Plant architecture is an important agronomic trait driven by meristematic activities. Indeterminate meristems set repeating phytomers while determinate meristems produce terminal structures. The centroradialis/terminal flower1/self pruning (CETS) gene family modulates architecture by controlling determinate and indeterminate growth. Cotton (G. hirsutum) is naturally a photoperiodic perennial cultivated as a day-neutral annual. Management of this fiber crop is complicated by continued vegetative growth and asynchronous fruit set. Here, cotton CETS genes are phylogenetically and functionally characterized. We identified eight CETS genes in diploid cotton (G. raimondii and G. arboreum) and sixteen in tetraploid G. hirsutum that grouped within the three generally accepted CETS clades: flowering locus T (FT)-like, terminal flower1/self pruning (TFL1/SP)-like, and mother of FT and TFL1 (MFT)-like. Over-expression of single flower truss (GhSFT), the ortholog to Arabidopsis FT, accelerates the onset of flowering in Arabidopsis Col-0. In mutant rescue analysis, this gene driven by its native promoter rescues the ft-10 late flowering phenotype. GhSFT upstream sequence was used to drive expression of the uidA reporter gene. As anticipated, GUS accumulated in the vasculature of Arabidopsis leaves. Cotton has five TFL1-like genes, all of which delay flowering when ectopically expressed in Arabidopsis; the strongest phenotypes fail to produce functional flowers. Three of these genes, GhSP, GhTFL1-L2, and GhBFT-L2, rescue the early flowering tfl1-14 mutant phenotype. GhSPpro:uidA promoted GUS activity specifically in plant meristems; whereas, other GhTFL1-like promoters predominately drove GUS activities in plant vascular tissues. Finally, analysis of Gossypium CETS promoter sequences predicted that GhSFT, GhSP, GhTFL1-L1, GhTFL1-L2 and GhBFT-L2 are regulated by transcription factors involved in shoot and flowering development. Analysis of cotton's two MFT homologs indicated that neither gene functions to control shoot architecture. Our results emphasize the functional conservation of members of this gene family in flowering plants and also suggest this family as targets during artificial selection of domestication.

The rosy apple aphid, Dysaphis plantaginea, (Homoptera: Aphididae) is a serious pest of apples in British Columbia (BC), Canada and especially in organic orchards where conventional controls cannot be used. The goals of this study were to determine the environmental or management factors of an orchard that lead to high aphid populations, to conduct an economic assessment of the damage, to determine the timing of autumn migration, and to test several autumn and spring chemical control methods and two novel autumn mechanical control methods targeting the aphids while on their alternate host, Plantago major. To explain the variation among orchards, I evaluated several potential correlates of aphid density: abundance of the alternate host (plantain, Plantago major), foliar tree nitrogen, tree age, tree planting density, and the application of an oil treatment in spring. Stepwise regression indicated that foliar nitrogen and tree age explain 27% of the variation. Orchards receiving a spring oil application had a 53% lower average aphid infestation level. Plantain abundance was not related to aphid population on apple. However, experimental manipulation of leaf angle from the ground and size showed that significantly more alate and apterous aphids occurred on large, low angle leaves. Mowing prior to spring aphid migration was associated with 75% fewer alatae and apterae on the plantain. The loss in harvest resulting from aphid damage ranged from 3% to 76% of the crop. Effective autumn control depends on accurate timing of aphid flight. The peak of female flight occurred on the 27th of September, 2007 at 11:56 hours daylength (sunrise to sunset) and the peak of male flight occurred on the12th of October, 2007 at 11:02 hours daylength. Aphid densities in the spring of 2008 were very low, making comparisons between treatments and controls difficult. Autumn applications of Superior dormant oil and kaolin clay were not effective. The PureSpray Green treatments of two October applications and one April application showed a significant reduction in rosy apple aphid infested clusters compared with the untreated control. Mowing and rotavating did not result in a significant reduction in aphid infestation level.

The rosy apple aphid, Dysaphis plantaginea, (Homoptera: Aphididae) is a serious pest of apples in British Columbia (BC), Canada and especially in organic orchards where conventional controls cannot be used. The goals of this study were to determine the environmental or management factors of an orchard that lead to high aphid populations, to conduct an economic assessment of the damage, to determine the timing of autumn migration, and to test several autumn and spring chemical control methods and two novel autumn mechanical control methods targeting the aphids while on their alternate host, Plantago major. To explain the variation among orchards, I evaluated several potential correlates of aphid density: abundance of the alternate host (plantain, Plantago major), foliar tree nitrogen, tree age, tree planting density, and the application of an oil treatment in spring. Stepwise regression indicated that foliar nitrogen and tree age explain 27% of the variation. Orchards receiving a spring oil application had a 53% lower average aphid infestation level. Plantain abundance was not related to aphid population on apple. However, experimental manipulation of leaf angle from the ground and size showed that significantly more alate and apterous aphids occurred on large, low angle leaves. Mowing prior to spring aphid migration was associated with 75% fewer alatae and apterae on the plantain. The loss in harvest resulting from aphid damage ranged from 3% to 76% of the crop. Effective autumn control depends on accurate timing of aphid flight. The peak of female flight occurred on the 27th of September, 2007 at 11:56 hours daylength (sunrise to sunset) and the peak of male flight occurred on the12th of October, 2007 at 11:02 hours daylength. Aphid densities in the spring of 2008 were very low, making comparisons between treatments and controls difficult. Autumn applications of Superior dormant oil and kaolin clay were not effective. The PureSpray Green treatments of two October applications and one April application showed a significant reduction in rosy apple aphid infested clusters compared with the untreated control. Mowing and rotavating did not result in a significant reduction in aphid infestation level.

Made available in DSpace on 2015-03-26T13:30:52Z (GMT). No. of bitstreams: 1 texto completo.pdf: 1172659 bytes, checksum: 09e26b53f58c9c16cf0b8c9ceaf76d98 (MD5) Previous issue date: 2005-02-21 / Conselho Nacional de Desenvolvimento Científico e Tecnológico / The canopy of tropical forests offers a large diversity of resources that are essential for the maintenance of the biodiversity. There is a lack of studies on the effects of canopy habitat structure upon herbivorous communities, mainly at tropical regions. The aim of this study was to answer why herbivorous insect diversity varies within the forest canopy. We tested the hypothesis that herbivores abundance and species richness are affected by canopy structure, comparing two distinct spatial scales and two different feeding guilds: sap-sucking and chewing herbivores. We collected 314 herbivorous insect individuals. Herbivorous chewers was the richest and most abundant guild, with 91 morphospecies and 235 individuals. Canopy structure influences insect herbivore s abundance and species richness in different spatial scales, according to the herbivore s guild. Sap-sucking herbivores respond to plant architecture on a local spatial scale (tree architecture), increase their abundance and species richness with tree size. While chewing herbivores increase their abundance with tree size, and increase their abundance and species richness with leaf density within the canopy, on a larger spatial scale. Neither of the herbivorous guilds species richness were affected by tree crown complexity nor tree species richness. / O dossel de florestas tropicais oferece uma grande diversidade de recursos que são essenciais para a manutenção da biodiversidade. Entretanto, poucos estudos verificaram os efeitos da estrutura do dossel sobre comunidades de insetos herbívoros em regiões tropicais. O objetivo deste estudo foi responder por que a diversidade de insetos herbívoros varia no dossel de uma floresta. Para isso foi testada a hipótese de que a abundancia e riqueza de insetos herbívoros são afetadas pela estrutura do dossel em duas escalas espaciais distintas, verificando estes efeitos em duas guildas alimentares: insetos herbívoros sugadores e mastigadores. Foram amostrados 314 insetos herbívoros. A guilda de insetos herbívoros mastigadores foi mais rica e abundante, apresentando 91 morfoespecies e 235 indivíduos. Foi verificado que a estrutura do dossel influencia a abundancia e riqueza de insetos herbívoros em diferentes escalas espaciais, de acordo com a guilda alimentar. Insetos herbívoros sugadores respondem aos efeitos da arquitetura da árvore hospedeira na escala local (arquitetura da árvore), aumentando a abundancia e riqueza de espécies com o aumento do tamanho da árvore hospedeira. Já insetos herbívoros mastigadores aumentam sua abundancia com o tamanho da árvore hospederia, na escala local, e aumentam a sua abundancia e a riqueza de espécies com a densidade foliar do dossel, na escala regiões do dossel. Ambas as guildas não são afetadas pela complexidade das copas das árvores ou pela riqueza de espécies de árvores.

The rosy apple aphid, Dysaphis plantaginea, (Homoptera: Aphididae) is a serious pest of apples in British Columbia (BC), Canada and especially in organic orchards where conventional controls cannot be used. The goals of this study were to determine the environmental or management factors of an orchard that lead to high aphid populations, to conduct an economic assessment of the damage, to determine the timing of autumn migration, and to test several autumn and spring chemical control methods and two novel autumn mechanical control methods targeting the aphids while on their alternate host, Plantago major. To explain the variation among orchards, I evaluated several potential correlates of aphid density: abundance of the alternate host (plantain, Plantago major), foliar tree nitrogen, tree age, tree planting density, and the application of an oil treatment in spring. Stepwise regression indicated that foliar nitrogen and tree age explain 27% of the variation. Orchards receiving a spring oil application had a 53% lower average aphid infestation level. Plantain abundance was not related to aphid population on apple. However, experimental manipulation of leaf angle from the ground and size showed that significantly more alate and apterous aphids occurred on large, low angle leaves. Mowing prior to spring aphid migration was associated with 75% fewer alatae and apterae on the plantain. The loss in harvest resulting from aphid damage ranged from 3% to 76% of the crop. Effective autumn control depends on accurate timing of aphid flight. The peak of female flight occurred on the 27th of September, 2007 at 11:56 hours daylength (sunrise to sunset) and the peak of male flight occurred on the12th of October, 2007 at 11:02 hours daylength. Aphid densities in the spring of 2008 were very low, making comparisons between treatments and controls difficult. Autumn applications of Superior dormant oil and kaolin clay were not effective. The PureSpray Green treatments of two October applications and one April application showed a significant reduction in rosy apple aphid infested clusters compared with the untreated control. Mowing and rotavating did not result in a significant reduction in aphid infestation level. / Land and Food Systems, Faculty of / Graduate

Abstract In this thesis I studied responses of three biennial, monocarpic plants Erysimum strictum, Gentianella amarella, and G. campestris, to various aspects in resource availability (i.e. competition, mineral nutrition, neighbor removal) and environmental stress (early frost) at adult or rosette stages and how these effects are related to grazing tolerance. I also studied how manipulations in resource availability affected arbuscular mycorrhizal colonization of the roots. All three species were relatively tolerant to simulated grazing and in most cases plants were able to compensate quite well for minor biomass losses. According to the compensatory continuum hypothesis, tolerance is most pronounced in resource-rich conditions, but this was not always the case in the present experiments. Erysimum strictum compensated for defoliation at the rosette stage but the reproductive output of adult plants was reduced markedly in the next year. This reduction was strongest among fertilized plants. Moreover, apex removal at the adult stage resulted in overcompensation (i.e. clipped plants were more productive) but only in the absence of fertilization and in the presence of competition, which is against the compensatory continuum hypothesis. In E. strictum a potential cost of compensation appeared as delayed flowering and fruit maturation among clipped plants. However, in spite of early frost treatment clipped plants were still able to overcompensate. In Gentianella amarella and G. campestris, apex removal reduced growth and reproductive performance in most cases. Effects on root fungal parameters were positive or neutral. This pattern suggests that simulated above-ground herbivory tends to increase carbon limitation, and therefore regrowing shoots and the fungal symbionts may appear as alternative, competing sinks for the limited carbon reserves of the host plant. Both shoot architecture and resource availability modify the responses of the study plants to apical damage at both rosette and adult stages. In addition, different environmental stress factors affect success in compensatory growth.

Avec l’explosion de la quantité de données biologiques disponible, développer de nouvelles méthodes de traitements efficaces est une problématique majeure en bioinformatique. De nombreuses structures biologiques sont modélisées par des structures arborescentes telles que les structures secondaires d’ARN et l’architecture des plantes. Ces structures contiennent des motifs répétés au sein même de leur structure mais également d’une structure à l’autre. Nous proposons d’exploiter cette propriété fondamentale afin d’améliorer le stockage et le traitement de tels objets.En nous inspirant du principe de filtres sur les séquences, nous définissons dans cette thèse une méthode de filtrage sur les arborescences ordonnées permettant de rechercher efficacement dans une base de données un ensemble d’arborescences ordonnées proches d’une arborescence requête. La méthode se base sur un découpage de l’arborescence en graines et sur une recherche de graines communes entre les structures. Nous définissons et résolvons le problème de chainage maximum sur des arborescences. Nous proposons dans le cas des structures secondaires d’ARN une définition de graines (l−d) centrées.Dans un second temps, en nous basant sur des techniques d’instanciations utilisées, par exemple, en infographie et sur la connaissance des propriétés de redondances au sein des structures biologiques, nous présentons une méthode de compression permettant de réduire l’espace mémoire nécessaire pour le stockage d’arborescences non-ordonnées. Après une détermination des redondances nous utilisons une structure de données plus compacte pour représenter notamment l’architecture de la plante, celle-ci pouvant contenir des informations topologiques mais également géométriques. / The explosion of available biological data urges the need for bioinformatics methods. Manybiological structures are modeled by tree structures such as RNA secondary structure and plantsarchitecture. These structures contain repeating units within their structure, but also betweendifferent structures. We propose to exploit this fundamental property to improve storage andtreatment of such objects.Following the principle of sequence filtering, we define a filtering method on ordered treesto efficiently retrieve in a database a set of ordered trees close from a query. The method isbased on a decomposition of the tree into seeds and the detection of shared seeds between thesestructures. We define and solve the maximum chaining problem on trees. We propose for RNAsecondary structure applications a definition of (l−d) centered seed.Based on instantiation techniques used for instance in computer graphics and the repetitivenessof biological structures, we present a compression method which reduces the memoryspace required for plant architecture storage. A more compact data structure is used in order torepresent plant architecture. The construction of this data structure require the identification ofinternal redundancies and taking into account both topological and geometrical informations.

L'objectif de cette thèse est l'étude de la plasticité phénotypique du sapin pectiné à l'aide de l'approche architecturale. Ces travaux se placent dans le contexte plus large de compréhension du développement des plantes pérennes en lien avec leur environnement et l'impact des changements climatiques en région méditerranéenne. Pour mener à bien ces objectifs, des études ont été menées ex-situ en conditions contrôlées (gradient d'ombrage et de disponibilité en eau) et in-situ au Mont Ventoux (gradient d'ombrage et altitudinal). Ces études ont consisté en l'analyse de la variabilité de différents traits architecturaux, généralement mesurés à l'échelle de la pousse annuelle, en lien avec l'architecture et l'environnement. Ces études ont permis de caractériser quantitativement le développement du sapin jusqu'à l'expression durable de la sexualité et de quantifier la réponse plastique à l'environnement lumineux, hydrique et climatique. Enfin, ce travail a permis d'approfondir le concept de plasticité architecturale et ses implications. / The aim of this work is to assess silver fir phenotypic plasticity with an architectural approach. This work take place in the context of understanding perennial plant development linked with their environment and the context of climate change in the Mediterranean region.For this, ex-situ (shading and watering treatments) and in-situ (shading and elevation gradients) studies were performed. They consist of the study of architectural traits variability, mainly measured at annual shoot scale, linked with plant architecture and environment.The results are the quantification of silver firs development up to reproductive tree and the quantification of plastic responses to light and hydric environment and climate. The concept of architectural plasticity and it consequences was also discussed.

Les plantes croissent de manière continue tout au long de leur vie. Elles sont notamment capablesde produire de nouveaux axes de croissance, ce qui nécessite la mise place d’une zone frontière, induitepar l’expression des facteurs de transcription CUP-SHAPED COTYLEDON 1-3 (CUC). Au cours de mathèse, j’ai utilisé les dents formées à la marge des feuilles chez Arabidopsis thaliana comme un modèlepour mieux comprendre le rôle du réseau régulateur centré sur les gènes CUC au cours de lamorphogenèse.La première partie de mon travail a consisté en l’étude des processus en aval de CUC2, le principalrégulateur de la formation des dents. Grâce à l’utilisation d’un système d’expression inductible pour CUC2combiné à des analyses morphométriques et à la quantification de gènes rapporteurs, j’ai montré queCUC2 agit comme un déclencheur primaire et quantitatif de la formation des dents. Plusieurs relaisagissent en aval de CUC2, à des moments et dans des domaines différents, et ensemble permettent à ladent de continuer de croitre.Dans une seconde partie de mon travail, j’ai identifié et caractérisé des régulateurs en amont desgènes CUC. En suivant une approche candidat, j’ai montré que le microARN miR164 et le complexepolycombe PRC2 interagissent et contrôlent finement l’expression de CUC2. De plus, j’ai réalisé un criblesimple hybride en levure suivi d’expériences de validation in planta pour identifier de nouveauxrégulateurs de l’expression des gènes CUC/MIR164. Enfin, j’ai initié une validation fonctionnelle pourcertains de ces nouveaux candidats et montré qu’il s’agit de régulateurs généraux de l’architecture de lapartie aérienne. En décryptant les mécanismes en amont et en aval des gènes CUC, ce travail a permis demettre en évidence de nouveaux aspects de la mise en place des zones frontières et de la manière dont elles régulent l’architecture des plantes. / Throughout their lives, plants are able to produce new axes by differential growth. The formationof such new growth axes depends on the establishment of a boundary domain, which requires the CUPSHAPEDCOTYLEDON 1-3 (CUC) transcription factors. In this work, I used the small outgrowthsformed at the margin of Arabidopsis thaliana leaves as a model to decipher the CUC-centered networkregulating morphogenesis.In the first part of my work, I focused on the events downstream of CUC2, the master regulator ofleaf margin morphogenesis. Using conditional CUC2 expression combined with morphometric analysesand quantification of reporter genes, I showed that CUC2 functions as a primary and quantitative triggerfor morphogenesis. This trigger then acts through multiple relays, which actions spatially and temporallydiffer, and together allow sustained differential growth.In the second part of this work, I identified and characterized upstream regulators of the CUCgenes. In a candidate-based approach, I showed that miR164 and the polycomb complex PRC2 interact totightly control CUC2 expression. Next, I uncovered new potential transcriptional regulators of theCUC/MIR164 genes through a yeast one-hybrid screen followed by an in planta assay. Finally, I initiateda functional study for some of these candidates, which showed that they are general regulators of shootarchitecture. By revealing upstream and downstream components of the CUC-centered network, this workprovides new insights into how boundaries are regulated and how they shape plants.

Master of Science / Department of Biology / David C. Hartnett / Perennial grasses on tallgrass prairie primarily reproduce vegetatively via the belowground bud bank, yet the production, dynamics, and morphology of belowground buds is largely unexplored. Since the two main photosynthetic pathway guilds (C3 and C4) on tallgrass prairie vary in their aboveground phenology, their belowground phenology would also be expected to vary. Differences in bud production, development, and spatial arrangement result in different growth forms. Therefore, an extensive biweekly examination of a dominant tallgrass prairie C4 rhizomatous grass Andropogon gerardii and C3 caespitose grass Dichanthelium oligosanthes was conducted over an entire year. Andropogon gerardii and D. oligosanthes have multiple distinctive bud developmental stages. Andropogon gerardii was synchronous in its bud development and its bud bank was composed of multiple annual cohorts. The bud bank of D. oligosanthes was developmentally asynchronous and was comprised of a single bud cohort since its bud bank underwent a complete turnover in early summer. The different roles of buds in the life history of each species reflected their differences in bud longevity, quality, and dormancy. In D. oligosanthes, belowground buds enabled plant survival over the C3 summer dormant period whereas juvenile tillers overwintered during the longer winter dormant period. In contrast, A. gerardii survived its single, winter dormant period as dormant buds. The higher-order bud production observed in D. oligosanthes multiplied its tiller production potential and, along with its shortened internodes, contributed to its caespitose growth form. The rhizomatous growth form of A. gerardii resulted from its lack of higher-order bud production and its elongated internodes. Differences in production of buds per vegetative and flowering tiller were quantified in A. gerardii. Flowering tillers of A. gerardii produced larger numbers of buds per tiller and transitioned a larger proportion of their buds to tillers than did vegetative tillers. Therefore, no tradeoff between sexual and vegetative reproduction was evident. Developmental constraints likely prevented such a tradeoff. Bud bank dynamics offer insight into the control of grass population dynamics, production, and ultimately aboveground net primary production (ANPP) and will be useful in understanding the underlying mechanisms by which management practices and environmental change can alter perennial grasslands.