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3 results on '"Tobon-Castano, A"'

1. Diversity of the bacterial and viral communities in the tropical horse tick,Dermacentor nitensin Colombia

Author

Andres F. Holguin-Rocha, Arley Calle-Tobon, Gissella M. Vásquez, Helvio Astete, Michael L. Fisher, Alberto Tobon-Castano, Gabriel Velez-Tobon, L. Paulina Maldonado-Ruiz, Kristopher Silver, Yoonseong Park, and Berlin Londono-Renteria

Subjects
Article
Abstract

Ticks are obligatory hematophagous ectoparasites that transmit pathogens among various vertebrates, including humans. The composition of the microbial and viral communities in addition to the pathogenic microorganisms is highly diverse in ticks, but the factors driving the diversity are not well understood. The tropical horse tick,Dermacentor nitens, is distributed throughout the Americas and it is recognized as a natural vector ofBabesia caballiandTheileria equi, the causal agents of equine piroplasmosis. We characterized the bacterial and viral communities associated with partially-fedD. nitensfemales collected by a passive survey on horses from field sites representing three distinct geographical areas in Colombia (Bolivar, Antioquia, and Cordoba). RNA-seq and sequencing of the V3 and V4 hypervariable regions of the 16S rRNA gene were performed using the Illumina-Miseq platform. A total of 356 operational taxonomic units (OTUs) were identified, in which the presumed endosymbiotic Francisellaceae/Francisellaspp. was predominantly found. Nine contigs corresponding to six different viruses were identified in three viral families: Chuviridae, Rhabdoviridae, and Flaviviridae. Differences in the relative abundance of the microbial composition among the geographical regions were found to be independent of the presence ofFrancisella-Like Endosymbiont (FLE). The most prevalent bacteria found on each region wereCorynebacteriumin Bolivar,Staphylococcusin Antioquia, andPseudomonasin Cordoba.Rickettsia-like endosymbionts, mainly recognized as the etiological agent of rickettsioses in Colombia were detected in the Cordoba samples. Metatranscriptomics revealed 13 contigs containing FLE genes, suggesting a trend of regional differences. These findings suggest regional distinctions among the ticks and their bacterial compositions.

Published
2023

2. An open dataset of Plasmodium vivax genome variation in 1,895 worldwide samples

Author

Adam, Ishag, Alam, Mohammad Shafiul, Alemu, Sisay, Amaratunga, Chanaki, Amato, Roberto, Andrianaranjaka, Voahangy, Anstey, Nicholas M, Aseffa, Abraham, Ashley, Elizabeth, Assefa, Ashenafi, Auburn, Sarah, Barber, Bridget E, Barry, Alyssa, Batista Pereira, Dhelio, Cao, Jun, Chau, Nguyen Hoang, Chotivanich, Kesinee, Chu, Cindy, Dondorp, Arjen M, Drury, Eleanor, Echeverry, Diego F, Erko, Berhanu, Espino, Fe, Fairhurst, Rick, Faiz, Abdul, Fernanda Villegas, María, Gao, Qi, Golassa, Lemu, Goncalves, Sonia, Grigg, Matthew J, Hamedi, Yaghoob, Hien, Tran Tinh, Htut, Ye, Johnson, Kimberly J, Karunaweera, Nadira, Khan, Wasif, Krudsood, Srivicha, Kwiatkowski, Dominic P, Lacerda, Marcus, Ley, Benedikt, Lim, Pharath, Liu, Yaobao, Llanos-Cuentas, Alejandro, Lon, Chanthap, Lopera-Mesa, Tatiana, Marfurt, Jutta, Michon, Pascal, Miotto, Olivo, Mohammed, Rezika, Mueller, Ivo, Namaik-Larp, Chayadol, Newton, Paul N, Nguyen, Thuy-Nhien, Nosten, Francois, Noviyanti, Rintis, Pava, Zuleima, Pearson, Richard D, Petros, Beyene, Phyo, Aung P, Price, Ric N, Pukrittayakamee, Sasithon, Rahim, Awab Ghulam, Randrianarivelojosia, Milijaona, Rayner, Julian C, Rumaseb, Angela, Siegel, Sasha V, Simpson, Victoria J, Thriemer, Kamala, Tobon-Castano, Alberto, Trimarsanto, Hidayat, Urbano Ferreira, Marcelo, Vélez, Ivan D, Wangchuk, Sonam, Wellems, Thomas E, White, Nicholas J, William, Timothy, Yasnot, Maria F, Yilma, Daniel, Alam, Mohammad Shafiul [0000-0001-8330-5499], Ashley, Elizabeth [0000-0002-7620-4822], Barber, Bridget E [0000-0003-1066-7960], Batista Pereira, Dhelio [0000-0002-7761-5498], Chu, Cindy [0000-0001-9465-8214], Dondorp, Arjen M [0000-0001-5190-2395], Echeverry, Diego F [0000-0003-0301-4478], Espino, Fe [0000-0003-1690-1711], Faiz, Abdul [0000-0002-3460-7535], Golassa, Lemu [0000-0002-1216-8711], Grigg, Matthew J [0000-0001-9914-8352], Karunaweera, Nadira [0000-0003-3985-1817], Kwiatkowski, Dominic P [0000-0002-5023-0176], Ley, Benedikt [0000-0002-5734-0845], Miotto, Olivo [0000-0001-8060-6771], Nguyen, Thuy-Nhien [0000-0002-4101-5706], Nosten, Francois [0000-0002-7951-0745], Pearson, Richard D [0000-0002-7386-3566], Phyo, Aung P [0000-0002-0383-9624], Price, Ric N [0000-0003-2000-2874], Rayner, Julian C [0000-0002-9835-1014], Urbano Ferreira, Marcelo [0000-0002-5293-9090], Wellems, Thomas E [0000-0003-3899-8454], Yasnot, Maria F [0000-0001-8081-4212], Yilma, Daniel [0000-0001-6058-2696], and Apollo - University of Cambridge Repository

Subjects
parasitic diseases, Genomics, Genomic Epidemiology, Plasmodium vivax, Malaria, Data Resource
Abstract

This report describes the MalariaGEN Pv4 dataset, a new release of curated genome variation data on 1,895 samples of Plasmodium vivax collected at 88 worldwide locations between 2001 and 2017. It includes 1,370 new samples contributed by MalariaGEN and VivaxGEN partner studies in addition to previously published samples from these and other sources. We provide genotype calls at over 4.5 million variable positions including over 3 million single nucleotide polymorphisms (SNPs), as well as short indels and tandem duplications. This enlarged dataset highlights major compartments of parasite population structure, with clear differentiation between Africa, Latin America, Oceania, Western Asia and different parts of Southeast Asia. Each sample has been classified for drug resistance to sulfadoxine, pyrimethamine and mefloquine based on known markers at the dhfr, dhps and mdr1 loci. The prevalence of all of these resistance markers was much higher in Southeast Asia and Oceania than elsewhere. This open resource of analysis-ready genome variation data from the MalariaGEN and VivaxGEN networks is driven by our collective goal to advance research into the complex biology of P. vivax and to accelerate genomic surveillance for malaria control and elimination.

Published
2022

3. An open dataset of

Author

Ishag, Adam, Mohammad Shafiul, Alam, Sisay, Alemu, Chanaki, Amaratunga, Roberto, Amato, Voahangy, Andrianaranjaka, Nicholas M, Anstey, Abraham, Aseffa, Elizabeth, Ashley, Ashenafi, Assefa, Sarah, Auburn, Bridget E, Barber, Alyssa, Barry, Dhelio, Batista Pereira, Jun, Cao, Nguyen Hoang, Chau, Kesinee, Chotivanich, Cindy, Chu, Arjen M, Dondorp, Eleanor, Drury, Diego F, Echeverry, Berhanu, Erko, Fe, Espino, Rick, Fairhurst, Abdul, Faiz, María, Fernanda Villegas, Qi, Gao, Lemu, Golassa, Sonia, Goncalves, Matthew J, Grigg, Yaghoob, Hamedi, Tran Tinh, Hien, Ye, Htut, Kimberly J, Johnson, Nadira, Karunaweera, Wasif, Khan, Srivicha, Krudsood, Dominic P, Kwiatkowski, Marcus, Lacerda, Benedikt, Ley, Pharath, Lim, Yaobao, Liu, Alejandro, Llanos-Cuentas, Chanthap, Lon, Tatiana, Lopera-Mesa, Jutta, Marfurt, Pascal, Michon, Olivo, Miotto, Rezika, Mohammed, Ivo, Mueller, Chayadol, Namaik-Larp, Paul N, Newton, Thuy-Nhien, Nguyen, Francois, Nosten, Rintis, Noviyanti, Zuleima, Pava, Richard D, Pearson, Beyene, Petros, Aung P, Phyo, Ric N, Price, Sasithon, Pukrittayakamee, Awab Ghulam, Rahim, Milijaona, Randrianarivelojosia, Julian C, Rayner, Angela, Rumaseb, Sasha V, Siegel, Victoria J, Simpson, Kamala, Thriemer, Alberto, Tobon-Castano, Hidayat, Trimarsanto, Marcelo, Urbano Ferreira, Ivan D, Vélez, Sonam, Wangchuk, Thomas E, Wellems, Nicholas J, White, Timothy, William, Maria F, Yasnot, and Daniel, Yilma

Abstract

This report describes the MalariaGEN Pv4 dataset, a new release of curated genome variation data on 1,895 samples of

Published
2022

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