The purpose of the present study was to experimentally investigate the effects of interspersing the opportunity to perform a fluent behavior during the acquisition of a new behavior. The experimenter trained left and right paw movements in domestic canines using a multiple treatment design. One paw movement was trained with a typical shaping procedure while the other was trained with an opportunity to perform a fluent behavior, touching the dog’s nose to a plastic disc, following each successive approximation in the shaping procedure. Two extinction phases were implemented during the experiment. The results showed that higher rates of reinforcement were achieved primarily following changes in criteria for reinforcement for the behavior in acquisition. There were no effects on rate of acquisition of the behavior, but adding an alternative fluent behavior may have slowed the differentiation between the reinforced behavior and alternative behaviors for one dog. The behavior trained with the addition of an alternative fluent behavior extinguished more quickly than in the control condition and extinguished at similar rates to the opposite leg movement. This suggests that the technique of offering an alternative fluent behavior may facilitate the chaining of the opposite behavior with the behavior targeted for reinforcement.

Long interspersed nuclear elements-1 (Line-1 or L1) accounts for approximately 17% of the human genome. The majority of L1s are inactive, but ~100 remain retrotransposon competent (RC-L1) and retrotranspose through RNA intermediates to different locations of the genome. It is well established that L1 is involved in both disease initiation and progression via retrotransposition dependent and independent mechanisms. Retrotransposed L1 sequences disrupt loci (e.g. gene structure) in ways that lead to human disease, and activities of L1 si/piRNA, ORF1 and ORF2 proteins are implicated in the etiology and progression of human diseases such as in breast and colon cancer (Miki et al., 1992; Ohms et al., 2014). Despite these implications, very little is known about pharmacological molecules that inhibit and reverse L1’s harmful effects. The clinical utility of L1 as a player in tumorigenesis and as a biomarker for disease initiation and progression is not thoroughly understood. In this review, we analyzed the life cycle of L1, its roles in disease initiation and progression, clinical utilities and potential as a pharmacological target and a biomarker for the diagnosis and treatment of human diseases, such as cancer.

Long interspersed nuclear element-1 (L1) is a genetic element that mobilizes throughout the mammalian genome via retrotransposition and damages host DNA via mutational insertions, chromosomal rearrangements, and reprogramming of gene expression. The cellular mechanisms responsible for aberrant L1 expression during cancer pathogenesis are unclear. Previously, we have shown that L1 reactivation in several human cell lines is dependent upon the activation of aryl hydrocarbon receptor (AhR), a ligand-activated transcription factor member of the PAS superfamily of proteins. We also showed that ectopic expression of L1 reprograms the HepG2 genome leading to epithelial-to-mesenchymal transition (EMT). Here we present evidence that reactivation of L1 and modulation of EMT in HepG2 cells by the AhR ligand benzo(a)pyrene (BaP) is effected through the canonical TGF-β1 signaling pathway. BaP increased TGF-β1 mRNA, SMAD2 phosphorylation and decreased expression of E-Cadherin. The functional relevance of these interactions and the involvement of TGFBR1/ALK5 and SMAD2/3 were confirmed by siRNA interference. Furthermore, expression of L1-encoded ORF1p was positively correlated with the activation of TGF-β1 signaling in human hepatocarcinoma samples at various stages of malignant progression. These results indicate that ligand-mediated AhR activation regulates L1 via canonical TGF-β1 signaling and raise important questions about the molecular etiology of human hepatocarcinomas.

Transposable elements (TEs) are mobile genetic elements capable of replicating and spreading within, and in some cases, between genomes. I describe a whole-genome analysis of DD34E TEs, which belong to the IS630-Tc1-mariner superfamily of DNA transposable elements, in the African malaria mosquito, Anopheles gambiae. Twenty-six new transposons as well as a new family, gambol, were identified. The gambol family shares the DD34E catalytic motif with Tc1-DD34E transposons, but is distinct from these elements in their phylogenetic relationships. Although gambol appears to be related to a few DD34E transposons from cyanobacteria and fungi, no gambol elements have been reported in any other insects or animals thus far. This discovery expands the already expansive diversity of the IS630-Tc1-mariner TEs, and raises interesting questions as to the origin of gambol elements and their apparent diversity in An. gambiae. Several DD34E transposons discovered in An. gambiae possess characteristics that are associated with recent transposition, such as high sequence identity between copies, and intact terminal-inverted repeats and open reading frames. One such element, AgTango, was also found in a distantly related mosquito species, Aedes aegypti, at high amino acid sequence identity (79.9%). It was discovered that Tango transposons have patchy distribution among twelve mosquito species surveyed using PCR as well as genomic searches, suggesting a possible case for horizontal transfer. Additionally, it was discovered that in some mosquito genomes, there are several Tango transposons. These observations suggest differential evolutionary scenarios and/or TE-host interaction of Tango elements between mosquito species. This strengthened the case that AgTango may be a functional transposase, and I sought to test its potential activity in a cell culture-based inter-plasmid transposition assay using the Herves plasmids as a positive control (Arensburger et al., 2005). AgTango constructs were successfully constructed; however, no transposition events were detected for Tango or Herves. Because the positive control failed to work, no assessment can be made concerning Tango's transposase. Possible causes and solutions for these results, alternative means to detect transposition, as well as future directions with Tango are discussed. / Ph. D.

A utilização de resíduos tem se mostrado como uma boa alternativa na redução do impacto causado pelo consumo desordenado de matéria-prima e pela redução das áreas de disposição, em virtude do grande volume de resíduos descartados a cada ano em todo mundo. Neste contexto se inserem os resíduos de pneus provenientes da recauchutagem. Este trabalho foi desenvolvido com o objetivo de estudar algumas propriedades de pavers de concreto, com substituição parcial do agregado por resíduos de pneus. Para a produção dos pavers foram consideradas as faixas de consumo de cimento Portland de 292,84 kg/m³, 323,06 kg/m³ e 347,00 kg/m³, e os níveis de incorporação dos resíduos estudados foram de 8%, 10%, 12%, 15% e 20%, em volume. As propriedades foram: resistência à compressão, absorção de água, resistência ao impacto, resistência à abrasão profunda e expansão por umidade. Os resultados mostram que ocorre queda na resistência à compressão. Na absorção de água, não podemos afirmar que essa propriedade é afetada de maneira negativa. Os pavers demonstraram grande capacidade de absorção de energia (tenacidade). Os resultados de resistência à abrasão mostram-se interessantes para a aplicação em ambientes com baixas solicitações. A expansão por umidade não afetará o intertravamento dos pavers. Dessa forma, os resultados mostraram viabilidade na utilização dos pavers com resíduos de pneus em pavimentação intertravada com solicitações leves. / Concerns regarding the environment and shortage of natural resources have led the way for sustainable alternatives. The recycling process seems to be a suitable alternative to minimize the use of natural resources as well as the lack of proper disposal sites caused by the large amounts of discarded waste worldwide. Within this context, rubber residues from recapped tires are used for insertion. This work was developed with the objective of studying some of the properties of concrete paving, with partial substitution of the aggregate for tire residues. For the production of pavers the bands of Portland cement consumption was considered at 292,84 kg/m³, 323,06 kg/m³ and 347,00 kg/m³, and the levels of residues incorporation at 8%, 10%, 12%, 15% and 20%, in volume. The studied properties were: compressive strength, water absorption, impact resistance, deep abrasion and expansion resistance to humidity. The results show decrease in the compressive strength. The water absorption does not undergo negative influence. Pavers demonstrated substantial capacity for energy absorption (tenacity). The results of abrasion resistance reveal interesting applications for locales with low degree of demands. Expansion by humidity will not affect the interspersing of pavers. However, the results have shown viability in the use of pavers interspersed with tire residues in asphalt with light load demands.

A utilização de resíduos tem se mostrado como uma boa alternativa na redução do impacto causado pelo consumo desordenado de matéria-prima e pela redução das áreas de disposição, em virtude do grande volume de resíduos descartados a cada ano em todo mundo. Neste contexto se inserem os resíduos de pneus provenientes da recauchutagem. Este trabalho foi desenvolvido com o objetivo de estudar algumas propriedades de pavers de concreto, com substituição parcial do agregado por resíduos de pneus. Para a produção dos pavers foram consideradas as faixas de consumo de cimento Portland de 292,84 kg/m³, 323,06 kg/m³ e 347,00 kg/m³, e os níveis de incorporação dos resíduos estudados foram de 8%, 10%, 12%, 15% e 20%, em volume. As propriedades foram: resistência à compressão, absorção de água, resistência ao impacto, resistência à abrasão profunda e expansão por umidade. Os resultados mostram que ocorre queda na resistência à compressão. Na absorção de água, não podemos afirmar que essa propriedade é afetada de maneira negativa. Os pavers demonstraram grande capacidade de absorção de energia (tenacidade). Os resultados de resistência à abrasão mostram-se interessantes para a aplicação em ambientes com baixas solicitações. A expansão por umidade não afetará o intertravamento dos pavers. Dessa forma, os resultados mostraram viabilidade na utilização dos pavers com resíduos de pneus em pavimentação intertravada com solicitações leves. / Concerns regarding the environment and shortage of natural resources have led the way for sustainable alternatives. The recycling process seems to be a suitable alternative to minimize the use of natural resources as well as the lack of proper disposal sites caused by the large amounts of discarded waste worldwide. Within this context, rubber residues from recapped tires are used for insertion. This work was developed with the objective of studying some of the properties of concrete paving, with partial substitution of the aggregate for tire residues. For the production of pavers the bands of Portland cement consumption was considered at 292,84 kg/m³, 323,06 kg/m³ and 347,00 kg/m³, and the levels of residues incorporation at 8%, 10%, 12%, 15% and 20%, in volume. The studied properties were: compressive strength, water absorption, impact resistance, deep abrasion and expansion resistance to humidity. The results show decrease in the compressive strength. The water absorption does not undergo negative influence. Pavers demonstrated substantial capacity for energy absorption (tenacity). The results of abrasion resistance reveal interesting applications for locales with low degree of demands. Expansion by humidity will not affect the interspersing of pavers. However, the results have shown viability in the use of pavers interspersed with tire residues in asphalt with light load demands.

Thesis (Ph.D. in Biophysics & Genetics, Human Medical Genetics Program) -- University of Colorado Denver, 2007. / Typescript. Includes bibliographical references (leaves 123-147). Free to UCD affiliates. Online version available via ProQuest Digital Dissertations;

Made available in DSpace on 2016-06-02T20:30:07Z (GMT). No. of bitstreams: 1 5064.pdf: 2133437 bytes, checksum: 91011d8e6a06f6e7760589cf0b30918d (MD5) Previous issue date: 2013-03-13 / Universidade Federal de Minas Gerais / Studies about the effects of contextual control over equivalence classes have been conducted since the 1980s and a relevant question in this area, both in terms of experimental and applied research, is whether changes in contextual variables could result in changes in classes originally formed under different contextual variables. This research investigated, in four studies, the effects of procedures for establishing the contextual control of conditional relations and equivalence classes. The participants were undergraduate students. The stimuli used as sample and comparison were abstract figures and the contextual stimuli were represented by the colors of the background on which the stimuli were presented. In Study 1, we conducted a procedure for the formation of equivalence classes on backgrounds of red and blue colors. Later we conducted a test that showed the equivalence relations in the presence of contextual stimuli blue, red and green. The results showed that participants had responses consistent with the last equivalence class trained, independent of contextual stimulus. Study 2 replicated the previous study, but tests also showed baseline relations. The results obtained were similar to Study 1. Study 3, initially, partially replicated the procedure of previous studies, only for conditional relations AB and then tested the effects of a conditional discrimination training procedure interspersing the colors of the background. The results revealed that this procedure was most effective in setting the control contextual than those conducted in Studies 1 and 2. Study 4 investigated the effects of a interpersed training procedure for the establishment of the contextual control of recombined conditional relations. The procedure consisted of six phases. Phase1 was conducted a conditional discrimination training interspersing the colors of the background. In Phase 2, we carried out the test of relations trained in Phase1. In Phase 3, tests were conducted in which trials were included with a green background. Phase 4 included the symetry relations. Phase 5 presented the same relations were tested in Step 4, however the configuration of stimulus presentation on the computer screen was different. Finally, in Step 6, a test aimed to verify the abstraction of responding under contextual control, with new stimulus and background colors. The results suggest that the contextual control was established for some of the participants. Investigations about the baseline relations training, specifically the interspersed training , for establishing the contextual control is required to produce more robust results. / Estudos acerca dos efeitos do controle contextual sobre classes de equivalência vêm sendo conduzidos desde a década de 1980 e uma questão relevante nesta área, tanto do ponto de vista experimental quanto aplicado, é se mudanças em variáveis contextuais poderiam resultar em mudanças em classes originalmente formadas sob variáveis contextuais diferentes. A presente pesquisa investigou, em quatro estudos, os efeitos de variáveis de procedimentos para o estabelecimento do controle contextual de relações condicionais e classes de equivalência. Os participantes dos estudos foram estudantes universitários. Os estímulos utilizados como modelo e comparação foram figuras abstratas e os estímulos contextuais foram representados pelas cores do plano de fundo sobre os quais os estímulos eram apresentados. No Estudo 1, foi conduzido um procedimento para a formação de classes de equivalência diferentes na presença das cores azul e vermelha e posteriormente foi conduzido um teste que apresentava as relações de equivalência na presença dos estímulos contextuais azul, vermelho e verde. Os resultados revelaram que os participantes apresentaram respostas consistentes com a última classe de equivalência treinada, independente do estímulo contextual. O Estudo 2 replicou o estudo anterior, incluindo nos testes, além de relações de equivalência, relações de linha de base. Os resultados obtidos foram semelhantes ao do Estudo 1. O Estudo 3, inicialmente, replicou parcialmente o procedimento dos estudos anteriores apenas para relações condicionais AB e, em seguida, testou-se os efeitos de um procedimento de treino de discriminação condicional AB intercalando-se as cores do plano de fundo. Os resultados revelaram que este procedimento foi mais eficaz no estabelecimento do controle contextual que os conduzidos nos Estudos 1 e 2. O Estudo 4 avaliou os efeitos de um procedimento de treino intercalado para o estabelecimento do controle contextual de relações condicionais recombinadas. O procedimento contou com seis etapas, sendo que na Etapa 1 foi conduzido um treino de discriminação condicional intercalando-se as cores do plano de fundo. Na Etapa 2, realizou-se o teste das relações treinadas na Etapa1. Na Etapa 3, foram conduzidos testes nos quais foram incluídas tentativas com um plano de fundo da cor verde. A Etapa 4 incluiu as relações de simetria BA. Na Etapa 5, foram testadas as mesmas relações da Etapa 4, no entanto a configuração de apresentação dos estímulos na tela do computador foi diferente. Finalmente, na Etapa 6, conduziu-se um teste cujo objetivo foi verificar a abstração do responder sob controle contextual, com estímulos e cores do plano de fundo inéditas no experimento. Os resultados sugerem que o controle contextual foi estabelecido para parte dos participantes. Investigações acerca dos treinos das relações de linha de base, especificamente do treino intercalado, para o estabelecimento do controle contextual são necessárias para a produção de resultados mais robustos.

Short interspersed nuclear elements (SINEs) are small non-autonomous and heterogeneous retrotransposons, widespread in animals and plants and usually differentially propagated in related species resulting in genome-specific copy numbers. Within the monocots, the Poaceae (sweet grasses) is the largest and economically most important plant family. The distribution of 24 Poaceae SINE (PoaS) families, five of which showing a subfamily structure, was analyzed in five important cereals (Oryza sativa, Triticum aestivum, Hordeum vulgare, Sorghum bicolor, Zea mays), the energy crop Panicum virgatum and the model grass Brachypodium distachyon. The comparative investigation of SINE abundance and sequence diversity within Poaceae species provides insights into their species‐specific diversification and amplification. The PoaS families and subfamilies fall into two length and structural categories: simple SINEs of up to 180 bp and dimeric SINEs larger than 240 bp. Of 24 PoaS families, 20 are structurally related across species, in particular either in their 5′ or 3′ regions. Hence, reshuffling between SINEs, likely caused by nested insertions of full-lengh and truncated copies, is an important evolutionary mechanism of SINE formation. Most striking, the recently evolved homodimeric SINE family PoaS‐XIV occurs exclusively in wheat (T. aestivum) and consists of two tandemly arranged PoaS‐X.1 copies. Exemplary for deciduous tree species, the evolutionary history of SINE populations was examined in six Salicaceae genomes (Populus deltoides, Populus euphratica, Populus tremula, Populus tremuloides, Populus trichocarpa, Salix purpurea). Four of eleven Salicaceae SINE (SaliS) families exhibit a subfamily organization. The SaliS families consist of two groups, differing in their phylogenetic distribution pattern, sequence similarity and 3’ end structure. These groups probably emerged at different evolutionary periods of time: during the ‘salicoid duplication’ (~ 65 million years ago) in the Salix-Populus progenitor, and during the separation of the genus Salix (~ 45 - 65 million years ago), respectively. Similar to the PoaS families, the majority of the 20 SaliS families and subfamilies share regions of sequence similarity, providing evidence for SINE emergence by reshuffling. Furthermore, they also contain an evolutionarily young dimeric SINE family (SaliS-V), amplified only in two poplar genomes. The special feature of the Salicaceae SINEs is the contrast of the conservation of 5’ start motifs across species and SINE families compared to the high variability of 3’ ends within the SINE families, differing in sequence and length, presumably resulting from mutations in the poly(A) tail as a possible route for SINE elongation. Periods of increased transpositional activity promote the dissemination of novel 3’ ends. Thereby, evolutionarily older motifs are displaced leading to various 3’ end subpopulations within the SaliS families. Opposed to the PoaS families with a largely equal ratio of poly(A) to poly(T) tail SINEs, the SaliS families are exclusively terminated by adenine stretches. Among retrotransposon-based markers, SINEs are highly suitable for the development of molecular markers due to their unidirectional insertion and random distribution mainly in euchromatic genome regions, together with an easy and fast detection of the heterogeneous SINE families. As a prerequisite for the development of SINE-derived inter-SINE amplified polymorphism (ISAP) markers, 13 novel Theaceae SINE families (TheaS-I - TheaS-VII, TheaS-VIII.1 and TheaS-VIII.2, TheaS-IX - TheaS-XIII) were identified in the angiosperm tree species Camellia japonica. Moreover, six Pinaceae SINE families (PinS-I.1 and PinS-I.2, PinS-II – PinS-VI) were detected in the gymnosperm species Larix decidua. Compared to the SaliS and PoaS families, structural relationships are less frequent within the TheaS families and absent in the PinS families. The ISAP analysis revealed the genetic identity of Europe’s oldest historical camellia (C. japonica) trees indicating their vegetative propagation from the same ancestor specimen, which was probably the first living camellia on European ground introduced to England within the 18th century. Historical sources locate the native origin of this ancestral camellia specimen either in the Chinese province Yunnan or at the Japanese Gotō Islands. Comparative ISAPs showed no accordance to the Gotō camellia sample pool and appropriate Chinese reference samples were not available. However, the initial experiments demonstrated the potential of ISAP to resolve variations among natural populations. The ISAP application on angiosperm trees also concerned fast growing Populus clones grown in short rotation coppice plantations for energy production. The species-specific P. tremula ISAP primers might also be applied for the discrimination of hybrid poplar clones involving P. tremuloides genome portions, since SINEs of these two species are highly related. However, due to lineage-specific SINE evolution during speciation, cross-species applications are generally only successful to limited extent. The analysis of poplar hybrids composed of P. maximowiczii with either P. trichocarpa or P. nigra based on P. tremula ISAP primers showed a strongly reduced resolution. In forestry, hybrid larch (e.g. Larix × eurolepis) genotypes have to be selected from the offspring of Japanese (Larix kaempferi) and European larch (Larix decidua) crosses, as they exhibit superior growth rates compared to the parental species. Initial ISAP-based examinations of European larch genotypes provided less polymorphic banding patterns, probably resulting from general high levels of synteny and collinearities reported for gymnosperm species. Hence, the ISAP was combined with the AFLP technique to the novel marker system inter-SINE-restriction site amplified polymorphism (ISRAP). The amplicons originating from genomic regions between SINEs and EcoRI cleavage sites were visualized with the sensitive capillary gel electrophoresis. The ISRAP assays, based on EcoRI adapter primers combined with two different SINE-derived primers, resulted in a sufficient number of polymorphic peaks to distinguish the L. decidua genotypes investigated. Compared to ISAPs, the ISRAP approach provides the required resolution to differentiate highly similar larch genotypes.

Retrotransposons are major components of plant genomes influencing their genome size, organization and evolution. In the frame of this work, retrotransposons of the Beta vulgaris genome have been identified by molecular methods and whole genome bioinformatics approaches. Neither belonging to the rosids nor asterids, B. vulgaris (cultivated beet including sugar beet, beet root and mangold) is taxonomically placed at a key position at the root of the core eudicots, and considerably different from traditional plant model species such as thale cress or rice. Its genome has been sequenced, and annotation is under way. In order to compare different evolutionary lineages of B. vulgaris retrotransposons, long terminal repeat (LTR) and non-LTR retrotransposon family have been analyzed in detail. Full-length members have been isolated and characterized by bioinformatics, Southern and fluorescent in situ hybridization. Hallmarks of the LTR retrotransposon family Cotzilla are an additional env-like open reading frame (ORF), homogeneity of the members and the very high abundance. Most family members are evolutionarily young, and have most likely been created during recent bursts of amplification during species radiation. In contrast, the non-LTR retrotransposon family BNR has fewer copies and is much more diverged. Although the BNR ORF2 resembles previously analyzed long interspersed nuclear elements (LINEs) of the L1 clade, its ORF1 sequence differs strongly. It lacks the zinc finger domain described for plant LINEs, but contains instead an RNA recognition motif (RRM) likely to have an RNA-binding function. Database searches revealed the presence of similar LINE families in higher plant genomes such as poplar, lotus and soybean. Comparing their reverse transcriptase regions with other retrotransposons, these BNR-like LINEs form a separate group of L1 LINEs designated as BNR subclade. Availability of the B. vulgaris genome sequence allowed retrotransposon analyses on a genome-wide scale. A Hidden Markov Model-based detection algorithm has been developed in order to retrieve retrotransposon information directly from the database. Nearly 6000 B. vulgaris reverse transcriptase sequences have been isolated and classified into LTR retrotransposons of the Ty3-gypsy and Ty1-copia type, and non-LTR retrotransposons of the LINE type. As a result, a comprehensive overview of the retrotransposon spectrum of the B. vulgaris genome has been generated. Since plant LINEs have been only rarely investigated, the B. vulgaris LINE composition was studied in detail. Out of 28 described LINE clades, only members of the L1 and RTE clades have been identified. Based on a minimal shared sequence identity of 60 %, they form at least 17 L1 families and one RTE family. Full-length members of all investigated L1 families have been analyzed regarding their sequence, structure and diversity. In order to transfer the algorithm tested in B. vulgaris to other angiosperm genomes, twelve additional plant genomes have been queried for LINE reverse transcriptases. Key finding is the presence of only two LINE clades (L1 and RTE) in the analyzed genomes of higher plants. Whereas plant L1 LINEs are highly diverse and form at least seven subclades with members across species borders, RTE LINEs are extremely homogenized and constitute most likely only a single family per genome. In summary, this work’s results help to gain an understanding of the different strategies of retrotransposon evolution in plants, whereas the generated data directly contributes to the B. vulgaris genome annotation project. / Retrotransposons sind eine wesentliche Komponente von Pflanzengenomen, die sowohl die Größe und Organisation als auch die Evolution dieser Genome wesentlich beeinflussen können. Im Rahmen dieser Arbeit wurden verschiedene Gruppen von Retrotransposons des Beta vulgaris Genoms mittels molekularer und bioinformatischer Methoden identifiziert. Innerhalb der dikotyledonen Blütenpflanzen gehört B. vulgaris (kultivierte Rübe einschließlich Zuckerrübe, Roter Beete und Mangold) weder zu den Rosiden noch zu den Asteriden, sondern nimmt eine Schlüsselposition innerhalb der Kerneudikotyledonen ein. Somit zeigt das Rübengenom wesentliche Unterschiede zu traditionellen Modellpflanzen wie Arabidopsis thaliana oder Oryza sativa. Das Genom ist bereits sequenziert, die Annotation jedoch noch nicht abgeschlossen. Um verschiedene evolutionäre Linien von B. vulgaris Retrotransposons vergleichend zu untersuchen wurden insbesondere Long Terminal Repeat (LTR)- und Non-LTR-Retrotransposon-Familien detailliert analysiert. Vollständige Mitglieder wurden isoliert und mittels bioinformatischer Methoden, Southern- und Fluoreszenz-in situ-Hybridisierung untersucht. Die LTR-Retrotransposon-Familie Cotzilla ist durch einen zusätzlichen env-ähnlichen offenen Leserahmen (ORF), Homogenität ihrer Mitglieder und eine hohe Abundanz gekennzeichnet. Die meisten Cotzilla-Kopien sind evolutionär jung und wurden wahrscheinlich innerhalb eines kurzen Zeitraumes während der Artentstehung stark amplifiziert. Im Gegensatz zur Cotzilla-Familie besitzt die Non-LTR-Retrotransposon-Familie BNR weniger Kopien und ist wesentlich divergierter. Während der BNR-spezifische ORF2 starke Ähnlichkeiten zu anderen pflanzlichen Long Interspersed Nuclear Elements (LINEs) der L1-Klade aufweist, unterscheidet sich der BNR ORF1 von diesen sehr stark. Im Gegensatz zu bereits beschrieben pflanzlichen LINEs kodiert er kein Zinkfingermotiv, sondern substituiert dieses durch ein RNA-Erkennungsmotiv (RRM). Durch Datenbanksuche konnten BNR-ähnliche LINEs in den Genomen höherer Pflanzen wie Soja, Lotus und Pappel identifiziert werden. Ein Vergleich der entsprechenden Reversen Transkriptasen (RT) mit den RTs anderer Retrotransposons zeigt, dass die BNR-ähnlichen LINEs eine separate Gruppe innerhalb der L1 LINEs bilden. Diese wurde daher als BNR-Subklade definiert. Die Untersuchung von Retrotransposons auf Genomebene wurde durch die B. vulgaris Genomsequenz ermöglicht. Um Retrotransposon-Informationen direkt aus dem Genom zu extrahieren, wurde ein Hidden Markov Modell (HMM)-basierter Detektions-algorithmus entwickelt. Annähernd 6000 B. vulgaris Reverse Transkriptase-Sequenzen konnten identifiziert und in LTR-Retrotransposons des Ty3-gypsy- beziehungsweise des Ty1-copia-Typs und in Non-LTR-Retrotransposons des LINE-Typs klassifiziert werden. Somit wurde ein umfassender Überblick über die Bandbreite der B. vulgaris Retrotransposons arhalten. Da pflanzliche LINEs bisher nur wenig erforscht sind, wurde die B. vulgaris LINE Zusammensetzung genauer untersucht. Von 28 beschriebenen LINE-Kladen konnten nur Mitglieder der L1- und der RTE-Klade identifiziert werden. Basierend auf einer Identität von mindestens 60 % bilden die Sequenzen 17 L1 Familien und eine RTE Familie. Vollständige Mitglieder aller L1 Familien wurden hinsichtlich ihrer Sequenz, Struktur und Diversität analysiert. Um den in B. vulgaris getesteten HMM-basierten Algorithmus auf andere Angiospermengenome zu übertragen, wurden zwölf weitere Pflanzengenome auf das Vorhandensein von LINE-spezifischen Reversen Transkriptasen untersucht. Wesentlichstes Ergebnis ist der Nachweis von nur zwei LINE-Kladen (L1 und RTE) in höheren Pflanzen. Während pflanzliche L1 LINEs hochgradig divers sind und über Artgrenzen hinaus mindestens sieben Subkladen mit Vertretern verschiedener Pflanzen bilden, sind RTE LINEs extrem homogenisiert und stellen höchstwahrscheinlich nur eine einzelne Familie pro Genom einer Art dar. Zusammenfassend ermöglichen die Ergebnisse dieser Arbeit eine Erweiterung des Verständnisses der unterschiedlichen Evolutionsstrategien von Retrotransposons in Pflanzen. Zusätzlich tragen die gewonnen Daten zur Annotation des B. vulgaris Genoms bei.