Genome-wide analysis of microsatellite sequence in seven filamentous fungi

Interdisciplinary Sciences, Computational Life Sciences
Cheng-Yun LiYou-Yong Zhu

Abstract

Abundance of microsatellites with repeated unit lengths of 1-6 base pairs in seven fungi: Aspergillus nidulans, Coprinus cinereus, Cryptococcus neoformans (serotype A), Fusarium graminearum, Magnaporthe grisea, Neurospora crassa and Ustilago maydis were investigated on genomic scale. The results showed that each species has its specific profile for different types and different motifs of SSR loci. Ascomycetes fungi M. grisea, N. crassa and basidiomycete fungus U. maydis adopt much more microsatellites than other fungi examined. Total amount of 15,751, 14,788 and 6,854 SSR loci were observed respectively, average density is 406, 389 and 347 per Mbp sequence; overall length of SSR sequence was 0.82%, 0.95% and 0.79% of genomic sequence respectively. While ascomycetes fungus F. graminearum and A. nidulans contains the least SSRs in the genomic DNA, only 4,679 and 4,837 tracts were observed in 36 Mb and 30 Mb genomic sequence respectively. Microsatellite repeats in protein coding regions are investigated in Aspergillus nidulans, Magnaporthe grisea, and Neurospora crassa also, the results show that the difference of different types and motifs among three fungi is very little than that in whole genomic sequence. For trinucleotide rep...Continue Reading

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Citations

Feb 28, 2014·BioMed Research International·Ying WangDapeng Bao
Aug 13, 2013·Fungal Biology·Melissa C SimpsonBrenda D Wingfield
Apr 5, 2020·Genes & Genomics·Manee M ManeeMohamed B Al-Fageeh
Oct 13, 2016·Mitochondrial DNA. Part A. DNA Mapping, Sequencing, and Analysis·María F Jiménez-BecerrilJuan M González Prieto

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