Browsing Research Articles (Biochemistry) by UP Author "Van Wyk, Stephanie"

Browsing Research Articles (Biochemistry) by UP Author "Van Wyk, Stephanie"

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  • Draft genome of Cercospora zeina, Fusarium pininemorale, Hawksworthiomyces lignivorus, Huntiella decipiens and Ophiostoma ips 
    Wingfield, Brenda D.; Berger, David Kenneth; Steenkamp, Emma Theodora; Lim, Hye-Jin; Duong, Tuan A.; Bluhm, Burton H.; De Beer, Z. Wilhelm; De Vos, Lieschen; Fourie, Gerda; Naidoo, Kershney; Olivier, Nicholas Abraham; Lin, Yao-Cheng; Van de Peer, Yves; Joubert, Fourie; Crampton, Bridget Genevieve; Swart, Velushka; Soal, Nicole Christine; Tatham, Catherine; Van der Nest, Magrieta Aletta; Van der Merwe, Nicolaas Albertus (Albie); Van Wyk, Stephanie; Wilken, Pieter Markus; Wingfield, Michael J. (International Mycological Association, 2017-11-21)
    The genomes of Cercospora zeina, Fusarium pininemorale, Hawksworthiomyces lignivorus, Huntiella decipiens, and Ophiostoma ips are presented in this genome announcement. Three of these genomes are from plant pathogens and ...
  • Draft genome sequence of Annulohypoxylon stygium, Aspergillus mulundensis, Berkeleyomyces basicola (syn. Thielaviopsis basicola), Ceratocystis smalleyi, two Cercospora beticola strains, Coleophoma cylindrospora, Fusarium fracticaudum, Phialophora cf. hyalina, and Morchella septimelata 
    Wingfield, Brenda D.; Bills, Gerald F.; Dong, Yang; Huang, Wenli; Nel, Wilma Janine; Swalarsk-Parry, Benedicta S.; Vaghefi, Niloofar; Wilken, Pieter Markus; An, Zhiqiang; De Beer, Z. Wilhelm; De Vos, Lieschen; Chen, Li; Duong, Tuan A.; Gao, Yun; Hammerbacher, Almuth; Kikkert, Julie R.; Li, Yan; Li, Huiying; Li, Kuan; Li, Qiang; Liu, Xingzhong; Ma, Xiao; Naidoo, Kershney; Pethybridge, Sarah J.; Sun, Jingzu; Steenkamp, Emma Theodora; Van der Nest, Magrieta Aletta; Van Wyk, Stephanie; Wingfield, Michael J.; Xiong, Chuan; Yue, Qun; Zhang, Xiaoling (International Mycological Association, 2018-06-11)
    Draft genomes of the species Annulohypoxylon stygium, Aspergillus mulundensis, Berkeleyomyces basicola (syn. Thielaviopsis basicola), Ceratocystis smalleyi, two Cercospora beticola strains, Coleophoma cylindrospora, ...
  • Genome-wide analyses of repeat-induced point mutations in the Ascomycota 
    Van Wyk, Stephanie; Wingfield, Brenda D.; De Vos, Lieschen; Van der Merwe, Nicolaas Albertus (Albie); Steenkamp, Emma Theodora (Frontiers Media, 2021-02)
    The Repeat-Induced Point (RIP) mutation pathway is a fungus-specific genome defense mechanism that mitigates the deleterious consequences of repeated genomic regions and transposable elements (TEs). RIP mutates targeted ...
  • Multiple independent origins for a subtelomeric locus associated with growth rate in Fusarium circinatum 
    Van Wyk, Stephanie; Wingfield, Brenda D.; De Vos, Lieschen; Santana, Quentin C.; Van der Merwe, Nicolaas Albertus (Albie); Steenkamp, Emma Theodora (International Mycological Association, 2018-06)
    Fusarium is a diverse assemblage that includes a large number of species of considerable medical and agricultural importance. Not surprisingly, whole genome sequences for many Fusarium species have been published or are ...
  • Repeat-induced point mutations drive divergence between Fusarium circinatum and its close relatives 
    Van Wyk, Stephanie; Wingfield, Brenda D.; De Vos, Lieschen; Van der Merwe, Nicolaas Albertus (Albie); Santana, Quentin C.; Steenkamp, Emma Theodora (MDPI, 2019-12)
    The Repeat-Induced Point (RIP) mutation pathway is a fungal-specific genome defense mechanism that counteracts the deleterious effects of transposable elements. This pathway permanently mutates its target sequences by ...
  • The RIPper, a web-based tool for genome-wide quantification of repeat-induced point (RIP) mutations 
    Van Wyk, Stephanie; Harrison, Christopher H.; Wingfield, Brenda D.; De Vos, Lieschen; Van der Merwe, Nicolaas Albertus (Albie); Steenkamp, Emma Theodora (PeerJ, 2019-08)
    BACKGROUND. The RIPper (http://theripper.hawk.rocks) is a set of web-based tools designed for analyses of Repeat-Induced Point (RIP) mutations in the genome sequences of Ascomycota. The RIP pathway is a fungal genome ...
  • The synergistic effect of concatenation in phylogenomics : the case in Pantoea 
    Palmer, Marike; Venter, S.N. (Stephanus Nicolaas); McTaggart, Alistair R.; Coetzee, Martin Petrus Albertus; Van Wyk, Stephanie; Avontuur, Juanita R.; Beukes, Chrizelle Winsie; Fourie, Gerda; Santana, Quentin C.; Van der Nest, Magrieta Aletta; Blom, Jochen; Steenkamp, Emma Theodora (PeerJ, 2019-04)
    With the increased availability of genome sequences for bacteria, it has become routine practice to construct genome-based phylogenies. These phylogenies have formed the basis for various taxonomic decisions, especially ...