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Resource: Comprehensive annotation of the transcriptome of the human fungal pathogen Candida albicans using RNA-seq
- Vincent M. Bruno,
- Zhong Wang,
- Sadie L. Marjani,
- Ghia M. Euskirchen,
- Jeffrey Martin,
- Gavin Sherlock,
- and Michael Snyder
Genome Res. October 2010 20: 1451-1458; Published in Advance September 1, 2010, doi:10.1101/gr.109553.110
...nucleotide. Cell 133: 116–127. Mitrovich QM, Tuch BB, Guthrie C, Johnson AD. 2007. Computational and experimental approaches double the number of known introns in the pathogenic yeast Candida albicans. Genome Res 17: 492–502. Mortazavi A, Williams BA, McCue K, Schaeffer L, Wold B. 2008. Mapping...
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Research: Reconstruction of ancestral chromosome architecture and gene repertoire reveals principles of genome evolution in a model yeast genus
- Nikolaos Vakirlis,
- Véronique Sarilar,
- Guénola Drillon,
- Aubin Fleiss,
- Nicolas Agier,
- Jean-Philippe Meyniel,
- Lou Blanpain,
- Alessandra Carbone,
- Hugo Devillers,
- Kenny Dubois,
- Alexandre Gillet-Markowska,
- Stéphane Graziani,
- Nguyen Huu-Vang,
- Marion Poirel,
- Cyrielle Reisser,
- Jonathan Schott,
- Joseph Schacherer,
- Ingrid Lafontaine,
- Bertrand Llorente,
- Cécile Neuvéglise,
- and Gilles Fischer
Genome Res. July 2016 26: 918-932; Published in Advance May 31, 2016, doi:10.1101/gr.204420.116
...additional Lachancea species. With 10 fully sequenced, assembled, and annotated s, the Lachancea clade is themost densely sampled yeast genus at the genomic level within the Saccharomycetaceae family. Second, we developed a new computational method called AnChro, to reconstruct ancestral organization...
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ARTICLE: Sixty Alleles of the ALS7 Open Reading Frame in Candida albicans: ALS7 Is a Hypermutable Contingency Locus
- Ningxin Zhang,
- Annette L. Harrex,
- Barbara R. Holland,
- Lauren E. Fenton,
- Richard D. Cannon,
- and Jan Schmid
Genome Res. September 2003 13: 2005-2017; doi:10.1101/gr.1024903
...of Otago, Dunedin, New Zealand Abstract The ALS (agglutinin-like sequence) gene family encodes proteins that play a role in adherence of the yeast Candida albicans to endothelial and epithelial cells. The proteins are proposed as virulence factors for this important fungal pathogen...
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Research: The origin and evolution of a distinct mechanism of transcription initiation in yeasts
- Zhaolian Lu and
- Zhenguo Lin
Genome Res. January 2021 31: 51-63; Published in Advance November 20, 2020, doi:10.1101/gr.264325.120
...-rich) region immediately upstream of the TSS, with a peak close to the −8 position, in all scanning-model yeasts except Candida albicans (Fig. 4A; Supplemental Fig. S9). We also detected a similar A-rich region at the same location in S. cerevisiae in all growth conditions examined based on published TSS maps...
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Methods: Predicting essential genes in fungal genomes
- Michael Seringhaus,
- Alberto Paccanaro,
- Anthony Borneman,
- Michael Snyder,
- and Mark Gerstein
Genome Res. September 2006 16: 1126-1135; Published in Advance August 9, 2006, doi:10.1101/gr.5144106
...effective approach—also the most difficult—is large-scale experimental gene disruption. Such screens represent a massive investment of time and resources, and they are not always feasible. For instance, traditional essentiality screens are difficult in Candida albicans because of its partial-diploid nature...
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Article: Comparative genomics of protoploid Saccharomycetaceae
- The Génolevures Consortium,
- Jean-Luc Souciet,
- Bernard Dujon,
- Claude Gaillardin,
- Mark Johnston,
- Philippe V. Baret,
- Paul Cliften,
- David J. Sherman,
- Jean Weissenbach,
- Eric Westhof,
- Patrick Wincker,
- Claire Jubin,
- Julie Poulain,
- Valérie Barbe,
- Béatrice Ségurens,
- François Artiguenave,
- Véronique Anthouard,
- Benoit Vacherie,
- Marie-Eve Val,
- Robert S. Fulton,
- Patrick Minx,
- Richard Wilson,
- Pascal Durrens,
- Géraldine Jean,
- Christian Marck,
- Tiphaine Martin,
- Macha Nikolski,
- Thomas Rolland,
- Marie-Line Seret,
- Serge Casarégola,
- Laurence Despons,
- Cécile Fairhead,
- Gilles Fischer,
- Ingrid Lafontaine,
- Véronique Leh,
- Marc Lemaire,
- Jacky de Montigny,
- Cécile Neuvéglise,
- Agnès Thierry,
- Isabelle Blanc-Lenfle,
- Claudine Bleykasten,
- Julie Diffels,
- Emilie Fritsch,
- Lionel Frangeul,
- Adrien Goëffon,
- Nicolas Jauniaux,
- Rym Kachouri-Lafond,
- Célia Payen,
- Serge Potier,
- Lenka Pribylova,
- Christophe Ozanne,
- Guy-Franck Richard,
- Christine Sacerdot,
- Marie-Laure Straub,
- and Emmanuel Talla
Genome Res. October 2009 19: 1696-1709; Published in Advance June 12, 2009, doi:10.1101/gr.091546.109
...subdivision of hemiascomycetes consists of species that translate CTG codons as serine rather than leucine, a reassignment believed to have occurred more than 170 million years ago (Miranda et al. 2006). This subdivision has been intensely studied because it contains the pathogenic yeastCandida albicans...
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Research: A genome-wide transcriptome and translatome analysis of Arabidopsis transposons identifies a unique and conserved genome expression strategy for Ty1/Copia retroelements
- Stefan Oberlin,
- Alexis Sarazin,
- Clément Chevalier,
- Olivier Voinnet,
- and Arturo Marí-Ordóñez
Genome Res. September 2017 27: 1549-1562; Published in Advance August 7, 2017, doi:10.1101/gr.220723.117
...for scarcer POL translation (Clare et al. 1988; Jacks et al. 1988). Alternatively, the s of the Candida albicans Ty1/Copia element, Tca2, and of Moloney murine leukaemia retrovirus (MLV) encode for a stop codon betweenGAG and POL (Yoshinaka et al. 1985; Matthews et al. 1997), and POL suboptimal translation...
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Resource: Indels, structural variation, and recombination drive genomic diversity in Plasmodium falciparum
- Alistair Miles,
- Zamin Iqbal,
- Paul Vauterin,
- Richard Pearson,
- Susana Campino,
- Michel Theron,
- Kelda Gould,
- Daniel Mead,
- Eleanor Drury,
- John O'Brien,
- Valentin Ruano Rubio,
- Bronwyn MacInnis,
- Jonathan Mwangi,
- Upeka Samarakoon,
- Lisa Ranford-Cartwright,
- Michael Ferdig,
- Karen Hayton,
- Xin-zhuan Su,
- Thomas Wellems,
- Julian Rayner,
- Gil McVean,
- and Dominic Kwiatkowski
Genome Res. September 2016 26: 1288-1299; Published in Advance August 16, 2016, doi:10.1101/gr.203711.115
...costs associated with resistance mutations could be compensated and greater phenotypic plasticity could be acquired. [Supplemental material is available for this article.] Genome variation in the eukaryotic pathogen Plasmodium falciparum underpins both fundamental biology, such as the ability...
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