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Corrigendum: Corrigendum: Interactive transcriptome analysis of malaria patients and infecting Plasmodium falciparum
- Junya Yamagishi,
- Anna Natori,
- Mohammed E.M. Tolba,
- Arthur E. Mongan,
- Chihiro Sugimoto,
- Toshiaki Katayama,
- Shuichi Kawashima,
- Wojciech Makalowski,
- Ryuichiro Maeda,
- Yuki Eshita,
- Josef Tuda,
- and Yutaka Suzuki
Genome Res. August 2018 28: 1253; doi:10.1101/gr.240291.118
...by Cold Spring Harbor Laboratory Press Corrigendum: Interactive transcriptome analysis of malaria patients and infecting Plasmodium falciparum Junya Yamagishi , Anna Natori , Mohammed E.M. Tolba , Arthur E. Mongan , Chihiro Sugimoto , Toshiaki Katayama , Shuichi Kawashima , Wojciech Makalowski , Ryuichiro...
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Method: Capturing in vivo RNA transcriptional dynamics from the malaria parasite Plasmodium falciparum
- Heather J. Painter,
- Manuela Carrasquilla,
- and Manuel Llinás
Genome Res. June 2017 27: 1074-1086; Published in Advance April 17, 2017, doi:10.1101/gr.217356.116
...stage of parasite development, and will allow for future applications to comprehensively measure RNA-protein interactions in the malaria parasite. [Supplemental material is available for this article.] Plasmodium falciparum, the causative agent of malaria, has a complex life cycle that includes...
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Research: Transcriptional variation in the malaria parasite Plasmodium falciparum
- Núria Rovira-Graells,
- Archna P. Gupta,
- Evarist Planet,
- Valerie M. Crowley,
- Sachel Mok,
- Lluís Ribas de Pouplana,
- Peter R. Preiser,
- Zbynek Bozdech,
- and Alfred Cortés
Genome Res. May 2012 22: 925-938; Published in Advance March 13, 2012, doi:10.1101/gr.129692.111
...genetic variation has been extensively characterized, but the level of epigenetic plasticity remains largely unexplored. Here we provide a comprehensive characterization of transcriptional variation in the most lethal malaria parasite, Plasmodium falciparum, based on highly accurate transcriptional...
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Resource: Transposable element variants and their potential adaptive impact in urban populations of the malaria vector Anopheles coluzzii
- Carlos Vargas-Chavez,
- Neil Michel Longo Pendy,
- Sandrine E. Nsango,
- Laura Aguilera,
- Diego Ayala,
- and Josefa González
Genome Res. January 2022 32: 189-202; Published in Advance December 29, 2021, doi:10.1101/gr.275761.121
...of genes containing insertions -wide (χ2 test P-value = 0.7788). Eleven of the 148 genes containing TE insertions are differentially expressed in response to a Plasmodium invasion (Supplemental Table S12). These 11 genes participate in several pathways of the immune response including the small regulatory...
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Research: Complete avian malaria parasite genomes reveal features associated with lineage-specific evolution in birds and mammals
- Ulrike Böhme,
- Thomas D. Otto,
- James A. Cotton,
- Sascha Steinbiss,
- Mandy Sanders,
- Samuel O. Oyola,
- Antoine Nicot,
- Sylvain Gandon,
- Kailash P. Patra,
- Colin Herd,
- Ellen Bushell,
- Katarzyna K. Modrzynska,
- Oliver Billker,
- Joseph M. Vinetz,
- Ana Rivero,
- Chris I. Newbold,
- and Matthew Berriman
Genome Res. April 2018 28: 547-560; Published in Advance March 2, 2018, doi:10.1101/gr.218123.116
...suggests that the avian malaria species form an outgroup to the mammalian Plasmodium species, and using amino acid divergence between species, we estimate the avian- and mammalian-infective lineages diverged in the order of 10 million years ago. Consistent with their phylogenetic position, we identify...
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Research: Rapid evolution of female-biased genes among four species of Anopheles malaria mosquitoes
- Francesco Papa,
- Nikolai Windbichler,
- Robert M. Waterhouse,
- Alessia Cagnetti,
- Rocco D'Amato,
- Tania Persampieri,
- Mara K.N. Lawniczak,
- Tony Nolan,
- and Philippos Aris Papathanos
Genome Res. September 2017 27: 1536-1548; Published in Advance July 26, 2017, doi:10.1101/gr.217216.116
...increases both bacterial and parasite numbers (Dong et al. 2006), and AGAP000570 (AgSGU), which is one of themost abundant peritrophic matrix proteins (Dinglasan et al. 2009) and has important roles in ookinete attachment of Plasmodium falciparum (Mathias et al. 2014), were also identified. Of the remaining...
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LETTER: Global analysis of transcript and protein levels across the Plasmodium falciparum life cycle
- Karine G. Le Roch,
- Jeffrey R. Johnson,
- Laurence Florens,
- Yingyao Zhou,
- Andrey Santrosyan,
- Munira Grainger,
- S. Frank Yan,
- Kim C. Williamson,
- Anthony A. Holder,
- Daniel J. Carucci,
- John R. Yates III,
- and Elizabeth A. Winzeler
Genome Res. November 2004 14: 2308-2318; doi:10.1101/gr.2523904
...Spring, Maryland 20910, USA Abstract To investigate the role of post-transcriptional controls in the regulation of protein expression for the malaria parasite, Plasmodium falciparum , we have compared mRNA transcript and protein abundance levels for seven different stages of the parasite life cycle...
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Research: Three-dimensional modeling of the P. falciparum genome during the erythrocytic cycle reveals a strong connection between genome architecture and gene expression
- Ferhat Ay,
- Evelien M. Bunnik,
- Nelle Varoquaux,
- Sebastiaan M. Bol,
- Jacques Prudhomme,
- Jean-Philippe Vert,
- William Stafford Noble,
- and Karine G. Le Roch
Genome Res. June 2014 24: 974-988; Published in Advance March 26, 2014, doi:10.1101/gr.169417.113
.... In addition, virulence associated with the human malaria parasite, Plasmodium falciparum, is known to be directly linked to the parasite’s ability to tightly control the expression of genes involved in antigenic variations on the surface of infected red blood cells. Some progress has been made in elucidating...
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RESOURCE: Computational modeling of the Plasmodium falciparum interactome reveals protein function on a genome-wide scale
- Shailesh V. Date and
- Christian J. Stoeckert, Jr.
Genome Res. April 2006 16: 542-549; Published in Advance March 6, 2006, doi:10.1101/gr.4573206
...of Genetics, School of Medicine, University of Pennsylvania, Philadelphia, Pennsylvania 19104, USA Abstract Many thousands of proteins encoded by the genome of Plasmodium falciparum, the causal organism of the deadliest form of human malaria, are of unknown function. It is of utmost importance...
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Letter: Nucleosome landscape and control of transcription in the human malaria parasite
- Nadia Ponts,
- Elena Y. Harris,
- Jacques Prudhomme,
- Ivan Wick,
- Colleen Eckhardt-Ludka,
- Glenn R. Hicks,
- Gary Hardiman,
- Stefano Lonardi,
- and Karine G. Le Roch
Genome Res. February 2010 20: 228-238; Published in Advance January 6, 2010, doi:10.1101/gr.101063.109
...factors to access DNA. In this model, promoter-specific transcription factors bind DNA to initiate the production of mRNA in a tightly regulated manner. In the case of the human malaria parasite, Plasmodium falciparum , specific transcription factors are apparently underrepresented with regards...

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