Genome-wide transcription start site mapping of Bradyrhizobium japonicum grown free-living or in symbiosis – a rich resource to identify new transcripts, proteins and to study gene regulation
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- 作者：Jelena Čuklina ; Julia Hahn ; Maxim Imakaev ; Ulrich Omasits…
- 关键词：Bradyrhizobium ; Nodule ; RNA ; seq ; Transcription start site ; Promoter prediction ; Proteogenomics ; Genome re ; annotation ; Antisense RNA ; Internal transcription start site
- 刊名：BMC Genomics
- 出版年：2016
- 出版时间：December 2016
- 年：2016
- 卷：17
- 期：1
- 全文大小：2896KB
- 刊物主题：Life Sciences, general; Microarrays; Proteomics; Animal Genetics and Genomics; Microbial Genetics and Genomics; Plant Genetics & Genomics;
- 出版者：BioMed Central
- ISSN：1471-2164
- 卷排序：17
文摘
BackgroundDifferential RNA-sequencing (dRNA-seq) is indispensable for determination of primary transcriptomes. However, using dRNA-seq data to map transcriptional start sites (TSSs) and promoters genome-wide is a bioinformatics challenge. We performed dRNA-seq of Bradyrhizobium japonicum USDA 110, the nitrogen-fixing symbiont of soybean, and developed algorithms to map TSSs and promoters.