Prof Noelani van den Berg



Department

Biochemistry, Genetics and Microbiology
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I am the research leader for the Fruit Tree Biotechnology Programme (FTBP). The avocado research project is a joint venture between FABI and The Hans Merensky Foundation. The aim of this project will be to shed light and understand the mechanisms and gene expression pathways whereby tolerant avocado rootstocks, are protected against Phytophthora cinnamomi. My education is in the fields of Plant Pathology and Botany and my research experience is in molecular plant-micobe interactions with a special interest in the identification and isolation of defence-related genes.

The research that I performed during my Ph.D. was the first attempt at isolating defence-related genes in a tolerant banana in response to Fusarium wilt. Panama disease (Fusarium Wilt) of banana is recognized as one of the most devastating diseases in the recorded history of agriculture. Management strategies for the disease currently rely on host resistance and cultural practices. Several banana cultivars and landraces have tolerance/resistance to the pathogen, Fusarium oxysporum f.sp. cubense subtropical race 4. However, these plants are not always suitable for production in South Africa. This project was the first of its kind in this field and molecular techniques such as Suppression Subtraction Hybridization (SSH), Micro-array technology, Quantitative Reverse Transcriptase PCR provided us with tools to identify the genes responsible for resistance/tolerance in this tolerant Cavendish selection or any other germplasm source with resistance to the pathogen. The gene identification can be applied in three ways - firstly, candidate genes can be used as markers for resistance traits in a banana improvement program; secondly, the information lead to a better understanding of the mechanisms whereby resistance is conferred, thereby providing new defence strategies; and thirdly, the genes will be used in banana.

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Publication
van der Nest MA, Steenkamp ET, De Vos L, Wienk R, Swart V, van den Berg N. (2024) Complete mitochondrial genome sequence of the white root rot pathogen Dematophora necatrix (Xylariaceae: Xylariales). Mitochondrial DNA Part B: Resoures 9(9):1207-1212. 10.1080/23802359.2024.2403411
Midgley KA, van den Berg N, Swart V. (2024) Identification of Phytophthora cinnamomi CRN effectors and their roles in manipulating cell death during Persea americana infection. BMC Genomics 25:435. 10.1186/s12864-024-10358-3
Fick A, Swart V, Bombarely A, van den Berg N. (2024) Comparative transcriptional analysis of Persea americana MYB, WRKY and AP2/ERF transcription factors following Phytophthora cinnamomi infection. Molecular Plant Pathology 25(4):e13453. 10.1111/mpp.13453 PDF
Joubert M, van den Berg N, Theron J, Swart V. (2024) Global transcriptomic analysis in avocado nursery trees reveals differential gene expression during asymptomatic infection by avocado sunblotch viroid (ASBVd). Virus Research 339:199263. 10.1016/j.virusres.2023.199263. PDF
Anbu SP, Swart V, van den Berg N. (2023) Unmasking the invaders: NLR-mal function in plant defense. Frontiers in Plant Science 14:1307294. 10.3389/fpls.2023.1307294 PDF
Backer R, Naidoo S, van den Berg N. (2023) The expression of the NPR1-dependent defense response pathway genes in Persea americana (Mill.) following infection with Phytophthora cinnamomi. BMC Plant Biology 23(1):548. 10.1186/s12870-023-04541-z PDF
Wingfield BD, Berger DK, Coetzee MPA, Duong TA, Martin A, Pham NQ, Van den Berg N, Wilken PM, Arun-Chinnappa KS, Barnes I, Buthelezi S, Dahanayaka BA, Durán A, Engelbrecht J, Feurtey A, Fourie A, Fourie G, Hartley J, Kabwe ENK, Maphosa M, Narh Mensah DL, Nsibo DL, Potgieter L, Poudel B, Stukenbrock EH, Thomas C, Vaghefi N, Welgemoed T, Wingfield MJ. (2022) IMA genome‑F17 Draft genome sequences of an Armillaria species from Zimbabwe, Ceratocystis colombiana, Elsinoë necatrix, Rosellinia necatrix, two genomes of Sclerotinia minor, short‑read genome assemblies and annotations of four Pyrenophora teres isolates from barley grass, and a long-read genome assembly of Cercospora zeina. 13:19. 10.1186/s43008-022-00104-3
Wienk R, Mostert‑O’Neill M, Abeysekara N, Manosalva P, Freeman B, van den Berg N. (2022) Genetic diversity, population structure and clonal verification in South African avocado cultivars using single nucleotide polymorphism (SNP) markers. Tree Genetics and Genomes 18(41) 10.1007/s11295-022-01573-8 PDF
Joubert M, van den Berg N, Theron J, Swart V. (2022) Transcriptomics Advancement in the Complex Response of Plants to Viroid Infection. International Journal of Molecular Sciences 23(7677) 10.3390/ijms23147677 PDF
Backer R, Engelbrecht J, van den Berg N. (2022) Differing Responses to Phytophthora cinnamomi Infection in Susceptible and Partially Resistant Persea americana (Mill.) Rootstocks: A Case for the Role of Receptor-Like Kinases and Apoplastic Proteases. Frontiers in Plant Science 13 10.3389/fpls.2022.928176 PDF
Hartley J, Engelbrecht J, Van den Berg N. (2022) Detection and prevalence of Rosellinia necatrix in South African avocado orchards. European Journal of Plant Pathology 10.1007/s10658-022-02532-8
Fick A, Swart V, Van den Berg N. (2022) The ups and downs of plant NLR expression during pathogen infection. Frontiers in Plant Science 13:921148. 10.3389/fpls.2022.921148
Midgley KA, van den Berg N, Swart V. (2022) Unraveling plant cell death during Phytophthora Infection. Microorganisms 10(6) 10.3390/microorganisms10061139 PDF
Miyambo TM, Backer R, Engelbrecht J, Joubert F, van der Merwe NA, van den Berg N. (2022) The Identification and Characterization of Endopolygalacturonases in a South African Isolate of Phytophthora cinnamomi. Microorganisms 10(1061) 10.3390/microorganisms10051061 PDF
Fick A, Swart V, Backer R, Bombarely A, Engelbrecht J, van den Berg N. (2022) Partially Resistant Avocado Rootstock Dusa® Shows Prolonged Upregulation of Nucleotide Binding-Leucine Rich Repeat Genes in Response to Phytophthora cinnamomi Infection. Frontiers in Plant Science 13:793644. 10.3389/fpls.2022.793644
Engelbrecht J, Duong TA, Paap T, Hulbert JM, Hanneman J, Van den Berg N. (2022) Population genetic analyses of Phytophthora cinnamomi reveals three lineages and movement between natural vegetation and avocado orchards in South Africa. 10.1094/PHYTO-10-21-0414-R
Magagula P, Taylor N, Swart V, Van den Berg N. (2021) Efficacy of Potential Control Agents Against Rosellinia necatrix and Their Physiological Impact on Avocado. Plant Disease 105(11):PDIS-08. 10.1094/PDIS-08-20-1751-RE
Joubert M, Backer R, Engelbrecht J, Van den Berg N. (2021) Expression of several Phytophthora cinnamomi putative RxLRs provides evidence for virulence roles in avocado. PLoS ONE 16(7):e0254645. 10.1371/journal.pone.0254645 PDF
Engelbrecht J, Duong TA, Prabhu AS, Seedat M, van den Berg N. (2021) Genome of the destructive oomycete Phytophthora cinnamomi provides insights into its pathogenicity and adaptive potential. BMC Genomics 22:302. 10.1186/s12864-021-07552-y
Van den Berg N, Swart V, Backer R, Fick A, Wienk R, Engelbrecht J, Prabhu S. (2021) Advances in understanding defense mechanisms in Persea americana against Phytophthora cinnamomi. Frontiers in Plant Science 12:123. 10.3389/fpls.2021.636339
Van den Berg N, Du Toit M, Morgan SW, Fourie G, De Beer ZW. (2019) First Report of Fusarium euwallaceae on Persea americana in South Africa. Plant Disease 10.1094/PDIS-10-18-1818-PDN
Zumaquero A, Martinez-Ferri E, Matas AJ, Reeksting B, Olivier NA, Pliego-Alfaro F, Barcelo A, van den Berg N, Pliego C. (2019) Rosellinia necatrix infection induces differential gene expression between tolerant and susceptible avocado rootstocks. PLoS ONE 14(2):e0212359. 10.1371/journal.pone.0212359
Backer R, Naidoo S, van den Berg N. (2019) The NONEXPRESSOR OF PATHOGENESIS-RELATED GENES 1 (NPR1) and Related Family: Mechanistic Insights in Plant Disease Resistance. Frontiers in Plant Science 10:102. 10.3389/fpls.2019.00102
Kuhn DN, Livingstone DS, Richards JH, Manosalva P, van den Berg N, Chambers AH. (2019) Application of genomic tools to avocado (Persea americana) breeding: SNP discovery for genotyping and germplasm characterization. Scientia Horticulturae 246:1-11. 10.1016/j.scienta.2018.10.011
van den Berg N, Mohamed W, Olivier NA, Swart V, Crampton B. (2018) Transcriptome analysis of an incompatible Persea americana-Phytophthora cinnamomi interaction reveals the involvement of SA- and JA-pathways in a successful defense response. PLoS ONE 13(10):e0205705. 10.1371/journal.pone.0205705
van den Berg N, Hartley J, Engelbrecht J, Mufamadi Z, Mavuso Z, van Rooyen Z. (2018) First Report of White Root Rot caused by Rosellinia necatrix on Persea americana in South Africa. Plant Disease 102(9):1850. 10.1094/PDIS-10-17-1637-PDN
van den Berg N, Christie JB, Engelbrecht J, Aveling TAS. (2018) Callose and β-1,3-glucanase inhibit Phytophthora cinnamomi in a resistant avocado rootstock. Plant Pathology 67(5):1150-1160. 10.1111/ppa.12819
Engelbrecht J, Duong TA, van den Berg N. (2017) New microsatellite markers for population studies of Phytophthora cinnamomi, an important global pathogen. Scientific Reports 7:17631. 10.1038/s41598-017-17799-9
Prabhu A, Ndlovu B, Engelbrecht J, van den Berg N. (2017) Generation of composite Persea americana (Mill.) (avocado) plants: A proof-of-concept-study. PLoS ONE 12(10): e0185896. 10.1371/journal.pone.0185896
Reitmann A, Berger DK, van den Berg N. (2017) Putative pathogenicity genes of Phytophthora cinnamomi identified via RNA-Seq analysis of pre-infection structures. European Journal of Plant Pathology 147(1):211-228. 10.1007/s10658-016-0993-8
Meyer FE, Shuey LS, Ramsuchit S, Mamni T, Berger DK, van den Berg N, Myburg AA, Naidoo S. (2016) Dual RNA-sequencing of Eucalyptus nitens during Phytophthora cinnamomi challenge reveals pathogen and host factors influencing compatibility. Frontiers in Plant Science 7:191. 10.3389/fpls.2016.00191 PDF
Reeksting B, Olivier N.A, van den Berg N. (2016) Transcriptome responses of an ungrafted Phytophthora root rot tolerant avocado (Persea americana) rootstock to flooding and Phytophthora cinnamomi. BMC Plant Biology 16(205) 10.1186/s12870-016-0893-2
Backer R, Mahomed W, Reeksting B, Engelbrecht J, Ibarra-Laclette E, van den Berg N. (2015) Phylogenetic and expression analysis of the NPR1-like gene family from Persea americana (Mill.). Frontiers in Plant Science 6:300. 10.3389/fpls.2015.00300
Reeksting BJ, Coetzer N, Mahomed W, Engelbrecht J, van den Berg N. (2014) De novo sequencing, assembly, and analysis of the root transcriptome of Persea americana (Mill.) in response to Phytophthora cinnamomi and flooding. PLoS ONE 9(2):e86399. 10.1371/journal.pone.0086399 PDF
Reeksting BJ, Taylor N, van den Berg N. (2014) Flooding and Phytophthora cinnamomi: Effects on photosynthesis and chlorophyll fluorescence in shoots of non-grafted Persea americana (Mill.) rootstocks differing in tolerance to Phytophthora root rot. South African Journal of Botany 95:40-53. 10.1016/j.sajb.2014.08.004 PDF
Engelbrecht J, van den Berg N. (2013) Expression of defence-related genes against Phytophthora cinnamomi in five avocado rootstocks. South African Journal of Science 109(11/12):1-8. 10.1590/sajs.2013/20120058
Sutherland R, Viljoen A, Myburg AA, van den Berg N. (2013) Pathogenicity associated genes in Fusarium oxysporum f. sp. cubense race 4. South African Journal of Science 109 10.1590/ sajs.2013/20120023
Engelbrecht J, Duong TA, van den Berg N. (2013) Development of a Nested Quantitative Real-Time PCR for Detecting Phytophthora cinnamomi in Persea americana Rootstocks. Plant Disease 97(8):1012-1017. 10.1094/PDIS-11-12-1007-RE
Mahomed W, van den Berg N. (2011) EST sequencing and gene expression profiling of defence-related genes from Persea americana infected with Phytophthora cinnamomi. BMC Plant Biology 11(167) 10.1186/1471-2229-11-167 PDF
van den Berg N, Berger DK, Hein I, Birch PRJ, Wingfield MJ, Viljoen A. (2009) Genes up-regulated in tolerant cavendish banana roots in response to Fusarium oxysporum f. sp. cubense infection. Acta Horticulturae 828:273-282. PDF
Endah R, Beyene G, Kiggundu A, van den Berg N, Schlütera U, Kunert K, Chikwambaab R. (2008) Elicitor and Fusarium-induced expression of NPR1-like genes in banana. Plant Physiology and Biochemistry 46(11) 10.1016/j.plaphy.2008.06.007
van den Berg N, Serfontein S, Christie B, Munro C. (2008) First Report of Raceme Blight Caused by Cladosporium cladosporioides on Macadamia Nuts in South Africa. Plant Disease 92(3) 10.1094/PDIS-92-3-0484C
van den Berg N, Berger DK, Hein I, Birch PRJ, Wingfield MJ, Viljoen A. (2007) Tolerance in banana to Fusarium wilt is associated with early up-regulation of cell wall-strengthening genes in the roots. Molecular Plant Pathology 8(3):333-341. 10.1111/j.1364-3703.2007.00389.x PDF
Groenewald S, van den Berg N, Marasas WFO, Viljoen A. (2006) The application of high-throughput Amplified Fragment Length Polymorphisms in assessing genetic diversity in Fusarium oxysporum f.sp. cubense . Mycological Research 110(3):297-305. 10.1016/j.mycres.2005.10.004
Groenewald S, van den Berg N, Marasas WFO, Viljoen A. (2006) Biological, physiological and pathogenic variation in a genetically homogenous population of Fusarium oxysporum f.sp. cubense. Australasian Plant Pathology 35:401-409. 10.1071/AP06041
Crampton BG, van den Berg N, Hein I, Birch PRJ, Berger DK. (2004) High-throughput screening of suppression subtractive hybridization cDNA libraries using DNA microarray analysis. BioTechniques 37(5):818-824.
van den Berg N, Venter SL, Aveling TAS . (2003) Infection studies of Alternaria cassiae on cowpea. Australasian Plant Pathology 32 10.1071/AP02056
van den Berg N, Aveling TAS, Venter SL. (2002) The evaluation of six fungicides for reducing Alternaria cassiae on cowpea seed. Crop Protection 21:501-505. PII:S0261-2194(01)00140-5 PDF
van den Berg N, Aveling TAS, van der Merwe CF. (2002) Conidial morphology and development of Alternaria cassiae from cowpea. African Plant Protection 8(1):69-74. PDF
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Publication
Botha G, Van den Berg N, Yilmaz N, Akinsanmi OA, Fourie G. (2022) Flower blight in South African macadamia orchards. SAMAC Journal :56-58.
Botha G, Fourie A, Hartley J, Van den Berg N, Fourie G. (2021) The impact of Rosellinia necatrix on South African macadamia orchards. SAMAC Journal :54-56. PDF
Mufamadi Z, Fourie G, Willis-Boyum A, van den Berg N. (2020) Husk rot disease: causal agents and disease epidemiology. SAMAC Journal PDF