Nature Communications, Vol. 9, No. 1. (12 October 2018), doi:10.1038/s41467-018-06733-w
Hanwei Fang, Ana Gomes, Natacha Klages, Paco Pino, Bohumil Maco, Eloise Walker, Zenon Zenonos, Fiona Angrisano, Jake Baum, Christian Doerig, David Baker, Oliver Billker, Mathieu Brochet

PLOS Biology, Vol. 16, No. 8. (21 August 2018), e2005712, doi:10.1371/journal.pbio.2005712
Mary Bushman, Rustom Antia, Venkatachalam Udhayakumar, Jacobus de Roode

(February 2014)

List of indexed keywords within the transdisciplinary set of domains which relate to the Integrated Natural Resources Modelling and Management (INRMM). In particular, the list of keywords maps the semantic tags in the INRMM Meta-information Database (INRMM-MiD). [\n] The INRMM-MiD records providing this list are accessible by the special tag: inrmm-list-of-tags ( http://mfkp.org/INRMM/tag/inrmm-list-of-tags ).

Nature Microbiology (3 September 2018), doi:10.1038/s41564-018-0223-6
Robyn Kent, Katarzyna Modrzynska, Rachael Cameron, Nisha Philip, Oliver Billker, Andrew Waters

PLOS Biology, Vol. 16, No. 8. (24 August 2018), e2006035, doi:10.1371/journal.pbio.2006035
Aude Gilabert, Thomas Otto, Gavin Rutledge, Blaise Franzon, Benjamin Ollomo, Céline Arnathau, Patrick Durand, Nancy Moukodoum, Alain-Prince Okouga, Barthélémy Ngoubangoye, Boris Makanga, Larson Boundenga, Christophe Paupy, François Renaud, Franck Prugnolle, Virginie Rougeron

Scientific Reports, Vol. 8, No. 1. (22 August 2018), doi:10.1038/s41598-018-30593-5
Duangkamon Bunditvorapoom, Theerarat Kochakarn, Namfon Kotanan, Charin Modchang, Krittikorn Kümpornsin, Duangkamon Loesbanluechai, Thanyaluk Krasae, Liwang Cui, Kesinee Chotivanich, Nicholas White, Prapon Wilairat, Olivo Miotto, Thanat Chookajorn

Proceedings of the National Academy of Sciences (20 August 2018), 201810053, doi:10.1073/pnas.1810053115
Dorothy Loy, Lindsey Plenderleith, Sesh Sundararaman, Weimin Liu, Jakub Gruszczyk, Yi-Jun Chen, Stephanie Trimboli, Gerald Learn, Oscar MacLean, Alex Morgan, Yingying Li, Alexa Avitto, Jasmin Giles, Sébastien Calvignac-Spencer, Andreas Sachse, Fabian Leendertz, Sheri Speede, Ahidjo Ayouba, Martine Peeters, Julian Rayner, Wai-Hong Tham, Paul Sharp, Beatrice Hahn

Nature Communications, Vol. 9, No. 1. (17 August 2018), doi:10.1038/s41467-018-05652-0
Leila Ross, Satish Dhingra, Sachel Mok, Tomas Yeo, Kathryn Wicht, Krittikorn Kümpornsin, Shannon Takala-Harrison, Benoit Witkowski, Rick Fairhurst, Frederic Ariey, Didier Menard, David Fidock

The Lancet Haematology (July 2018), doi:10.1016/s2352-3026(18)30107-8
Carolyne Ndila, Sophie Uyoga, Alexander Macharia, Gideon Nyutu, Norbert Peshu, John Ojal, Mohammed Shebe, Kennedy Awuondo, Neema Mturi, Benjamin Tsofa, Nuno Sepúlveda, Taane Clark, Gavin Band, Geraldine Clarke, Kate Rowlands, Christina Hubbart, Anna Jeffreys, Silvia Kariuki, Kevin Marsh, Margaret Mackinnon, Kathryn Maitland, Dominic Kwiatkowski, Kirk Rockett, Thomas Williams, Amadou Abathina, Ismaela Abubakar, Eric Achidi, Tsiri Agbenyega, Mohammed Aiyegbo, Alex Akoto, Angela Allen, Stephen Allen, Lucas Amenga-Etego, Folakemi Amodu, Olukemi Amodu, Judith Anchang-Kimbi, Nana Ansah, Patrick Ansah, Daniel Ansong, Sampson Antwi, Thomas Anyorigiya, Tobias Apinjoh, Emmanuel Asafo-Agyei, Victor Asoala, Frank Atuguba, Sarah Auburn, Abdou Bah, Kariatou Bamba, Germana Bancone, Gavin Band, David Barnwell, Abdoulaye Barry, Evasius Bauni, Richard Besingi, Kalifa Bojang, Edith Bougouma, Susan Bull, George Busby, Abdoulie Camara, Landing Camara, Susana Campino, Richard Carter, Dan Carucci, Climent Casals-Pascual, Ndey Ceesay, Pa Ceesay, Tran Chau, Ly Chuong, Taane Clark, Geraldine Clarke, Ramou Cole-Ceesay, David Conway, Katharine Cook, Olivia Cook, Victoria Cornelius, Patrick Corran, Simon Correa, Sharon Cox, Rachel Craik, Bakary Danso, Timothy Davis, Nicholas Day, Panos Deloukas, Awa Dembele, Jantina deVries, Rajika Dewasurendra, Mahamadou Diakite, Elizabeth Diarra, Yaya Dibba, Andrea Diss, Abdoulaye Djimdé, Amagana Dolo, Ogobara Doumbo, Alan Doyle, Chris Drakeley, Eleanor Drury, Patrick Duffy, Sarah Dunstan, Augustine Ebonyi, Ahmed Elhassan, Ibrahim Elhassan, Abier Elzein, Anthony Enimil, Pamela Esangbedo, Jennifer Evans, Julie Evans, Jeremy Farrar, Deepika Fernando, Kathryn Fitzpatrick, Janet Fullah, Jacob Garcia, Anita Ghansah, Michael Gottleib, Angie Green, Lee Hart, Meike Hennsman, Tran Hien, Nguyen Hieu, Eliza Hilton, Abraham Hodgson, Rolf Horstmann, Christina Hubbart, Catherine Hughes, Ayman Hussein, Robert Hutton, Muntaser Ibrahim, Deus Ishengoma, Jula Jaiteh, Mariatou Jallow, Muminatou Jallow, Kebba Jammeh, Momodou Jasseh, Anna Jeffreys, Amie Jobarteh, Kimberly Johnson, Sarah Joseph, Dushyanth Jyothi, David Kachala, Dorcas Kamuya, Haddy Kanyi, Harin Karunajeewa, Nadira Karunaweera, Momodou Keita, Angeliki Kerasidou, Aja Khan, Katja Kivinen, Gilbert Kokwaro, Amadou Konate, Salimata Konate, Kwadwo Koram, Dominic Kwiatkowski, Moses Laman, Si Le, Ellen Leffler, Martha Lemnge, Enmoore Lin, Alioune Ly, Alexander Macharia, Bronwyn MacInnis, Nguyen Mai, Julie Makani, Cinzia Malangone, Valentina Mangano, Alphaxard Manjurano, Lamin Manneh, Laurens Manning, Magnus Manske, Kevin Marsh, Vicki Marsh, Gareth Maslen, Caroline Maxwell, Eric Mbunwe, Marilyn McCreight, Daniel Mead, Alieu Mendy, Anthony Mendy, Nathan Mensah, Pascal Michon, Alistair Miles, Olivo Miotto, David Modiano, Hiba Mohamed, Sile Molloy, Malcolm Molyneux, Sassy Molyneux, Mike Moore, Catherine Moyes, Frank Mtei, George Mtove, Ivo Mueller, Regina Mugri, Annie Munthali, Theonest Mutabingwa, Behzad Nadjm, Andre Ndi, Carolyne Ndila, Charles Newton, Amadou Niangaly, Haddy Njie, Jalimory Njie, Madi Njie, Malick Njie, Sophie Njie, Labes Njiragoma, Francis Nkrumah, Neema Ntunthama, Aceme Nyika, Vysaul Nyirongo, John O'Brien, Herbert Obu, Abraham Oduro, Alex Ofori, Subulade Olaniyan, Rasaq Olaosebikan, Tom Oluoch, Olayemi Omotade, Olajumoke Oni, Emmanuel Onykwelu, Daniel Opi, Adebola Orimadegun, Sean O'Riordan, Issa Ouedraogo, Samuel Oyola, Michael Parker, Richard Pearson, Paul Pensulo, Norbert Peshu, Ajib Phiri, Nguyen Phu, Margaret Pinder, Matti Pirinen, Chris Plowe, Claire Potter, Belco Poudiougou, Odile Puijalon, Nguyen Quyen, Ioannis Ragoussis, Jiannis Ragoussis, Oba Rasheed, John Reeder, Hugh Reyburn, Eleanor Riley, Paul Risley, Kirk Rockett, Joanne Rodford, Jane Rogers, William Rogers, Kate Rowlands, Valentín Ruano-Rubio, Kumba Sabally-Ceesay, Abubacar Sadiq, Momodou Saidy-Khan, Horeja Saine, Anavaj Sakuntabhai, Abdourahmane Sall, David Sambian, Idrissa Sambou, Miguel SanJoaquin, Nuno Sepúlveda, Shivang Shah, Jennifer Shelton, Peter Siba, Nilupa Silva, Cameron Simmons, Jaques Simpore, Pratap Singhasivanon, Dinh Sinh, Sodiomon Sirima, Giorgio Sirugo, Fatoumatta Sisay-Joof, Sibiry Sissoko, Kerrin Small, Elilan Somaskantharajah, Chris Spencer, Jim Stalker, Marryat Stevens, Prapat Suriyaphol, Justice Sylverken, Bintou Taal, Adama Tall, Terrie Taylor, Yik Teo, Cao Thai, Mahamadou Thera, Vincent Titanji, Ousmane Toure, Marita Troye-Blomberg, Stanley Usen, Sophie Uyoga, Aaron Vanderwal, Hannah Wangai, Renee Watson, Thomas Williams, Michael Wilson, Rebecca Wrigley, Clarisse Yafi, Lawrence Yamoah

Cell Host & Microbe, Vol. 24, No. 1. (July 2018), pp. 43-56, doi:10.1016/j.chom.2018.06.008
Simon Draper, Brandon Sack, Richter King, Carolyn Nielsen, Julian Rayner, Matthew Higgins, Carole Long, Robert Seder

Malaria Journal, Vol. 17, No. 1. (16 July 2018), doi:10.1186/s12936-018-2417-z
Sophie Allcock, Elizabeth Young, Manjinder Sandhu

Science Translational Medicine, Vol. 10, No. 447. (27 June 2018), eaar3619, doi:10.1126/scitranslmed.aar3619
Hyun Lee, Athina Georgiadou, Michael Walther, Davis Nwakanma, Lindsay Stewart, Michael Levin, Thomas Otto, David Conway, Lachlan Coin, Aubrey Cunnington

Nature, Vol. 559, No. 7712. (27 June 2018), pp. 135-139, doi:10.1038/s41586-018-0249-1
Jakub Gruszczyk, Rick Huang, Li-Jin Chan, Sébastien Menant, Chuan Hong, James Murphy, Yee-Foong Mok, Michael Griffin, Richard Pearson, Wilson Wong, Alan Cowman, Zhiheng Yu, Wai-Hong Tham

PLOS Genetics, Vol. 14, No. 7. (2 July 2018), e1007490, doi:10.1371/journal.pgen.1007490

The malaria parasite Plasmodium falciparum has evolved an unusual genome structure. The majority of the genome is relatively stable, with mutation rates similar to most eukaryotic species. However, some regions are very unstable with high recombination rates, driving the generation of new immune evasion-associated var genes. The molecular factors controlling the inconsistent stability of this genome are not known. Here we studied the roles of the two putative RecQ helicases in P. falciparum, PfBLM and PfWRN. When PfWRN was knocked down, recombination rates increased four-fold, generating chromosomal abnormalities, a high rate of chimeric var genes and many microindels, particularly in known ‘fragile sites’. This is the first identification of a gene involved in suppressing recombination and maintaining genome stability in Plasmodium. By contrast, no change in mutation rate appeared when the second RecQ helicase, PfBLM, was mutated. At the transcriptional level, however, both helicases evidently modulate the transcription of large cohorts of genes, with several hundred genes—including a large proportion of vars—showing deregulated expression in each RecQ mutant. Aberrant processing of stalled replication forks is a possible mechanism underlying elevated mutation rates and this was assessed by measuring DNA replication dynamics in the RecQ mutant lines. Replication forks moved slowly and stalled at elevated rates in both mutants, confirming that RecQ helicases are required for efficient DNA replication. Overall, this work identifies the Plasmodium RecQ helicases as major players in DNA replication, antigenic diversification and genome stability in the most lethal human malaria parasite, with important implications for genome evolution in this pathogen. Human malaria is caused by Plasmodium parasites, with most of the mortality (almost half a million deaths each year) being caused by one species, Plasmodium falciparum. This parasite has an unusual genome: it is exceptionally biased towards A and T nucleotides rather than G and C, and it contains specific areas rich in hypervariable virulence-associated genes which evolve very rapidly to produce new variants. This evolution is probably vital for the parasite to evade the human immune system and maintain chronic infections, but how it is controlled at a molecular level remains unknown. We have identified a helicase in the parasite with a huge influence on genome stability and the rate of genome evolution. It appears to function by unwinding various unusual DNA structures, and if this fails then the genome becomes unstable. In addition, the transcription of many genes whose DNA tends to form secondary structures is affected, and DNA replication is impeded. If this helicase was expressed variably in different parasite strains infecting humans, it could influence the parasites’ ability to grow and replicate efficiently, and also, crucially, its ability to evolve and thus evade the human immune system.
Antoine Claessens, Lynne Harris, Slavica Stanojcic, Lia Chappell, Adam Stanton, Nada Kuk, Pamela Veneziano-Broccia, Yvon Sterkers, Julian Rayner, Catherine Merrick

Nature Communications, Vol. 9, No. 1. (3 July 2018), doi:10.1038/s41467-018-04965-4
Sarah Auburn, Ernest Benavente, Olivo Miotto, Richard Pearson, Roberto Amato, Matthew Grigg, Bridget Barber, Timothy William, Irene Handayuni, Jutta Marfurt, Hidayat Trimarsanto, Rintis Noviyanti, Kanlaya Sriprawat, Francois Nosten, Susana Campino, Taane Clark, Nicholas Anstey, Dominic Kwiatkowski, Ric Price