Browsing Research Articles (Biochemistry) by Title

Browsing Research Articles (Biochemistry) by Title

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  • Genetic diversity, relatedness and inbreeding of ranched and fragmented Cape buffalo populations in southern Africa 
    De Jager, G.J. (Deon); Harper, Cindy Kim; Bloomer, Paulette (Public Library of Science, 2020-08-14)
    Wildlife ranching, although not considered a conventional conservation system, provides a sustainable model for wildlife utilization and could be a source of valuable genetic material. However, increased fragmentation ...
  • Genetic rescue of an isolated African lion population 
    Miller, Susan M.; Druce, Dave J.; Dalton, Desire L.; Harper, Cindy Kim; Kotze, Antoinette; Packer, Craig; Slotow, Rob; Bloomer, Paulette (Springer, 2020-02)
    Fragmented wildlife populations are challenged by limited gene flow that can lead to significant inbreeding. The lion (Panthera leo) population in South Africa’s Hluhluwe-iMfolozi Park (HiP) started from a small founder ...
  • Genetic uniformity characterizes the invasive spread of Neofusicoccum parvum and Diplodia sapinea in the Western Balkans 
    Zlatković, Milica; Wingfield, Michael J.; Jami, Fahimeh; Slippers, Bernard (Wiley, 2019-02)
    In the past decade, trees and shrubs in the Western Balkans region have been damaged by canker and die‐back disease caused by Botryosphaeriaceae species. These pathogens include Neofusicoccum parvum and Diplodia sapinea. ...
  • Genetic variants of APOC3 promoter and HLA-B genes in an HIV infected cohort in Northern South Africa : a pilot study 
    Masebe, Tracy; Bessong, Pascal Obong; Ndip Ndip, Roland; Meyer, Debra (MDPI Publishing, 2014-06-26)
    Metabolic disorders and hypersensitivities affect tolerability and impact adherence to highly active antiretroviral therapy (HAART). The aim of this study was to determine the prevalence of C-482T/T-455C variants in the ...
  • Genetic, epigenetic and phenotypic diversity of four Bacillus velezensis strains used for plant protection or as probiotics 
    Reva, Oleg N.; Swanevelder, Dirk Z.H.; Mwita, Liberata; Mwakilili, Aneth David; Muzondiwa, Dillon; Joubert, Monique; Chan, Wai Yin; Lutz, Stefanie; Ahrens, Christian H.; Avdeev, Lylia V.; Kharkhota, Maksim A.; Tibuhwa, Donatha; Lyantagaye, Sylvester; Vater, Joachim; Borriss, Rainer; Meijer, Johan (Frontiers Media, 2019-11-15)
    Bacillus velezensis strains are applied as ecologically safe biopesticides, plant growth promoting rhizobacteria (PGPR), and in veterinary probiotics. They are abundant in various environments including soil, plants, ...
  • Genome of Crucihimalaya himalaica, a close relative of Arabidopsis, shows ecological adaptation to high altitude 
    Zhang, Ticao; Qiao, Qin; Novikova, Polina Yu.; Wang, Qia; Yue, Jipei; Guan, Yanlong; Ming, Shengping; Liu, Tianmeng; De, Ji; Liu, Yixuan; Al-Shehbaz, Ihsan A.; Sun, Hang; Van Montagu, Marc; Huang, Jinling; Van de Peer, Yves; Qiong, La (National Academy of Sciences, 2019-04)
    Crucihimalaya himalaica, a close relative of Arabidopsis and Capsella, grows on the Qinghai–Tibet Plateau (QTP) about 4,000 m above sea level and represents an attractive model system for studying speciation and ecological ...
  • 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 ...
  • The genome of Prasinoderma coloniale unveils the existence of a third phylum within green plants 
    Li, Linzhou; Wang, Sibo; Wang, Hongli; Sahu, Sunil Kumar; Marin, Birger; Li, Haoyuan; Xu, Yan; Liang, Hongping; Li, Zhen; Cheng, Shifeng; Reder, Tanja; Cebi, Zehra; Wittek, Sebastian; Petersen, Morten; Melkonian, Barbara; Du, Hongli; Yang, Huanming; Wang, Jian; Wong, Gane Ka-Shu; Xu, Xun; Liu, Xin; Van de Peer, Yves; Melkonian, Michael; Liu, Huan (Nature Research, 2020-09)
    Genome analysis of the pico-eukaryotic marine green alga Prasinoderma coloniale CCMP 1413 unveils the existence of a novel phylum within green plants (Viridiplantae), the Prasinodermophyta, which diverged before the split ...
  • Genome of the destructive oomycete Phytophthora cinnamomi provides insights into its pathogenicity and adaptive potential 
    Engelbrecht, Juanita; Duong, Tuan A.; Prabhu, Sreedhara Ashok; Seedat, Mohamed; Van den Berg, Noelani (BMC, 2021)
    BACKGROUND: Phytophthora cinnamomi is an oomycete pathogen of global relevance. It is considered as one of the most invasive species, which has caused irreversible damage to natural ecosystems and horticultural crops. ...
  • The genome of the extremophile Artemia provides insight into strategies to cope with extreme environments 
    De Vos, Stephanie; Rombauts, Stephane; Coussement, Louis; Dermauw, Wannes; Vuylsteke, Marnik; Sorgeloos, Patrick; Clegg, James S.; Nambu, Ziro; Van Nieuwerburgh, Filip; Norouzitallab, Parisa; Van Leeuwen, Thomas; De Meyer, Tim; Van Stappen, Gilbert; Van de Peer, Yves; Bossier, Peter (BMC, 2021-08-31)
    BACKGROUND : Brine shrimp Artemia have an unequalled ability to endure extreme salinity and complete anoxia. This study aims to elucidate its strategies to cope with these stressors. RESULTS AND DISCUSSION : Here, we ...
  • Genome reduction and relaxed selection is associated with the transition to symbiosis in the basidiomycete genus Podaxis 
    Conlon, Benjamin H.; Gostincar, Cene; Fricke, Janis; Kreuzenbeck, Nina B.; Daniel, Jan-Martin; Schlosser, Malte S.L.; Peereboom, Nils; Aanen, Duur K.; De Beer, Z. Wilhelm; Beemelmanns, Christine; Gunde-Cimerman, Nina; Poulsen, Michael (Cell Press, 2021-06)
    Insights into the genomic consequences of symbiosis for basidiomycete fungi associated with social insects remain sparse. Capitalizing on viability of spores from centuries-old herbarium specimens of free-living, facultative, ...
  • Genome sequence and functional genomic analysis of the oil-degrading bacterium Oleispira antarctica 
    Kube, Michael; Chernikova, Tatyana N.; Al-Ramahi, Yamal; Beloqui, Ana; Lopez-Cortes, Nieves; Guazzaroni, Marıa-Eugenia; Heipieper, Hermann J.; Klages, Sven; Kotsyurbenko, Oleg R.; Langer, Ines; Nechitaylo, Taras Y.; Lunsdorf, Heinrich; Fernandez, Marisol; Juarez, Silvia; Ciordia, Sergio; Singer, Alexander; Kagan, Olga; Egorova, Olga; Petit, Pierre Alain; Stogios, Peter; Kim, Youngchang; Tchigvintsev, Anatoli; Flick, Robert; Denaro, Renata; Genovese, Maria; Albar, Juan P.; Reva, Oleg N.; Martınez-Gomariz, Montserrat; Tran, Hai; Ferrer, Manuel; Savchenko, Alexei; Yakunin, Alexander F.; Yakimov, Michail M.; Golyshina, Olga V.; Reinhardt, Richard; Golyshin, Peter N. (Nature Publising Group, 2013-07-23)
    Ubiquitous bacteria from the genus Oleispira drive oil degradation in the largest environment on Earth, the cold and deep sea. Here we report the genome sequence of Oleispira antarctica and show that compared with ...
  • Genome sequence and genetic diversity analysis of an under-domesticated orphan crop, white fonio (Digitaria exilis) 
    Wang, Xuewen; Chen, Shiyu; Chen, Shiyu; Yssel, A.E.J. (Anna); Chaluvadi, Srinivasa R.; Johnson, Matthew S.; Gangashetty, Prakash; Hamidou, Falalou; Sanogo, Moussa D.; Zwaenepoel, Arthur; Wallace, Jason; Van de Peer, Yves; Bennetzen, Jeffrey L.; Van Deynze, Allen (Oxford University Press, 2021-03)
    Background: Digitaria exilis, white fonio, is a minor but vital crop of West Africa that is valued for its resilience in hot, dry, and low-fertility environments and for the exceptional quality of its grain for human ...
  • Genome sequence of B. amyloliquefaciens type strain DSM7T reveals differences to plant-associated B. amyloliquefaciens FZB42 
    Ruckert, Christian; Blom, Jochen; Chen, XiaoHau; Reva, Oleg N.; Borriss, Rainer (Elsevier, 2011-08)
    The complete genome sequence of Bacillus amyloliquefaciens type strain DSM7T is presented. A comparative analysis between the genome sequences of the plant associated strain FZB42 (Chen et al., 2007) with the genome of ...
  • Genome sequence of Malania oleifera, a tree with great value for nervonic acid production 
    Xu, Chao-Qun; Liu, Hui; Zhou, Shan-Shan; Zhang, Dong-Xu; Zhao, Wei; Wang, Sihai; Chen, Fu; Sun, Yan-Qiang; Nie, Shuai; Jia, Kai-Hua; Jiao, Si-Qian; Zhang, Ren-Gang; Yun, Quan-Zheng; Guan, Wenbin; Wang, Xuewen; Gao, Qiong; Bennetzen, Jeffrey L.; Maghuly, Fatemeh; Porth, Ilga; Van de Peer, Yves; Wang, Xiao-Ru; Ma, Yongpeng; Mao, Jian-Feng (Oxford University Press, 2019-01-24)
    BACKGROUND : Malania oleifera, a member of the Olacaceae family, is an IUCN red listed tree, endemic and restricted to the Karst region of southwest China. This tree’s seed is valued for its high content of precious fatty ...
  • Genome streamlining in a minute herbivore that manipulates its host plant 
    Greenhalgh, Robert; Dermauw, Wannes; Glas, Joris J.; Rombauts, Stephane; Wybouw, Nicky; Thomas, Jainy; Alba, Juan M.; Pritham, Ellen J.; Legarrea, Saioa; Feyereisen, Rene; Van de Peer, Yves; Van Leeuwen, Thomas; Clark, Richard M.; Kant, Merijn R. (eLife Sciences Publications, 2020-10)
    The tomato russet mite, Aculops lycopersici, is among the smallest animals on earth. It is a worldwide pest on tomato and can potently suppress the host’s natural resistance. We sequenced its genome, the first of an ...
  • Genome-informed Bradyrhizobium taxonomy : where to from here? 
    Avontuur, Juanita Rayleen; Palmer, Marike; Beukes, Chrizelle Winsie; Chan, Wai Yin; Coetzee, Martin Petrus Albertus; Blom, Jochen; Stępkowski, Tomasz; Kyrpides, Nikos C.; Woyke, Tanja; Shapiro, Nicole; Whitman, William B.; Venter, S.N. (Stephanus Nicolaas); Steenkamp, Emma Theodora (Elsevier, 2019-07)
    Bradyrhizobium is thought to be the largest and most diverse rhizobial genus, but this is not reflected in the number of described species. Although it was one of the first rhizobial genera recognised, its taxonomy remains ...
  • 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 ...
  • Genome-wide expression and network analyses of mutants in key brassinosteroid signaling genes 
    Seyed Rahmani, Razgar; Shi, Tao; Zhang, Dongzhi; Gou, Xiaoping; Yi, Jin; Miclotte, Giles; Marchal, Kathleen; Li, Jia (BMC, 2021-06)
    BACKGROUND: Brassinosteroid (BR) signaling regulates plant growth and development in concert with other signaling pathways. Although many genes have been identified that play a role in BR signaling, the biological and ...
  • Genomes of early-diverging streptophyte algae shed light on plant terrestrialization 
    Wang, Sibo; Li, Linzhou; Li, Haoyuan; Sahu, Sunil Kumar; Wang, Hongli; Xu, Yan; Xian, Wenfei; Song, Bo; Liang, Hongping; Cheng, Shifeng; Chang, Yue; Song, Yue; Cebi, Zehra; Wittek, Sebastian; Reder, Tanja; Peterson, Morten; Yang, Huanming; Wang, Jian; Melkonian, Barbara; Van de Peer, Yves; Xu, Xun; Wong, Gane Ka-Shu; Melkonian, Michael; Liu, Huan; Liu, Xin (Nature Research, 2020-02)
    Mounting evidence suggests that terrestrialization of plants started in streptophyte green algae, favoured by their dual existence in freshwater and subaerial/terrestrial environments. Here, we present the genomes of ...