Comparative Genomics

Primary tabs

Showing 1 - 30 results of 73

2023

JLOH: Inferring loss of heterozygosity blocks from sequencing data

Computational and Structural Biotechnology Journal

M. Schiavinato, V. del Olmo, V. Njenga Muya, and T. Gabaldón
Origin of fungal hybrids with pathogenic potential from warm seawater environments

Nature Communications

V. del Olmo, V. Mixão, R. Fotedar, E. Saus, A. Al Malki, E. Ksiezopolska, J. Carlos Nunez-Rodriguez, T. Boekhout, and T. Gabaldón
Overlooked Candida glabrata petites are echinocandin tolerant, induce host inflammatory responses, and display poor fitness

mBio

A. Arastehfar, F. Daneshnia, H. Hovhannisyan, D. Fuentes, N. Cabrera, C. Quinteros, M. Ilkit, N. Ünal, S. Hilmioğlu-Polat, and K. Jabeen
Overlooked Candida glabrata petites are echinocandin tolerant, induce host inflammatory responses, and display poor in vivo fitness

mBio

A. Arastehfar, F. Daneshnia, H. Hovhannisyan, D. Fuentes, N. Cabrera, C. Quinteros, M. Ilkit, N. Ünal, S. Hilmioğlu-Polat, K. Jabeen, S. Zaka, J. V. Desai, C. Lass-Florl, E. Shor, T. Gabaldón, and D. S. Perlin
Whole genome analysis of two sympatric human Mansonella: Mansonella perstans and Mansonella sp “DEUX”

Frontiers in Cellular and Infection Microbiology

M. Rodi, C. Gross, T. Lucas Sandri, L. Berner, M. Marcet-Houben, E. Kocak, M. Pogoda, N. Casadei, C. Köhler, A. Kreidenweiss, S. Todagbe Agnandji, T. Gabaldón, S. Ossowski, and J. Held
Whole-genome sequencing confirms a persistent candidaemia clonal outbreak due to multidrug-resistant Candida parapsilosis

Journal of Antimicrobial Chemotherapy

F. Daneshnia, S. Hilmioğlu-Polat, M. Ilkit, D. Fuentes, L. Lombardi, U. Binder, J. Scheler, F. Hagen, M. K. Mansour, G. Butler, C. Lass-Florl, T. Gabaldón, and A. Arastehfar
Worldwide emergence of fluconazole-resistant Candida parapsilosis: current framework and future research roadmap

The Lancet Microbe

F. Daneshnia, J. N. de Almei Júnior, M. Ilkit, L. Lombardi, A. M. Perry, M. Gao, C. J. Nobile, M. Egger, D. S. Perlin, B. Zhai, T. M. Hohl, T. Gabaldón, A. Lopes Colombo, M. Hoenigl, and A. Arastehfar
How genomics can help biodiversity conservation

Trends in Genetics

K. Theissinger, C. Fernandes, G. Formenti, I. Bista, P. R. Berg, C. Bleidorn, A. Bombarely, A. Crottini, G. R. Gallo, J. A. Godoy, et al.
A hybrid approach to assess the structural impact of long noncoding RNA mutations uncovers key NEAT1 interactions in colorectal cancer

IUBMB Life

E. Aydın, E. Saus, U. Chorostecki, and T. Gabaldón
Nothing makes sense in drug resistance except in the light of evolution

Current Opinion in Microbiology

T. Gabaldón
Evolution of loss of heterozygosity patterns in hybrid genomes of Candida yeast pathogens

BMC Biology

V. Mixão, J. Carlos Nunez-Rodriguez, V. del Olmo, E. Ksiezopolska, E. Saus, T. Boekhout, A. Gácser, and T. Gabaldón
Microbiome Profiling from Fecal Immunochemical Test Reveals Microbial Signatures with Potential for Colorectal Cancer Screening

Cancers

O. Khannous-Lleiffe, J. R. Willis, E. Saus, V. Moreno, S. Castellví-Bel, and T. Gabaldón
Rational engineering of AA5_2 copper radical oxidases to probe the molecular determinants governing their substrate selectivity

The FEBS Journal

R. Koncitikova, L. Zuily, E. Lemarié, D. Ribeaucourt, S. Saker, M. Haon, H. Brumer, V. Guallar, J‐G. Berrin, and M. Lafond
EvolClustDB: Exploring Eukaryotic Gene Clusters with Evolutionarily Conserved Genomic Neighbourhoods

Journal of Molecular Biology

M. Marcet-Houben, I. Collado-Cala, D. Fuentes-Palacios, A. D. Gómez, M. Molina, A. Garisoain-Zafra, U. Chorostecki, and T. Gabaldón
A hybrid approach to assess the structural impact of long noncoding RNA mutations uncovers key

IUBMB Life

E. Aydın, E. Saus, U. Chorostecki, and T. Gabaldón
Multiplexed target enrichment of coding and non-coding transcriptomes enables studying Candida spp. infections from human derived samples

Frontiers in Cellular and Infection Microbiology

H. Hovhannisyan, A. Rodríguez, E. Saus, M. Vaneechoutte, and T. Gabaldón
Client Applications and Server-Side Docker for Management of RNASeq and/or VariantSeq Workflows and Pipelines of the GPRO Suite

Genes

A. IbrahemHafez, B. Soriano, A. Allah Elsayed, R. Futami, R. Ceprian, R. Ramos-Ruiz, G. Martinez, F. Jose Roig, M. Angel Torres-Font, F. Naya-Catala, J. Alvar Calduch-Giner, L. Trilla-Fuertes, A. Gamez-Pozo, V. Arnau, J. Maria Sempere-Luna, J. Perez-Sánchez, T. Gabaldón, and C. Llorens
The little skate genome and the evolutionary emergence of wing-like fins

Nature

F. Marlétaz, E. de la Calle-Mustienes, R. D. Acemel, C. Paliou, S. Naranjo, P. Manuel Martínez-García, I. Cases, V. A. Sleight, C. Hirschberger, M. Marcet-Houben, D. Navon, A. Andrescavage, K. Skvortsova, P. Edward Duckett, Á. González-Rajal, O. Bogdanovic, J. H. Gibcus, L. Yang, L. Gallardo-Fuentes, I. Sospedra, J. Lopez-Rios, F. Darbellay, A. Visel, J. Dekker, N. Shubin, T. Gabaldón, T. Nakamura, J. J. Tena, D. G. Lupiáñez, D. S. Rokhsar, and J. Luis Gómez-Skarmeta
Phylogenomics of the Olea europaea complex using 15 whole genomes supports recurrent genetic admixture together with differentiation into seven subspecies

BMC Biology

I. Julca, P. Vargas, and T. Gabaldón

2022

Examination of Genome-Wide Ortholog Variation in Clinical and Environmental Isolates of the Fungal Pathogen Aspergillus fumigatus

mBio

M. Augusta C. Horta, J. L. Steenwyk, M. E. Mead, L. H. Braz do Santos, S. Zhao, J. G. Gibbons, M. Marcet-Houben, T. Gabaldón, A. Rokas, and G. H. Goldman
Discovery and Validation of Clinically Relevant Long Non-Coding RNAs in Colorectal Cancer

Cancers

M. Snyder, S. Iraola-Guzmán, E. Saus, and T. Gabaldón
PerSVade: personalized structural variant detection in any species of interest

Genome Biology

M. ÀngelSchikora-Tamarit, and T. Gabaldón
Chromosome-level assemblies from diverse clades reveal limited structural and gene content variation in the genome of Candida glabrata

BMC Biology

M. Marcet-Houben, M. Alvarado, E. Ksiezopolska, E. Saus, P. W. J. de Groot, and T. Gabaldón
Chromatin profiling reveals heterogeneity in clinical isolates of the human pathogen Aspergillus fumigatus

PLOS Genetics

A. CristinaColabardini, F. Wang, Z. Miao, L. Pardeshi, C. Valero, P. Alves de Castro, D. Yuri Akiyama, K. Tan, L. Czamanski Nora, R. Silva-Rocha, M. Marcet-Houben, T. Gabaldón, T. Fill, K. Ho Wong, and G. H. Goldman
Transcriptome and proteome profiling reveals complex adaptations of Candida parapsilosis cells assimilating hydroxyaromatic carbon sources

PLOS Genetics

A. Cillingová, R. Tóth, A. Mojáková, I. Zeman, R. Vrzoňová, B. Siváková, P. Baráth, M. Neboháčová, Z. Klepcová, F. Brázdovič, H. Lichancová, V. Hodorová, B. Brejová, T. Vinař, S. Mutalová, V. Vozáriková, G. Mutti, Ľ. Tomáška, A. Gácser, T. Gabaldón, and J. Nosek
Multiple Hybridization Events Punctuate the Evolutionary Trajectory of Malassezia furfur

mBio

B. Theelen, V. Mixão, G. Ianiri, J. Pei Zhen Goh, J. Dijksterhuis, J. Heitman, T. L. Dawson, T. Gabaldón, and T. Boekhout
Benzylic Dehydroxylation of Echinocandin Antifungal Drugs Restores Efficacy against Resistance Conferred by Mutated Glucan Synthase

Journal of the American Chemical Society

D. Logviniuk, Q. Z. Jaber, R. Dobrovetsky, N. Kozer, E. Ksiezopolska, T. Gabaldón, S. Carmeli, and M. Fridman
Chromosome-level assembly, annotation and phylome of Pelobates cultripes, the western spadefoot toad

DNA Research

H. ChristophLiedtke, F. Cruz, J. Gómez-Garrido, D. Fuentes Palacios, M. Marcet-Houben, M. Gut, T. Alioto, T. Gabaldón, and I. Gomez-Mestre
Using genomics to understand the mechanisms of virulence and drug resistance in fungal pathogens

Biochemical Society Transactions

M. ÀngelSchikora-Tamarit, and T. Gabaldón
Evolutionary analyses of genes in Echinodermata offer insights towards the origin of metazoan phyla

Genomics

S. Foley, A. Vlasova, M. Marcet-Houben, T. Gabaldón, and V. F. Hinman

Pages