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Genetics: Recent submissions

  • Sapwood mycobiome varies across host, plant compartment and environments in Nothofagus forests from Northern Patagonia 
    Molina, Lucia; Rajchenberg, Mario; De Errasti, Andres; Vogel, Braian; Coetzee, Martin Petrus Albertus; Aime, Mary Catherine; Pildain, Maria Belen (Wiley, 2023-12)
    Global forests are increasingly being threatened by altered climatic conditions and increased attacks by pests and pathogens. The complex ecological interactions among pathogens, microbial communities, tree hosts and the ...
  • The predictive ability of the 313 variant–based polygenic risk score for contralateral breast cancer risk prediction in women of European ancestry with a heterozygous BRCA1 or BRCA2 pathogenic variant 
    Lakeman, Inge M.M.; Van den Broek, Alexandra J.; Vos, Julien A.M.; Barnes, Daniel R.; Adlard, Julian; Andrulis, Irene L.; Arason, Adalgeir; Arnold, Norbert; Arun, Banu K.; Balmana, Judith; Barrowdale, Daniel; Benitez, Javier; Borg, Ake; Caldes, Trinidad; Caligo, Maria A.; Chung, Wendy K.; Claes, Kathleen B.M.; GEMO Study Collaborators; EMBRACE Collaborators; Collee, J. Margriet; Couch, Fergus J.; Daly, Mary B.; Dennis, Joe; Dhawan, Mallika; Domchek, Susan M.; Eeles, Ros; Engel, Christoph; Evans, D. Gareth; Feliubadalo, Lidia; Foretova, Lenka; Friedman, Eitan; Frost, Debra; Ganz, Patricia A.; Garber, Judy; Gayther, Simon A.; Gerdes, Anne-Marie; Godwin, Andrew K.; Goldgar, David E.; Hahnen, Eric; Hake, Christopher R.; Hamann, Ute; Hogervorst, Frans B.L.; Hooning, Maartje J.; Hopper, John L.; Hulick, Peter J.; Imyanitov, Evgeny N.; OCGN Investigators; HEBON Investigators; KconFab Investigators; Isaacs, Claudine; Izatt, Louise; Jakubowska, Anna; James, Paul A.; Janavicius, Ramunas; Jensen, Uffe Birk; Jiao, Yue; John, Esther M.; Joseph, Vijai; Karlan, Beth Y.; Kets, Carolien M.; Konstantopoulou, Irene; Kwong, Ava; Legrand, Clementine; Leslie, Goska; Lesueur, Fabienne; Loud, Jennifer T.; Lubinski, Jan; Manoukian, Siranoush; McGuffog, Lesley; Miller, Austin; Gomes, Denise Molina; Montagna, Marco; Mouret-Fourme, Emmanuelle; Nathanson, Katherine L.; Neuhausen, Susan L.; Nevanlinna, Heli; Yuen Yie, Joanne Ngeow; Olah, Edith; Olopade, Olufunmilayo I.; Park, Sue K.; Parsons, Michael T.; Peterlongo, Paolo; Piedmonte, Marion; Radice, Paolo; Rantala, Johanna; Rennert, Gad; Risch, Harvey A.; Schmutzler, Rita K.; Sharma, Priyanka; Simard, Jacques; Singer, Christian F.; Stadler, Zsofia; Stoppa-Lyonnet, Dominique; Sutter, Christian; Tan, Yen Yen; Teixeira, Manuel R.; Teo, Soo Hwang; Teule, Alex; Thomassen, Mads; Thull, Darcy L.; Tischkowitz, Marc; Toland, Amanda E.; Tung, Nadine; Janse van Rensburg, Elizabeth (Elsevier, 2021-06-10)
    PURPOSE : To evaluate the association between a previously published 313 variant–based breast cancer (BC) polygenic risk score (PRS313) and contralateral breast cancer (CBC) risk, in BRCA1 and BRCA2 pathogenic variant ...
  • The genome of homosporous maidenhair fern sheds light on the euphyllophyte evolution and defences 
    Fang, Yuhan; Qin, Xing; Liao, Qinggang; Du, Ran; Luo, Xizhi; Zhou, Qian; Li, Zhen; Chen, Hengchi; Jin, Wanting; Yuan, Yaning; Sun, Pengbo; Zhang, Rui; Zhang, Jiao; Wang, Li; Cheng, Shifeng; Yang, Xueyong; Yan, Yuehong; Zhang, Xingtan; Zhang, Zhonghua; Bai, Shunong; Van de Peer, Yves; Lucas, William John; Huang, Sanwen; Yan, Jianbin (Nature Research, 2022-09)
    Euphyllophytes encompass almost all extant plants, including two sister clades, ferns and seed plants. Decoding genomes of ferns is the key to deep insight into the origin of euphyllophytes and the evolution of seed plants. ...
  • Chromosome-scale assembly of the Moringa oleifera Lam. genome uncovers polyploid history and evolution of secondary metabolism pathways through tandem duplication 
    Chang, Jiyang; Marczuk-Rojas, Juan Pablo; Waterman, Carrie; Garcia-Llanos, Armando; Chen, Shiyu; Ma, Xiao; Hulse-Kemp, Amanda; Van Deynze, Allen; Van de Peer, Yves; Carretero-Paulet, Lorenzo (Wiley Open Access, 2022-09)
    The African Orphan Crops Consortium (AOCC) selected the highly nutritious, fast growing and drought tolerant tree crop moringa (Moringa oleifera Lam.) as one of the first of 101 plant species to have its genome sequenced ...
  • Evolutionary history and pan-genome dynamics of strawberry (Fragaria spp.) 
    Qiao, Qin; Edger, Patrick P.; Xue, Li; Qiong, La; Lu, Jie; Zhang, Yichen; Cao, Qiang; Yocca, Alan E.; Platts, Adrian E.; Knapp, Steven J.; Van Montagu, Marc; Van de Peer, Yves; Lei, Jiajun; Zhang, Ticao (National Academy of Sciences, 2021-10)
    Strawberry (Fragaria spp.) has emerged as a model system for various fundamental and applied research in recent years. In total, the genomes of five different species have been sequenced over the past 10 y. Here, we report ...
  • The genome of hibiscus hamabo reveals its adaptation to saline and waterlogged habitat 
    Wang, Zhiquan; Xue, Jia-Yu; Hu, Shuai-Ya; Zhang, Fengjiao; Yu, Ranran; Chen, Dijun; Van de Peer, Yves; Jiang, Jiafu; Song, Aiping; Ni, Longjie; Hua, Jianfeng; Lu, Zhiguo; Yu, Chaoguang; Yin, Yunlong; Gu, Chunsun (Oxford University Press, 2022-03-23)
    Hibiscus hamabo is a semi-mangrove species with strong tolerance to salt and waterlogging stress. However, the molecular basis and mechanisms that underlie this strong adaptability to harsh environments remain poorly ...
  • MicroRNA-mediated post-transcriptional regulation of Pinus pinaster response and resistance to pinewood nematode 
    Modesto, Ines; Inacio, Vera; Van de Peer, Yves; Miguel, Celia (Nature Research, 2022-03-25)
    Pine wilt disease (PWD), caused by the parasitic nematode Bursaphelenchus xylophilus, or pinewood nematode (PWN), is a serious threat to pine forests in Europe. Pinus pinaster is highly susceptible to the disease and it ...
  • Adapt or die : targeting unique transmission-stage biology for malaria elimination 
    Van der Watt, Mariette Elizabeth; Reader, Janette; Birkholtz, Lyn-Marie (Frontiers Media S.A., 2022-06-09)
    Plasmodium parasites have a complex life cycle that includes development in the human host as well as the Anopheles vector. Successful transmission of the parasite between its host and vector therefore requires the ...
  • SNP detection in Pinus pinaster transcriptome and association with resistance to pinewood nematode 
    Modesto, Ines; Inacio, Vera; Novikova, Polina; Carrasquinho, Isabel; Van de Peer, Yves; Miguel, Celia (MDPI, 2022-06-17)
    Pinewood nematode (PWN, Bursaphelenchus xylophilus) is the causal agent of pine wilt disease (PWD), which severely affects Pinus pinaster stands in southwestern Europe. Despite the high susceptibility of P. pinaster, ...
  • Genomic and metabolomic analyses of the marine fungus Emericellopsis cladophorae: insights into saltwater adaptability mechanisms and its biosynthetic potential 
    Goncalves, Micael; Hilario, Sandra; Van de Peer, Yves; Esteves, Ana; Alves, Artur (MDPI, 2022-01)
    The genus Emericellopsis is found in terrestrial, but mainly in marine, environments with a worldwide distribution. Although Emericellopsis has been recognized as an important source of bioactive compounds, the range of ...
  • The artemiside-artemisox-artemisone-m1 tetrad : efficacies against blood stage p. falciparum parasites, dmpk properties, and the case for artemiside 
    Gibhard, Liezl; Coertzen, Dina; Reader, Janette; Van der Watt, Mariette Elizabeth; Birkholtz, Lyn-Marie; Wong, Ho Ning; Batty, Kevin T.; Haynes, Richard K.; Wiesner, Lubbe (MDPI, 2021-12-03)
    Because of the need to replace the current clinical artemisinins in artemisinin combination therapies, we are evaluating fitness of amino-artemisinins for this purpose. These include the thiomorpholine derivative artemiside ...
  • The Euscaphis japonica genome and the evolution of malvids 
    Sun, Wei-Hong; Li, Zhen; Xiang, Shuang; Ni, Lin; Zhang, Diyang; Chen, De-Qiang; Qiu, Meng-Yuan; Zhang, Qi-Gong; Xiao, Lin; Din, Le; Li, Yifan; Liao, Xing-Yu; Liu, Xue-Die; Jiang, Yu-Ting; Zhang, Pei-Lan; Ni, Hui; Wang, Yifan; Yue, Yi-Xun; Wu, Xi; Din, Xiang-Qing; Huang, Wei; Wang, Zhi-Wen; Ma, Xiaokai; Liu, Bobin; Zou, Xiao-Xing; Van de Peer, Yves; Liu, Zhong-Jian; Zou, Shuang-Quan (Wiley, 2021-12)
    Malvids is one of the largest clades of rosids, includes 58 families and exhibits remarkable morphological and ecological diversity. Here, we report a high-quality chromosome-level genome assembly for Euscaphis japonica, ...
  • Genome-wide analysis of butterfly bush (Buddleja alternifolia) in three uplands provides insights into biogeography, demography and speciation 
    Ma, Yong-Peng; Liao, Rong-Li; Zhang, Ren-Gang; Yun, Quan-Zheng; Olmstead, Richard G.; Chau, John H.; Milne, Richard I.; Van de Peer, Yves; Sun, Wei-Bang (Wiley, 2021-11)
    Understanding processes that generate and maintain large disjunctions within plant species can provide valuable insights into plant diversity and speciation. The butterfly bush Buddleja alternifolia has an unusual disjunct ...
  • Evaluation of WGS performance for bacterial pathogen characterization with the Illumina technology optimized for time-critical situations 
    Bogaerts, Bert; Winand, Raf; Van Braekel, Julien; Hoffman, Stefan; Roosens, Nancy H.C.; De Keersmaecker, Sigrid C. J.; Marchal, Kathleen; Vanneste, Kevin (Public Library of Science, 2021-11-05)
    Whole genome sequencing (WGS) has become the reference standard for bacterial outbreak investigation and pathogen typing, providing a resolution unattainable with conventional molecular methods. Data generated with Illumina ...
  • Streamlined and robust stage-specific profiling of gametocytocidal compounds against Plasmodium falciparum 
    Reader, Janette; Van der Watt, Mariette Elizabeth; Birkholtz, Lyn-Marie (Frontiers Media, 2022-06)
    Malaria elimination is dependent on the ability to target both the pathogenic and transmissible stages of the human malaria parasite, Plasmodium falciparum. These forms of the parasite are differentiated by unique developmental ...
  • A dynamic and combinatorial histone code drives malaria parasite asexual and sexual development 
    Von Gruning, Hilde; Coradin, Mariel; Mendoza, Mariel R.; Reader, Janette; Sidoli, Simone; Garcia, Benjamin A.; Birkholtz, Lyn-Marie (Elsevier, 2022-03)
    Histone posttranslational modifications (PTMs) frequently co-occur on the same chromatin domains or even in the same molecule. It is now established that these “histone codes” are the result of cross talk between enzymes ...
  • Adsorption to the surface of hemozoin crystals: structure-based design and synthesis of amino-phenoxazine beta-hematin inhibitors 
    Olivier, Tania; Loots, Leigh; Kok, Michelle; De Villiers, Marianne; Reader, Janette; Birkholtz, Lyn-Marie; Arnott, Gareth E.; De Villiers, Katherine A. (Wiley, 2022-05)
    Please read abstract in the article.
  • The ecdysone receptor regulates several key physiological factors in Anopheles funestus 
    Maharaj, Surina; Ekoka, Elodie; Erlank, Erica; Nardini, Luisa; Reader, Janette; Birkholtz, Lyn-Marie; Koekemoer, Lizette L. (BMC, 2022-03)
    BACKGROUND : Malaria is a devastating disease, transmitted by female Anopheles mosquitoes infected with Plasmodium parasites. Current insecticide-based strategies exist to control the spread of malaria by targeting vectors. ...
  • Semi-synthetic analogues of cryptolepine as a potential source of sustainable drugs for the treatment of malaria, human African trypanosomiasis, and cancer 
    Abacha, Yabalu Z.; Forkuo, Arnold Donkor; Gbedema, Stephen Y.; Mittal, Nimisha; Ottilie, Sabine; Rocamora, Frances; Winzeler, Elizabeth A.; Van Schalkwyk, Donelly A.; Kelly, John M.; Taylor, Martin C.; Reader, Janette; Birkholtz, Lyn-Marie; Lisgarten, David R.; Cockcroft, Jeremy K.; Lisgarten, John N.; Palmer, Rex A.; Talbert, Rosemary C.; Shnyder, Steven D.; Wright, Colin W. (Frontiers Media, 2022-04)
    The prospect of eradicating malaria continues to be challenging in the face of increasing parasite resistance to antimalarial drugs so that novel antimalarials active against asexual, sexual, and liver-stage malaria parasites ...
  • Genome and metabolome ms-based mining of a marine strain of Aspergillus affinis 
    Gonçalves, Micael F. M.; Hilario, Sandra; Tacao, Marta; Van de Peer, Yves; Alves, Artur; Esteves, Ana C. (MDPI, 2021-12)
    Aspergillus section Circumdati encompasses several species that express both beneficial (e.g., biochemical transformation of steroids and alkaloids, enzymes and metabolites) and harmful compounds (e.g., production of ...