Architecture and distribution of introns in core genes of four Fusarium species

Show simple item record Phasha, Mmatshepho M. Wingfield, Brenda D. Coetzee, Martin Petrus Albertus Santana, Quentin C. Fourie, Gerda Steenkamp, Emma Theodora 2018-01-31T08:17:38Z 2018-01-31T08:17:38Z 2017-11
dc.description.abstract Removal of introns from transcribed RNA represents a crucial step during the production of mRNA in eukaryotes. Available whole-genome sequences and expressed sequence tags (ESTs) have increased our knowledge of this process and revealed various commonalities among eukaryotes. However, certain aspects of intron structure and diversity are taxon-specific, which can complicate the accuracy of in silico gene prediction methods. Using core genes, we evaluated the distribution and architecture of Fusarium circinatum spliceosomal introns, and linked these characteristics to the accuracy of the predicted gene models of the genome of this fungus. We also evaluated intron distribution and architecture in F. verticillioides, F. oxysporum, and F. graminearum, and made comparisons with F. circinatum. Results indicated that F. circinatum and the three other Fusarium species have canonical 59 and 39 splice sites, but with subtle differences that are apparently not shared with those of other fungal genera. The polypyrimidine tract of Fusarium introns was also found to be highly divergent among species and genes. Furthermore, the conserved adenosine nucleoside required during the first step of splicing is contained within unique branch site motifs in certain Fusarium introns. Data generated here show that introns of F. circinatum, as well as F. verticillioides, F. oxysporum, and F. graminearum, are characterized by a number of unique features such as the CTHAH and ACCAT motifs of the branch site. Incorporation of such information into genome annotation software will undoubtedly improve the accuracy of gene prediction methods used for Fusarium species and related fungi. en_ZA
dc.description.department Forestry and Agricultural Biotechnology Institute (FABI) en_ZA
dc.description.department Genetics en_ZA
dc.description.department Microbiology and Plant Pathology en_ZA
dc.description.librarian am2018 en_ZA
dc.description.sponsorship The University of Pretoria, the National Research Foundation (NRF), the Forestry and Agricultural Biotechnology Institute, the Tree Protection Cooperative Program, the Department of Science and Technology-NRF Centre of Excellence in Tree Health Biotechnology, and the Mandela Rhodes foundation. en_ZA
dc.identifier.citation Phasha, M.M., Wingfield, B.D., Coetzee, M.P.A. et al. 2017, 'Architecture and distribution of introns in core genes of four Fusarium species', G3: Genes, Genomes, Genetics, vol. 7, pp 3809-3820. en_ZA
dc.identifier.issn 2160-1836 (online)
dc.language.iso en en_ZA
dc.publisher Genetics Society of America en_ZA
dc.rights © 2017 Phasha et al. This is an open-access article distributed under the terms of the Creative Commons Attribution 4.0 International License. en_ZA
dc.subject Fusarium en_ZA
dc.subject Intron splicing en_ZA
dc.subject Spliceosomal en_ZA
dc.subject Introns en_ZA
dc.subject Cis-elements en_ZA
dc.subject Gene prediction en_ZA
dc.subject Pliceosome en_ZA
dc.subject Predictive values en_ZA
dc.subject Nonhuman en_ZA
dc.subject Intron en_ZA
dc.subject Genetic identification en_ZA
dc.subject Gene structure en_ZA
dc.subject Fusarium verticillioides en_ZA
dc.subject Fusarium oxysporum en_ZA
dc.subject Fusarium graminearum en_ZA
dc.subject Fusarium circinatum en_ZA
dc.subject Fungal genome en_ZA
dc.title Architecture and distribution of introns in core genes of four Fusarium species en_ZA
dc.type Article en_ZA

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