ArticleBMC genomics2013
Transcriptome analysis of the filamentous fungus Aspergillus nidulans directed to the global identification of promoters.
Article in BMC genomics, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 33 papers.
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
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Who cites it
33 citing papers in PubMed, 66 citations in OpenAlex.
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- An ascomycete H4 variant with an unknown function.Royal Society open science · 2024Article
- Quantitative characterization of filamentous fungal promoters on a single-cell resolution to discover cryptic natural products.Science China. Life sciences · 2023Article
- New insights into genome annotation in Podospora anserina through re-exploiting multiple RNA-seq data.BMC genomics · 2022Article
- Characterization and engineering of the xylose-inducibleMetabolic engineering communications · 2022Article
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- A complete nicotinate degradation pathway in the microbial eukaryote Aspergillus nidulans.Communications biology · 2022Article
- Alternative splicing diversifies the transcriptome and proteome of the rice blast fungus during host infection.RNA biology · 2022Article
- Genome organization and evolution of a eukaryotic nicotinate co-inducible pathway.Open biology · 2021Article
- Transcription Factors in the FungusJournal of fungi (Basel, Switzerland) · 2021Article
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- Promoter tools for further development ofFungal biology and biotechnology · 2020Article
- The role of the GATA transcription factor AreB in regulation of nitrogen and carbon metabolism in Aspergillus nidulans.FEMS microbiology letters · 2019Article
- Reticulate evolution in eukaryotes: Origin and evolution of the nitrate assimilation pathway.PLoS genetics · 2019Article
- Systems and Synthetic Biology Approaches to Engineer Fungi for Fine Chemical Production.Frontiers in bioengineering and biotechnology · 2018Review
- A eukaryotic nicotinate-inducible gene cluster: convergent evolution in fungi and bacteria.Open biology · 2017Article
- Transcriptome analysis of smut fungi reveals widespread intergenic transcription and conserved antisense transcript expression.BMC genomics · 2017Article
- Article
Corrections and comments
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Authors and funding
8 authors at 1 institution in 1 country.
Funding
Abstract
backgroundThe filamentous fungus Aspergillus nidulans has been a tractable model organism for cell biology and genetics for over 60 years. It is among a large number of Aspergilli whose genomes have been sequenced since 2005, including medically and industrially important species. In order to advance our knowledge of its biology and increase its utility as a genetic model by improving gene annotation we sequenced the transcriptome of A. nidulans with a focus on 5' end analysis.
resultsStrand-specific whole transcriptome sequencing showed that 80-95% of annotated genes appear to be expressed across the conditions tested. We estimate that the total gene number should be increased by approximately 1000, to 11,800. With respect to splicing 8.3% of genes had multiple alternative transcripts, but alternative splicing by exon-skipping was very rare. 75% of annotated genes showed some level of antisense transcription and for one gene, meaB, we demonstrated the antisense transcript has a regulatory role. Specific sequencing of the 5' ends of transcripts was used for genome wide mapping of transcription start sites, allowing us to interrogate over 7000 promoters and 5' untranslated regions.
conclusionsOur data has revealed the complexity of the A. nidulans transcriptome and contributed to improved genome annotation. The data can be viewed on the AspGD genome browser.
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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.