Fungal Genomics & Biology
Open Access
ISSN: 2165-8056
ISSN: 2165-8056
Department of Dermatology, Jiangxi University of Chinese Medicine, Nanchang, China
Research Article
Fungal rDNA Analysis in the NGS Era: Progress, Insights and
Challenges
Author(s): Oliver Blechert and Ping Zhan*
Background: Ribosomal DNA (rDNA), consisting of the 18S, 5.8S, 25S and 5S rRNA genes and noncoding functional elements in eukaryotes, is a region in the genome with very high activity with respect to transcription and genomic rearrangement. Due to its highly repetitive and complex structure, detailed sequence analyses are challenging and often neglected. In this study, a systematic survey of rDNA organization across the fungal kingdom was performed.
Methods: We analysed all fungal genome assemblies available at NCBI, in total 6779, by bioinformatic methods. For this, we developed a batch of Python scripts to process the data. For de-novo assembling of NGS data, we wrote the Ansi C program ‘YNGS’.
Results: Only 15% of the fungal genome assemblies at NCBI possessed the sequence of an entire rDNA unit. Mos.. View More»
DOI:
10.35248/2165-8056.22.12.202