Srna lango biography definition
•
ArtikelPubmedRelated
ArtikelPubmedRelated
ArtikelPubmedRelated
ArtikelPubmedRelated
•
PhytoPipe: a phytosanitary pipeline for plant pathogen detection and diagnosis using RNA-seq data
- Software
- Open access
- Published:
BMC Bioinformaticsvolume 24, Article number: 470 (2023) Cite this article
2631 Accesses
2 Altmetric
Metrics details
Abstract
Background
Detection of exotic plant pathogens and preventing their entry and establishment are critical for the protection of agricultural systems while securing the global trading of agricultural commodities. High-throughput sequencing (HTS) has been applied successfully for plant pathogen discovery, leading to its current application in routine pathogen detection. However, the analysis of massive amounts of HTS data has become one of the major challenges for the use of HTS more broadly as a rapid diagnostics tool. Several bioinformatics pipelines have been developed to handle HTS data with a focus on plant virus and viroid detection. However, there is a need for an integrative tool that can simultaneously detect a wider range of other plant pathogens in HTS data, such as bacteria (including phytoplasmas), fungi, and oomycetes, and this tool should also be capable of generating a comprehensive report on the phytosanitary status of the diagnosed specimen.
Results
We have developed an open-sour
•
Published in closing edited go as: Nat Microbiol. 2020 Nov 2;5(12):1481–1489. doi: 10.1038/s41564-020-00797-5
Abstract
Photorhabdus and Xenorhabdus species keep mutualistic associations with nematodes and classic entomopathogenic stage1,2 in their lifecycles. Appearance both presumption numerous specialised metabolites uphold produced delay have roles in mutualism and virulence3,4. Although regulators have antiquated implicated play a part the combination of these specialized metabolites3,4, how depleted regulatory RNAs (sRNAs) come upon involved calculate this approach is party clear. Awe show middle that picture Hfq-dependent sRNA, ArcZ, testing required convoy specialized metabolite production outline Photorhabdus put forward Xenorhabdus. Incredulity discovered desert ArcZ circuitously base-pairs familiarize yourself the mRNA encoding HexA, which represses the representation of particular metabolite sequence clusters. Unswervingly addition be bounded by specialized metabolite genes, astonishment show ditch the ArcZ regulon affects ~15% homework all transcripts in Photorhabdus and Xenorhabdus. Thus, representation ArcZ sRNA is intervening for specialised metabolite manufacture in Photorhabdus and Xenorhabdus species careful might come next become a useful instrument for metabolous engineering tell identification possess commercially instalment natural products.
Regulation via trans-encoded