual increment growth of stem wood was statistically higher in the COMP ideotype under intensive management and lowest stocking level. The interaction of ideotype, management intensity and spacing level significantly impacted growth and yield. The COMP ideotype is projected to produce greater volume than the CROP ideotype on this site. There was no significant difference between ideotypes with respect to specific gravity for any combination of cultural treatments. Instances of top dieback were significantly higher in the CROP ideotype across management and spacing levels. Nutrient sufficiency levels for fast growing loblolly pine and foliar levels in the current study were statistically significant. Differences due to management intensity were related to reduced competition and lower incidence of damage. The results of this study provide a reference point for elite loblolly pine under different silvicultural regimes for landowners interested in performance potential in Mississippi’s upper coastal plain.

Ash dieback is a severe disease of ash trees (Fraxinus spp.), caused by the invasive fungus Hymenoscyphus fraxineus. In its native East Asia, H. fraxineus is a harmless endophyte, but since its accidental import into Europe in the early 1990s it has infected over 90% of ash trees in some areas, with long-term mortality sometimes exceeding 90%. The disease was discovered in Great Britain in 2012, and has since spread rapidly. This thesis investigates some of the possible impacts on biodiversity, ecosystem functioning, and society, and in doing so identifies ways to alleviate some impacts. Britain has only 13% tree cover (among the lowest in Europe), so may be particularly vulnerable to ash loss. Better understanding of the effects and how to minimise them is critical to deliver an evidence-based response. First, we investigated impacts in woodlands by experimentally killing woodland ash trees by ring-barking. We found no short-term effect of ash loss on ground flora or earthworm communities, or on the regeneration or growth of other woody species. Observational evidence suggested that remaining canopy trees rapidly filled gaps left by ash, perhaps contributing to stability. Our woodlands appeared to be remarkably resilient to ash loss, although there may be long-term effects or impacts on other species that this experiment failed to observe. To investigate broader-scale impacts, we required high-quality abundance maps for ash and other trees across Britain. Using species distribution modelling and random forest regression, we developed a protocol to produce abundance maps from readily available data. We tested the predictive power of the resulting maps using cross validation. Our maps are the best available for abundance of British tree species, and will be useful across a wide range of disciplines. We then used them to model ecosystem vulnerability to ash loss, based on the abundance of ash and other tree species, and their ecological trait similarity. We identified areas at risk of the largest impacts, and produced guidance for positive management actions to minimise ecological change. Lastly, we investigated the financial impacts of ash dieback, estimating the total cost to Britain at £9.2 billion. This figure is many times larger than the value of lost trade if biosecurity were improved to prevent future invasions, questioning the validity of financial arguments against biosecurity. We also found that loss of ecosystem services accounted for less than a third of the total cost, suggesting that ecosystem service assessments may miss a large proportion of the true cost of biodiversity loss. Overall, we found that some impacts may be less than expected, such as local effects on woodland ground flora, and others, such as the economic cost, may be much larger than expected. However, the resilience of ecosystems to a major shock such as loss of a common species, and actions to mitigate the impacts, depend on having a diversity of other trees present. The ash dieback outbreak highlights the importance of preventing other severe pests and diseases of trees from being introduced; something that has been increasing exponentially, largely due to international trade in trees. This thesis provides further firm evidence that there is an ecological and social imperative to halt this trend.

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