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Publications of the Malaria Crosses Collaboration
Kane J, Li X, Kumar S, Button-Simons KA, Vendrely Brenneman KM, Dahlhoff H, Sievert MAC, Checkley LA, Shoue DA, Singh PP, Abatiyow BA, Haile MT, Nair S, Reyes A, Tripura R, Peto TJ, Lek D, Mukherjee A, Kappe SHI, Dhorda M, Nkhoma SC, Cheeseman IH, Vaughan AM, Anderson TJC, Ferdig MT. 2024 . A Plasmodium falciparum genetic cross reveals the contributions of pfcrt and plasmepsin II/III to piperaquine drug resistance. mBio 15:e00805-24. https://doi.org/10.1128/mbio.00805-24
Amambua-Ngwa A, Button-Simons KA, Li X, Kumar S, Brenneman KV, Ferrari M, Checkley LA, Haile MT, Shoue DA, McDew-White M, Tindall SM, Reyes A, Delgado E, Dalhoff H, Larbalestier JK, Amato R, Pearson RD, Taylor AB, Nosten FH, D'Alessandro U, Kwiatkowski D, Cheeseman IH, Kappe SHI, Avery SV, Conway DJ, Vaughan AM, Ferdig MT, Anderson TJC. Chloroquine resistance evolution in Plasmodium falciparum is mediated by the putative amino acid transporter AAT1. Nat Microbiol. 2023 Jul;8(7):1213-1226. https://doi: 10.1038/s41564-023-01377-z
Kumar S, Li X, McDew-White M, Reyes A, Delgado E, Sayeed A, Haile MT, Abatiyow BA, Kennedy SY, Camargo N, Checkley LA. A malaria parasite cross reveals genetic determinants of Plasmodium falciparum growth in different culture media. Frontiers in Cellular and Infection Microbiology. 2022 :658. https://doi.org/10.3389/fcimb.2022.878496
Foster GJ, Sievert MA, Button-Simons K, Vendrely KM, Romero-Severson J, Ferdig MT. Cyclical regression covariates remove the major confounding effect of cyclical developmental gene expression with strain-specific drug response in the malaria parasite Plasmodium falciparum . BMC genomics. 2022 Dec;23(1):1-1. https://doi.org/10.1186/s12864-021-08281-y
Li X, Kumar S, Brenneman KV, Anderson TJ. Bulk segregant linkage mapping for rodent and human malaria parasites. Parasitology International. 2022 Dec 1;91:102653. https://doi.org/10.1016/j.parint.2022.102653
Kumar S, Valansi C, Haile MT, Li X, Flyak K, Dwivedy A, Abatiyow BA, Leeb AS, Kennedy SY, Camargo NM, Vaughan AM. Malaria parasites utilize two essential plasma membrane fusogens for gamete fertilization. Cellular and Molecular Life Sciences. 2022 Nov;79(11):549. https://doi.org/10.1007/s00018-022-04583-w
Kumar S, Abatiyow BA, Haile MT, Oualim KM, Leeb AS, Vaughan AM, Kappe SH. A putative plasmodium RNA-binding protein plays a critical role in female gamete fertility and parasite transmission to the mosquito vector. Frontiers in Cell and Developmental Biology. 2022 ;10. PMID: 35465336 https://doi.org/10.3389%2Ffcell.2022.825247
Brenneman KV. Exploring the Genetic Basis of Fitness in Drug Resistant Malaria Parasites. University of Notre Dame; 2022 . https://www.proquest.com/docview/2668946044?pq-origsite=gscholar&fromopenview=true
Brenneman KV, Li X, Kumar S, Delgado E, Checkley LA, Shoue DA, Reyes A, Abatiyow BA, Haile MT, Tripura R, Peto T. Optimizing bulk segregant analysis of drug resistance using Plasmodium falciparum genetic crosses conducted in humanized mice. Iscience. 2022 Apr 15;25(4):104095. https://doi.org/10.1016/j.isci.2022.104095
Kumar S, Li X, McDew-White M, Reyes A, Sayeed A, Haile M, Kennedy S, Carmago N, Checkley L, Vendrely K, Button-Simons K. Bulk segregant approaches to nutritional genomics in Plasmodium falciparum . 2021 . ResearchSquare, https://doi.org/10.21203/rs.3.rs-135739/v1
Button-Simons KA, Kumar S, Carmago N, Haile MT, Jett C, Checkley LA, Kennedy SY, Pinapati RS, Shoue DA, McDew-White M, Li X. The power and promise of genetic mapping from Plasmodium falciparum crosses utilizing human liver-chimeric mice. Communications Biology. 2021 Jun 14;4(1):734. https://doi.org/10.1038/s42003-021-02210-1
John C, Muchero W, Emrich S. Extreme phenotype sampling improves lasso and random forest marker selection for complex traits. In 2020 IEEE International Conference on Bioinformatics and Biomedicine (BIBM) 2020 Dec 16 (pp. 2771-2778 ). IEEE. https://ieeexplore.ieee.org/document/9313524
Davis SZ, Singh PP, Vendrely KM, Shoue DA, Checkley LA, McDew-White M, Button-Simons KA, Cassady Z, Sievert MA, Foster GJ, Nosten FH. The extended recovery ring-stage survival assay provides a superior association with patient clearance half-life and increases throughput. Malaria Journal. 2020 Dec;19(1):1-9. https://doi.org/10.1186/s12936-020-3139-6
Dia A, Jett C, McDew-White M, Li X, Anderson TJ, Cheeseman IH. Efficient transcriptome profiling across the malaria parasite erythrocytic cycle by flow sorting. bioRxiv. 2020 Nov 10:2020-11. https://doi.org/10.1101/2020.11.10.377168
Vendrely KM, Kumar S, Li X, Vaughan AM. Humanized mice and the rebirth of malaria genetic crosses. Trends in parasitology. 2020 Oct 1;36(10):850-63. https://doi.org/10.1016/j.pt.2020.07.009
Kumar S, Li X, McDew-White M, Reyes A, Delgado E, Sayeed A, Haile MT, Abatiyow BA, Kennedy SY, Camargo NM, Checkley LA. Bulk segregant analysis reveals environment× genotype interactions determining malaria parasite growth. bioRxiv. 2020 Sep 12:2020-09. https://doi.org/10.1101/2020.09.12.294736
Tirrell AR, Vendrely KM, Checkley LA, Davis SZ, McDew-White M, Cheeseman IH, Vaughan AM, Nosten FH, Anderson TJ, Ferdig MT. Pairwise growth competitions identify relative fitness relationships among artemisinin resistant Plasmodium falciparu m field isolates. Malaria journal. 2019 Dec;18:1-3. https://doi.org/10.1186/s12936-019-2934-4
Li X, Kumar S, McDew-White M, Haile M, Cheeseman IH, Emrich S, Button-Simons K, Nosten F, Kappe SH, Ferdig MT, Anderson TJ. Genetic mapping of fitness determinants across the malaria parasite Plasmodium falciparum life cycle. PLoS genetcs. 2019 Oct 14;15(10):e1008453. https://doi.org/10.1371/journal.pgen.1008453
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