Diversity and evolution of polyketide biosynthesis gene clusters in the Ceratocystidaceae

dc.contributor.authorSayari, Mohammad
dc.contributor.authorSteenkamp, Emma Theodora
dc.contributor.authorVan der Nest, Magrieta Aletta
dc.contributor.authorWingfield, Brenda D.
dc.contributor.emailbrenda.wingfield@fabi.up.ac.zaen_ZA
dc.date.accessioned2018-06-26T04:53:58Z
dc.date.issued2018-09
dc.descriptionSupplementary File S1: This file contains information on the PCR-based confirmations of gene content and organization of each PKS cluster.en_ZA
dc.descriptionSupplementary File S2: This file contains information of the top 10 BLAST hits for all PKS genes identified in this study.en_ZA
dc.descriptionSupplementary File S3: This file contains information regarding the annotation of each of the PKS clusters identified in the 19 Ceratocystidaceae genomes examined.en_ZA
dc.description.abstractPolyketides are low-molecular weight secondary metabolites with diverse biological activities. Polyketide synthase (PKS) and other proteins responsible for producing these compounds are often encoded from genes that are clustered in the same genomic region. Functional analyses and recent genomic studies are increasingly showing that most fungi are capable of producing a repertoire of PKS compounds. In this study, we considered the potential of Ceratocystidaceae for producing polyketides by making use of a comparative genomics approach. The fungi in this family have diverse lifestyles ranging from being saprotrophs, insect associates through to plant pathogens. Our specific aims were to identify the putative polyketide biosynthesis gene clusters, to characterize them at the structural and phylogenetic levels and to predict the types of polyketide compounds they might produce. For this purpose, we used the whole genome sequences from nineteen species in the genera, Ceratocystis, Endoconidiophora, Davidsoniella, Huntiella, Thielaviopsis and Bretziella, to identify and characterise PKS gene clusters, by employing a range of bioinformatics and phylogenetic tools. Our results showed that all of the examined genomes contained putative clusters containing a non-reducing type I PKS and a type III PKS. Phylogenetic analyses suggested that these genes were already present in the ancestor of the Ceratocystidaceae after which they diverged together with the species harbouring them. By contrast, the various reducing type I PKS-containing clusters identified in these genomes, appeared to have distinct origins during the evolution of this family. Although one of the identified clusters potentially allows for the production of melanin, their functional characterization will undoubtedly reveal many novel and important compounds implicated in the biology of the Ceratocystidaceae.en_ZA
dc.description.departmentBiochemistryen_ZA
dc.description.departmentForestry and Agricultural Biotechnology Institute (FABI)en_ZA
dc.description.departmentGeneticsen_ZA
dc.description.departmentMicrobiology and Plant Pathologyen_ZA
dc.description.embargo2019-09-01
dc.description.librarianhj2018en_ZA
dc.description.sponsorshipThe University of Pretoria and members of the Tree Protection Cooperative Programme for funding, as well as the South African Department of Science and Technology and National Research Foundation (NRF) for funding through the Centre of Excellence (Centre of Excellence in Tree Health Biotechnology) and the DST-NRF-SARChI chair (Fungal Genomics).en_ZA
dc.description.urihttp://www.elsevier.com/locate/funbioen_ZA
dc.identifier.citationSayari, M., Steenkamp, E.T., Van der Nest, M.A. & Wingfield, B.D. 2018, 'Diversity and evolution of polyketide biosynthesis gene clusters in the Ceratocystidaceae', Fungal Biology, vol. 122, no. 9, pp. 856-866.en_ZA
dc.identifier.issn1878-6146 (print)
dc.identifier.issn1878-6162 (online)
dc.identifier.other10.1016/j.funbio.2018.04.011
dc.identifier.urihttp://hdl.handle.net/2263/65239
dc.language.isoenen_ZA
dc.publisherElsevieren_ZA
dc.rights© 2018 British Mycological Society. Published by Elsevier Ltd. All rights reserved. Notice : this is the author’s version of a work that was accepted for publication in Fungal Biology. Changes resulting from the publishing process, such as peer review, editing, corrections, structural formatting, and other quality control mechanisms may not be reflected in this document. A definitive version was subsequently published in Fungal Biology, vol. 122, no. 9, pp. 856-866, 2018. doi : 10.1016/j.funbio.2018.04.011.en_ZA
dc.subjectGenesen_ZA
dc.subjectClusteren_ZA
dc.subjectPolyketide synthase (PKS)en_ZA
dc.subjectPolyketidesen_ZA
dc.subjectDiversityen_ZA
dc.subjectCeratocystidaceaeen_ZA
dc.titleDiversity and evolution of polyketide biosynthesis gene clusters in the Ceratocystidaceaeen_ZA
dc.typePostprint Articleen_ZA

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