Viruses may acquire mutations that result in a tropism shift. RNA viruses, such as Coronaviruses (CoVs), are susceptible to tropism shifts. A tropism shift occurs when a virus alters the tissue or cell type it infects, which can have important implications for disease pathogenesis, virulence, transmission, and treatment control. Tropism shifts can occur after cross-species jumps, as well as result from within-host evolution. Beyond the human host, CoVs can be highly pathogenic to a wide variety of wildlife and companion animals. A spillover event from animals to humans, resulting in a tropism shift, has occurred at some point in the evolutionary history of all three highly pathogenic human CoVs: severe acute respiratory syndrome coronavirus (SARS-CoV), middle eastern respiratory syndrome coronavirus (MERS), and severe acute respiratory syndrome 2 (SARS-CoV-2). Therefore, studying the evolution of CoVs in non-human animals may be of critical importance for pandemic prevention. This was the focus of my dissertation, to apply state-of-the-art codon models of evolution to a variety of CoV viral sequences to identify how natural selection may alter viral proteins priming them for tropism shifts. Statistical codon models can infer both which codon sites and genes have been subject to positive or negative selection, effectively differentiating signal between random mutations and those that may impact fitness. These models may also compare selection at homologous sites between different phenotypes (i.e., Spike protein sequences isolated from the gastrointestinal tract and those from macrophages) to identify where selection is acting differently between the phenotypes. In chapter 2 I examined a CoV sequence isolated from hospitalized humans in Malaysia that resembled a Canine Coronavirus (CCoV) to investigate how natural selection had shaped the Spike protein sequence in related animal CoV sequences priming it to jump into humans. In chapter 3 I compared the natural selection signals at specific codon positions in the Spike protein from sequences isolated from two separate feline tropisms (gastrointestinal and macrophage) to identity which adaptive mutations may be associated with the tropism shift and subsequent shift in virulence. This was performed on Feline Coronavirus (FCoVs), where almost 90% of all wild and domestic cats are gastrointestinally infected with FCoVs, and infection becomes highly pathogenic as a result of the shift in tropism to the macrophages. Since intra-host evolution can impact tropism shifts, in Chapter 4 I performed a detailed high-throughout analysis of intra-host evolution of RNAseq data of Equine Coronavirus (ECoV), as well as natural selection analyses of related embecoviruses that have colonized the human host. Taken together, I report on novel signals of natural selection across viral proteins, with an emphasis on Spike, on a diverse set of CoV clades that shed light on the complexities of coronavirus evolution as it relates to tropism shifts. / Biology

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Les adénovirus (Ad) sont parmi les vecteurs les plus utilisés en thérapie génique. Cependant, les données d’essais pré-Cliniques et cliniques ont montré qu’ils induisaient une forte toxicité hépatique consécutive à leur tropisme hépatique, une réponse inflammatoire et une forte thrombocytopénie. Différents travaux avaient montré que l’interaction de l’Ad avec le facteur de la coagulation X (FX).était responsable de la transduction in vivo des hépatocytes après administration systémique des vecteurs Ad. Cependant, des résultats précédents du laboratoire avaient montré également que le pseudotypage d’une autre protéine de capside, la fibre, permettait de réduire la transduction hépatique. Dans le but de mieux comprendre le rôle de la fibre dans le tropisme et la toxicité des Ad, nous avons comparé des Ad recombinants pseudotypés pour tout (tige et tête de la fibre : AdF3) ou partie (tige : AdS3K5) de la fibre Ad3 avec un Ad5 à capside non modifiée (Adwt). Après administration systémique chez la souris, l’AdF3 et l’AdS3K5 induisent une plus faible expression du transgène dans le foie et la rate comparativement à l’Ad5wt. Cette réduction ne résulte ni d’un défaut de capture de ces vecteurs dans le foie ni de leur incapacité à utiliser le FX. Cependant, nos résultats ont révélé que les Ad pseudotypés par la fibre Ad3 étaient capturés de façon plus importante par les cellules de Kupffer. Nous avons montré que cette capture était une propriété intrinsèque de la fibre Ad3 puisqu’elle était observée également après administration systémique d’un Ad de sérotype 3. De façon intéressante, les Ad pseudotypés par la fibre Ad3 restent capables de transférer des gènes dans les tumeurs aussi efficacement que l’Adwt.Dans la deuxième partie de nos travaux, nous avons cherché à mieux comprendre les mécanismes de la thrombocytopénie consécutive à l’administration d’Ad. Nous avons défini la cinétique de la thrombocytopénie ainsi que l’effet de la dose virale. Nous avons montré que certains facteurs de l’hôte comme les facteurs de la coagulation ou la rate n’étaient pas impliqués dans la thrombocytopénie. De façon intéressante, nous avons montré que la fibre Ad5 jouait un rôle dans l’induction de la baisse plaquettaire puisque l’administration des virus à fibre Ad3 n’induisait plus de forte baisse plaquettaire. Parallèlement, nous avons observé un profil inflammatoire associé à l’administration des Ad à fibre modifiée beaucoup plus réduit que celui de l’Adwt. Nos travaux en cours évaluent l’existence possible d’une corrélation entre la production de cytokines/chimiokines et la thrombocytopénie.L’ensemble de ces résultats montre que le pseudotypage des Ad5 par la fibre de l’Ad3 permet de réduire leur toxicité et de limiter la réponse inflammatoire tout en conservant un transfert de gènes efficace dans les tumeurs. L’introduction de ce type de modification de capside dans les Ad oncolytiques devrait permettre de conserver leur capacité à se répliquer dans les tumeurs tout en limitant les toxicités liées à leur dissémination par voie systémique. / To date adenoviruses (Ad) are the most used vectors in gene therapy. However, Ad use is hampered by a strong liver tropism that leads to hepatotoxicity, a strong inflammatory response and the induction of thrombocytopenia. Binding of Ad hexon to coagulation factor X (FX) is responsible for hepatocyte transduction in vivo. As a consequence, mutation of hexon protein abrogates Ad interaction with FX and reduces liver transduction. However, previous results of our lab have demonstrated that Ad5 pseudotyping with fiber Ad3 also resulted in significant reduction of liver transduction. To understand how fiber modification affects in vivo Ad tropism, we used two pseudotyped viruses with whole (AdF3) or only the shaft (AdS3K5) of Ad3 fiber.Following systemic delivery of fiber-Modified Ads, a reduced transduction was observed 2 days p.i. in liver and spleen. This reduction was not due to the impairment of fiber-Modified Ads liver entry or FX use in vivo. Remarkably, after Kupffer cells depletion, a restored transgene expression level was observed, suggesting that fiber-Modified Ads are strongly uptaken by Kupffer cells. We have demonstrated that this strong uptake is an Ad3 intrinsic property since Ad3 was also strongly uptaken by Kupffer cells. Interestingly, fiber-Modified Ads transduce tumours as efficiently as Ad5. In the second part of this work, we aimed to better understand the mechanism of Ad-Induced thrombocytopenia. We first defined the kinetic and dose-Dependence of Ad-Induced thrombocytopenia. Then, we have shown that factors of the host such as the coagulation factors and the spleen were not involved in the thrombocytopenia development. Interestingly, we demonstrated o role for Ad5 in this platelet count reduction since fiber-Modified Ad induced only a modest thrombocytopenia. In parallel, we have observed a reduced production of inflammatory cytokine and chemokine following fiber-Modified Ad administration. Experiments are ongoing to investigate a possible correlation between inflammatory responses and thrombocytopenia. Altogether, our findings demonstrate that Ad5 pseudotyping with Ad3 fiber allows à reduced toxicity and inflammatory response while tumour transduction efficacy is remained. Therfore, oncolytic Ad pseudotyped with Ad3 fiber might be potent tool in tumor virotherapy while limiting risk of toxicity.

Cervical cancer is the second most common cancer among women worldwide and human papillomavirus (HPV) is a prerequisit for the development of this cancer. HPV belongs to the Papillomaviridae family and infects the basal layer of epithelial cells where it generally progresses into warts or condylomas. HPV can only reproduce in differentiating epithelia and it is therefore difficult to study the natural infection of HPV. More than 100 HPV types exist and they are divided into different genera based on their L1 open reading frame sequence. Most of the HPV types in the alpha-papillomavirus genus infect the mucosal epithelium while HPVs from the beta-papillomavirus genus usually infect cutaneous epithelial cells. Presently, it is not known what decides the anatomical tropism and our aim was to study determinants of this tropism. By using HPV virus like particles (VLP) and pseudovirus we found that VLPs from the two alpha-papillomaviruses HPV-6 and HPV-16 interacted with cell-surface heparan sulfate (HS) for initial attachment. When we labelled HPV VLPs with a fluorescent dye to study internalization HPV-6 was more strongly inhibited than HPV-16. Furthermore, a pseudovirus infection assay demonstrated that the beta-papillomavirus HPV-5 was less dependent on HS for infection than HPV-16. By analyzing the isoelectric point (p1) of the HPV L1 capsid protein we found that alpha HPV types were more positively charged than beta HPV types. Also, HPV-6 had a higher positive charge than HPV-16. Thus, the inhibition of the negatively charged heparin against HPV infection was clearly related to the charge of the HPV L1 capsid. This suggested that the initial interaction could be one of the determinants of tropism although not the sole factor. Lactoferrin is a protein found in milk, saliva, semen, tear fluid and endocervical secretions that has antiviral activities. Both human and bovine lactoferrin inhibited HPV infection but we found no significant differences in inhibition of alpha- and beta-papillomavirus infection. We could however demonstrate that different lactoferricins, small peptide derivates from the N-terminal part of lactoferrin, were able to inhibit HPV infection. This antiviral activity depended on lactoferricin peptide, HPV type and cell origin. The regulation of HPV gene expression in the host cell could also determine HPV tropism. The HPV long control region (LCR) contains cis-responsive elements that regulate HPV transcription and the epithelial tropism of HPV is determined by epithelial specific constitutive enhancers in the LCR. It has been hypothesized that the combination of transcription factors in the host cell determines the cell-type-specific expression. In cells with a skin origin the HPV-5 LCR was twice as efficient in transcriptional activation compared to HPV-16 LCR, while in cervical cells the HPV-16 LCR was almost twice as effective in activating transcription compared to HPV-5 LCR. To conclude, alpha- and beta-papillomaviruses differed regarding their ability to infect cells and regulate viral gene expression. These abilities corresponded with their natural host cells and suggested that HPV anatomical tropism could be determined at several steps in the HPV life cycle.

Adenoviruses belong to the most common human pathogens. The severity of infection varies greatly, from subclinical to lethal, depending on the virus type and immune status of the infected host. The 51 known human adenovirus serotypes are divided into six species (A-F) based on characteristics such as tropism. Species B adenoviruses, which are the subjects of this thesis, are further divided into subspecies B:1 that contains Ad3, Ad7, Ad16, Ad21 and Ad50 and subspecies B:2 that contains Ad11, Ad14, Ad34 and Ad35. Species B adenoviruses primarily cause ocular and respiratory tract infections, but certain serotypes (Ad11, Ad34 and Ad35) are also associated with renal disease. The main aim of this thesis was to identify and characterize cellular receptors for species B adenoviruses. This will ultimately help to understand the diverse tropism shown by different adenoviruses and perhaps contribute to development of antivirals. Also, since adenoviruses are among the most commonly used vector for gene therapy it is of importance to characterize the initial steps of adenovirus life cycle. Members of species B adenoviruses have been shown to utilize both the complement regulating membrane cofactor protein (MCP), i.e. CD46, and a still unknown receptor. CD80 and CD86, usually found on antigen-presenting cells, have also been suggested as receptors We found first that Ad11 used CD46 as a cellular receptor on respiratory A549 cells, and subsequently that CD46 is a cellular receptor for all species B adenovirus serotypes, except for adenovirus types 3 and 7, using cells that represent the tropism of species B adenoviruses, i.e. respiratory, conjunctival and renal epithelial cells. We further compared the relative roles of CD46 with CD80 and CD86 using cells that represent species B adenovirus tropism. Using soluble candidate receptors and antibodies against corresponding receptors to challenge virus binding to and infection of cells, we found that on these cells, CD46 is a cellular receptor for all species B adenoviruses except Ad3 and Ad7, and that CD80 and CD86 do not play an important role. We have further pinpointed the interaction site for Ad11 on CD46 by X-ray crystallography. The extracellular region of CD46 contains four short consensus repeats (SCR1-4) of which the outermost N-terminal SCR1 and SCR2 mediate binding to Ad11. This interaction was confirmed by inhibiting infection and binding of Ad11 to A549 cells using soluble SCR1-2 fragments. Surprisingly the conformation of bound CD46 differs profoundly from its unbound state, with the bent surface structure straightened into an elongated rod. Viral proteins can sometimes undergo large conformational changes upon receptor binding, but this is, to the best of our knowledge, the first example of a virus protein dramatically changing the overall structure of its receptor. CD46 serves as a receptor for a large number of viral and bacterial pathogens and it is structurally and functionally related to other viral receptors such as CD21 and CD55. The mode of interaction presented here may serve as a conceptual framework for studies of many other receptors that are constructed from SCR domains.

Einleitung: Toxoplasma (T.) gondii zählt zu den häufigsten intrazellulären Parasiten weltweit. Alleinige Endwirte im fakultativ heteroxenen Lebenszyklus sind die Feliden. Als Zwischenwirte können jedoch zahlreiche Säugetier- und Vogelarten dienen, in denen sich parasitäre Gewebezysten entwickeln. Einer der Hauptübertragungswege auf den Menschen stellt der Verzehr von T. gondii-haltigem Fleisch infizierter Nutztiere dar. Inwieweit Putenfleisch ein potentielles Infektionsrisiko birgt und welche Bedeutung Puten in der Epidemiologie der humanen Toxoplasmose besitzen ist nicht ausreichend geklärt. Ziel der Untersuchungen: Ziel der vorliegenden Arbeit war es, ein reproduzierbares Infektionsmodell bei Puten für T. gondii zu entwickeln, um die Verteilung und Persistenz des Parasiten im Gewebe zu ermitteln. Es wurden verschiedene Parameter, wie Infektionsstadium, Infektionsdosis, Applikationsmodus und Untersuchungszeitpunkt hinsichtlich ihres Einflusses auf die Entwicklung parasitärer Gewebestadien verglichen. Material und Methoden: Insgesamt wurden 74 Puten nach einer Aufzuchtperiode von 4 bis 8 Wochen experimentell mit T. gondii-Tachyzoiten oder Oozysten infiziert. Je nach Versuchsgruppe wurden Tachyzoiten vom Stamm ME49 intravenös und/oder intramuskulär appliziert oder Oozysten vom Stamm ME49, DX oder Hannover 1 oral verabreicht. Die Verifikation der Infektion erfolgte über den Nachweis T. gondii-spezifischer Antikörper mit Hilfe eines kinetischen ELISA. Drei bis acht Puten jeder Versuchsgruppe wurden 6 bis 8 oder 10 bis 12 Wochen nach der Infektion getötet. Von jedem Tier wurden folgende Gewebeproben entnommen: Brust-, Oberschenkel- und Unterschenkelmuskulatur, Herz, Leber, Muskel- und Drüsenmagen, Gehirn, Lunge, Milz, Nieren, Darm, Pankreas und Hoden (sofern vorhanden). Die Organe wurden getrennt vollständig homogenisiert. Bei den Muskeln wurden Proben von verschiedenen Lokalisationen entnommen und ebenfalls einzeln homogenisiert. Der Nachweis von T. gondii-DNA in den Gewebeproben erfolgte mittels konventioneller PCR, basierend auf der Amplifizierung eines 469 bp Fragments des B1-Gens, und anschließender nested PCR (Länge Zielfragment: 375 bp). Zusätzlich wurden zu Beginn der Studie lichtmikroskopische Untersuchungen einzelner Organe in Form nativer Quetschpräparate (400fache Vergrößerung) auf T. gondii-Zysten durchgeführt. Ergebnisse: Ungeachtet der Infektionsdosis und des inokulierten Parasitenstadiums konnten bei keinem der Versuchstiere klinische Symptome einer Toxoplasmose beobachtet werden. Die unterschiedlich hohen Infektionsdosen hatten im Allgemeinen keinen signifikanten Einfluss auf die Anzahl positiv getesteter Puten oder Organproben. Lediglich die Anzahl positiver Gehirnproben nahm mit ansteigender Oozystendosis signifikant zu. Bei der Betrachtung aller Versuchsgruppen fiel auf, dass die Befallshäufigkeit der Organe sowohl zwischen den Tieren verschiedener Infektionsgruppen als auch innerhalb einer Infektionsgruppe stark schwankte. So variierte die Anzahl positiv getesteter Organe bei den Tachyzoiten-infizierten Puten zwischen 0 und 7, bei den Oozysten-infizierten Puten zwischen 0 und 9 Organen pro Tier. Die Untersuchungsergebnisse zeigen, dass sich T. gondii heterogen in der Pute verteilt und mindestens 12 Wochen persistieren kann. Bezogen auf alle Versuchstiere gab es kein Organ, dass durchgängig negativ blieb. Nach der Tachyzoiteninfektion waren am häufigsten Leber (43,3%), gefolgt von Brustmuskel (26,7%) und Herz (20,0%) infiziert, während bei den Oozysten-infizierten Tieren der Erreger am häufigsten im Gehirn (47,2%), gefolgt von Oberschenkelmuskulatur (25,0%) und Herz und Unterschenkelmuskulatur (je 22,2%) nachgewiesen werden konnte. Schlussfolgerungen: Tachyzoiten und Oozysten erwiesen sich als gleichermaßen geeignete Infektionsmedien und führten hinsichtlich der systemischen Verteilung des Parasiten in der Pute zu vergleichbaren Ergebnissen. Ein spezifischer Organtropismus des Erregers konnte nicht festgestellt werden. Aus Sicht der Lebensmittelhygiene und des Verbraucherschutzes bedeuten die Ergebnisse, dass im Fall einer T. gondii-Infektion ein potentielles Infektionsrisiko für den Menschen durch infiziertes Putenfleisch nicht ausgeschlossen werden kann.

Macrophages are target cells for human immunodeficiency virus (HIV) and simian immunodeficiency virus (SIV) infection that serve as viral reservoirs in brain, lung, gut, and other tissues, and play important roles in disease pathogenesis, particularly HIV/SIV-associated neurological disease. Macrophages express low levels of the HIV/SIV receptor CD4, but mechanisms by which macrophage-tropic viruses use low CD4 to mediate spreading infections are poorly understood. One mechanism involves enhanced envelope glycoprotein (Env) interaction with CD4 or CCR5, but this phenotype is frequently associated with increased neutralization sensitivity to antibodies targeting CD4/CCR5 binding sites. Moreover, this mechanism does not explain how these neutralization-sensitive viruses evade immune responses while establishing spreading infections. In this dissertation, we sought to identify SIV Env determinants for macrophage tropism and characterize mechanisms by which they enhance virus replication in macrophages. To identify viral variants capable of inducing macrophage-associated pathogenesis, we cloned Env sequences from SIV-infected macaques at early and late stage infection, and identified an early variant in blood that shares >98% sequence identity with the consensus sequence of late variants in brain from macaques with neurological disease. SIV clones encoding this Env variant mediated high levels of fusion, replicated efficiently in rhesus PBMC and macrophages, and induced multinucleated giant cell formation upon infection of macrophage cultures. We identified an N-linked glycosylation site, N173 in the V2 region, as a determinant of macrophage tropism. Loss of N173 enhanced SIVmac239 macrophage tropism, while restoration of N173 in SIVmac251 reduced macrophage tropism, but enhanced neutralization resistance to CD4/CCR5 binding site antibodies. SIVmac239 N173Q, which lacks the N173 glycosylation site, mediated CD4-independent fusion and cell-to-cell transmission with CCR5-expressing cells, but could not infect CD4-negative cells in single-round infections. Thus, CD4-independent phenotypes were detected only in the context of cell-cell contact. The N173Q mutation had no effect on SIVmac239 gp120 binding to CD4 in BIACORE and co-immunoprecipitation assays. These findings suggest that loss of the N173 glycosylation site increases SIVmac239 replication in macrophages by enhancing CD4-independent cell-to-cell transmission through CCR5-mediated fusion. This mechanism may facilitate escape of macrophage-tropic viruses from neutralizing antibodies, while promoting spreading infections by these viruses in vivo.

Les virus oncolytiques sont une nouvelle classe d’agents thérapeutiques pouvant être une alternative au traitement des cancers. Plusieurs virus oncolytiques sont actuellement développés en clinique, néanmoins de nombreuses améliorations sont à apporter afin de créer une nouvelle classe de virus plus efficaces et moins toxiques. Le premier objectif de cette thèse a été d’améliorer la spécificité tumorale du virus de la vaccine via le ciblage de l’antigène MUC1 présenté à la surface des cellules tumorales. Pour cela un virus recombinant présentant à sa surface un fragment d’anticorps (scFv) dirigé contre l’antigène tumoral MUC1 a été construit et produit. Les tests in vitro n’ont toutefois pas permis de mettre en évidence un ciblage spécifique du virus recombinant. Un deuxième aspect de cette thèse a été de tester le potentiel oncolytique de virus de la famille des Poxviridae. Durant ce travail de thèse, les capacités oncolytiques de douze poxvirus, appartenant à 8 genres différents, ont été étudiés. Leurs effets sur la prolifération de cellules cancéreuses humaines ont été évalués. Les virus caractérisés par un effet oncolytique élevé ont été, par la suite, modifiés et armés par ingénierie virale afin d’augmenter leur efficacité. La dernière partie de cette thèse a été consacrée à la génération et la sélection de virus chimériques basées sur la méthode d’évolution dirigée. Cette méthode est utilisée pour mimer le processus naturel de sélection évolutif. Appliqué à la virothérapie oncolytique, ce procédé nous a permis de générer un nouveau virus oncolytique chimérique caractérisé par un potentiel anti-cancéreux amélioré. En résumé, cette thèse a permis, par des techniques d’ingénierie virale, par un criblage de nouveaux virus et par la méthode d’évolution dirigée, de créer et de sélectionner une nouvelle génération de poxvirus oncolytiques présentant une activité thérapeutique accrue avec un profil de toxicité atténué et pouvant être utilisés dans diverses indications thérapeutiques. / Oncolytiques viruses are a new class of therpeutic agents which could be an alternative for cancer treatment. Currently, several oncolytic viruses are evaluated in clinical trial, nevertheless improvements are needed to create a new class of more efficiente and less toxic viruses. The first objective of this thesis was to improved the vaccinia virus specificity through the targeting of the tumor-associated antigen MUC1. To address this goal, a recombinant virus expressing an scFv targeting the MUC1-protein was engineered and produced. However, in vitro, the demonstration of a specific targeting by the recombinant virus was not possible. A second aspect of this thesis work was to evaluate the oncolytic potential of Poxviridae family viruses. Oncolytic capacities of twelve viruses, belonging to eight genera, were evaluated. Their impact on human cancer cells was tested. In order to increase their efficacity, viruses with the highest oncolytic capacities were then modified and armed by genetic engineering. The third part of this work was devoted to the generation of chimeric viruses based on directed evolution process. This methodology is used to mimic the natural process of evolutionary selection. Applied to oncolytic virotherapy, this technique allowed the generation of a new chimeric oncolytic virus caracterised by an enhanced antitumoral potential. In summary, this thesis has allowed, through viral engineering, poxviruses screening and directed evolution methodology, the creation and selection of a new generation of oncolytic poviruses. These viruses demonstrate an increased therpeutic activity and greatest safety profil enabling their application in several therapeutic indication.

Under stress, chlamydiae can enter a non-infectious but viable state termed persistence. In the absence of a tractable genetic system, persistence induction provides an important experimental tool with which to study these fascinating organisms. This review will discuss examples of: i) persistence studies that have illuminated critical chlamydiae/host interactions; and ii) novel persistence models that will do so in the future.

The intracellular bacteria Wolbachia infect up to 40% of all insect species, including the vectors of prevalent infectious diseases such as Dengue and malaria. Even though Wolbachia infections are the largest pandemic on this planet, the cellular and molecular mechanisms for bacterial spreading in nature are still unknown. Wolbachia are mainly vertically transmitted through the egg cytoplasm, however there is also evidence of extensive horizontal transmission. We have found that Wolbachia target the stem cell niches in the Drosophila ovary to enhance germline colonization and subsequent vertical transmission. This tropism is pervasive across the Drosophila genus, with the pattern of targeting being evolutionarily conserved. Phylogenetic analyses, confirmed by hybrid introgression and transinfection experiments, demonstrate that bacterial factors are the major determinants of differential patterns of niche tropism. Furthermore, bacterial load is increased in germline cells passing through infected niches, supporting previous findings suggesting a contribution of Wolbachia from stem cell niches towards vertical transmission. If niche tropism is important for Wolbachia transmission through the germline, evolutionary theory predicts that there should be no selective pressure to maintain niche tropism in males. Indeed, we have found that tropism to the stem cell niche in the testis, known as the hub, is not evolutionarily conserved. Towards identifying the cellular and molecular mechanisms of stem cell niche tropism, we investigated hub targeting of closely related Wolbachia strains (wMel-like strains: wMel, wMel2, and wMel3; wMelCS-like strains: wMelCS, wMelCS2, and wMelPop). wMel-like and wMelCS-like Wolbachia strains differ in their frequencies and densities of hub infection. The targeting differences of these strains of Wolbachia indicate that this phenotype is rapidly evolving, as they shared a common ancestor only 8,000 years ago. With the plethora of tools available in D. melanogaster, a candidate gene approach was used to target host proteins enriched in the stem cell niche in the testis for RNAi mediated gene knockdown in the hub. We have identified Drosophila stem cell related signaling pathways that promote Wolbachia accumulation. Unraveling the cellular and molecular bases of tissue tropism is fundamental to understanding Wolbachia-host interactions. / 2017-01-01T00:00:00Z