Genome sequence of the human malaria parasite Plasmodium falciparum

By M. Gardner, N. Hall, E. Fung, Owen White, Matthew Berriman, R. Hyman, J. Carlton, A. Pain, K. Nelson, S. Bowman and 35 more. Nature, 2002

4,455 citations recorded by the source corpus.

Subfields: Immunology, Molecular Biology, Public Health, Environmental and Occupational Health

View Paper: https://www.semanticscholar.org/paper/ca2376c140cc56b1bb150ccf50ee37a34b4e5887

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In Immunology

1. David A. Fidock
2. B. Greenwood
3. P. Alonso
4. Dennis E. Kyle
5. P. Duffy
6. Stefan H. I. Kappe
7. F. S. Collins
8. Dominic Kwiatkowski

In Molecular Biology

1. Eugene V. Koonin
2. Yuri I. Wolf
3. David S. Roos
4. Kira S. Makarova
5. Christian J. Stoeckert Jr.
6. Li Li
7. K. Adams
8. Anastasia N. Nikolskaya

In Public Health, Environmental and Occupational Health

1. David A. Fidock
2. P. Duffy
3. Dennis E. Kyle
4. F. S. Collins
5. Stefan H. I. Kappe
6. P. Alonso
7. B. Greenwood
8. Christopher J. Drakeley

Citations in the corpus

• A cloud-compatible bioinformatics pipeline for ultrarapid pathogen identification from next-generation sequencing of clinical samples (2014, background): “…in the Democratic Republic ofthe Congo (DRC), Africa, wasanalyzed by unbiased NGS. NGSreads identified as Plasmodium bySURPI are mappedtothe 14chromosomes of Plasmodium falciparum clone 3D7, including multiple hits to telomeric ends by reads corresponding to the var gene (Gardner et al. 2002).”
• Duplication and divergence: the evolution of new genes and old ideas. (2004, background): “In the parasite Plasmodium falciparum, the causal agent of human malaria, duplication events have produced paralogous sets or units of ribosomal RNA genes (35).”
• Analyzing and minimizing PCR amplification bias in Illumina sequencing libraries (2011, background): “Gardner MJ, Hall N, Fung E, White O, Berriman M, Hyman RW, Carlton JM, Pain A, Nelson KE, Bowman S, Paulsen IT, James K, Eisen JA, Rutherford K, Salzberg SL, Craig A, Kyes S, Chan MS, Nene V, Shallom SJ, Suh B, Peterson J, Angiuoli S, Pertea M, Allen J, Selengut J, Haft D, Mather MW, Vaidya AB, Mart”
• Selective upregulation of a single distinctly structured var gene in chondroitin sulphate A‐adhering Plasmodium falciparum involved in pregnancy‐associated malaria (2003, methodology): “The upregulation of this gene was first identified in NF54 parasites using primers specific for 59 full-length var genes present in the NF54 isogenic 3D7 genome (Gardner et al., 2002).”
• RepSeq – A database of amino acid repeats present in lower eukaryotic pathogens (2007, neutral): “These repeat regions are believed to form non-globular segments of unknown function that extend from protein domains [23-26].”
• A Systematic Map of Genetic Variation in Plasmodium falciparum (2006, neutral): “falciparum-genome intergenic regions are up to 90% AT rich and are known to recombine when cloned in other organisms; they created special challenges in the original sequencing of the genome [11].”
• Macronuclear Genome Sequence of the Ciliate Tetrahymena thermophila, a Model Eukaryote (2006, neutral): “If the ancestor of ciliates once had a plastid, it is possible that some plastid-derived genes would have been transferred to the nuclear genome (as has occurred in many lineages including apicomplexans and dinoflagellates [72]), and furthermore that some such genes would still be found in T.”
• Circlator: automated circularization of genome assemblies using long sequencing reads (2015, methodology): “We evaluated the circularization tools using data from the reference strain 3D7 [18].”