17 papers · ranked by Valyu relevance
Paul Hyman
For a bacteriophage to be useful for phage therapy it must be both isolated from the environment and shown to have certain characteristics beyond just killing strains of the target bacterial pathogen. These include desirable characteristics such as a relatively broad host range and a lack of other characteristics such…
Alexa Ross, Samantha Ward, Paul Hyman
Bacteriophages are viruses that infect bacteria. In this perspective, we discuss several aspects of a characteristic feature of bacteriophages, their host range. Each phage has its own particular host range, the range of bacteria that it can infect. While some phages can only infect one or a few bacterial strains…
Stefan Kusch, Justine Larrouy, Heba M. M. Ibrahim, Noémie Gasset + 6 more
The host range of parasites is an important factor in assessing the dynamics of disease epidemics. The evolution of pathogens to accommodate new hosts may lead to host range expansion, a process the molecular bases of which are largely enigmatic. The fungus Sclerotinia sclerotiorum parasitizes more than 400 plant…
James J. Bull, Holly A. Wichman, Stephen M. Krone
The host ranges of individual phages tend to be narrow, yet many applications of phages would benefit from expanded host ranges. Empirical methods have been developed to direct the evolution of phages to attack new strains, but the methods have not been evaluated or compared for their consequences. In particular, how…
Olivier Navaud, Adelin Barbacci, Andrew Taylor, John P. Clarkson + 1 more
The range of hosts that a parasite can infect in nature is a trait determined by its own evolutionary history and that of its potential hosts. However, knowledge on host range diversity and evolution at the family level is often lacking. Here, we investigate host range variation and diversification trends within the…
Graziele Pereira Oliveira, Rodrigo Araújo Lima Rodrigues, Maurício Teixeira Lima, Betânia Paiva Drumond + 1 more
The Poxviridae family is comprised of double-stranded DNA viruses belonging to nucleocytoplasmic large DNA viruses (NCLDV). Among the NCLDV, poxviruses exhibit the widest known host range, which is likely observed because this viral family has been more heavily investigated. However, relative to each member of the…
James J. Bull, Holly A. Wichman, Stephen M. Krone, Grzegorz Wegrzyn
Background: The host ranges of individual phages tend to be narrow, yet many applications of phages would benefit from expanded host ranges. Empirical methods have been developed to direct the evolution of phages to attack new strains, but the methods have not been evaluated or compared for their consequences. In…
Lele Zhao, Mansha Seth Pasricha, Dragos Stemate, Alvin Crespo-Bellido + 2 more
RNA viruses are capable of rapid host shifting, typically due to a point mutation that confers expanded host range. As additional point mutations are necessary for further expansions, epistasis among host range mutations can potentially affect the mutational neighborhood and frequency of niche expansion. We mapped the…
Flore Zélé, Joaquim L. Santos, Diogo Prino Godinho, Sara Magalhães
In the last decades, many studies had revealed the potential role of arthropod bacterial endosymbionts in shaping the host range of generalist herbivores and their performance on different host plants, which, in turn, might affect endosymbiont distribution in herbivores populations. We tested this by measuring the…
Anna K. G. Ward, Omar S. Khodor, Scott P. Egan, Kelly L. Weinersmith + 1 more
Parasites of animals and plants can encounter trade-offs between their specificity to any single host and their fitness on alternative hosts. For parasites that manipulate their host’s behavior, the complexity of that manipulation may further limit the parasite’s host range. The recently described crypt-keeper wasp…
Mihai Tudose, Andrei Anghel, Remus Cacoveanu, Mihai Datcu
This paper aims at presenting the basic functionality of a radar platform for real-time monitoring of displacement and vibration. The real time capabilities make the radar platform useful when live monitoring of targets is required. The system is based on the RF analog front-end of an USRP, and the range compression…
Martin Amezcua, Jeffry Setiadi, Yunhui Ge, David Mobley
The SAMPL series of challenges aim to focus the community on specific modeling challenges, while testing and hopefully driving progress of computational methods to help guide pharmaceutical drug discovery. In this study, we report on the results of the SAMPL8 host-guest blind challenge for predicting absolute binding…
Martin Amezcua, David Mobley
The SAMPL challenges focus on testing and driving progress of computational methods to help guide pharmaceutical drug discovery. However, assessment of methods for predicting binding affinities is often hampered by computational challenges such as conformational sampling, protonation state uncertainties, variation in…
Martin Amezcua, Léa El Khoury, David Mobley
The SAMPL challenges focus on testing and driving progress of computational methods to help guide pharmaceutical drug discovery. However, assessment of methods for predicting binding affinities is often hampered by computational challenges such as conformational sampling, protonation state uncertainties, variation in…
Synthia Qia Wang, Kyle MacMillan, Brennan Schaffner, Nick Feamster + 1 more
'Marshini Chetty'] Abstract. Although the Internet continues to grow, it increasingly depends on a small set of dominant service providers for Domain Name System (DNS) hosting and web hosting providers. This consolidation of Internet resources poses a variety of potential threats to the Internet, including…
David Slochower, Niel Henriksen, Lee-Ping Wang, John Chodera + 2 more
Designing ligands that bind their target biomolecules with high affinity and specificity is a key step in small- molecule drug discovery, but accurately predicting protein-ligand binding free energies remains challenging. Key sources of errors in the calculations include inadequate sampling of conformational space…
David Slochower, Niel Henriksen, Lee-Ping Wang, John Chodera + 2 more
Designing ligands that bind their target biomolecules with high affinity and specificity is a key step in small- molecule drug discovery, but accurately predicting protein-ligand binding free energies remains challenging. Key sources of errors in the calculations include inadequate sampling of conformational space…