ArticleBMC genomics2012
Computational discovery and RT-PCR validation of novel Burkholderia conserved and Burkholderia pseudomallei unique sRNAs.
Article in BMC genomics, 2012. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 25 papers.
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Who cites it
25 citing papers in PubMed, 38 citations in OpenAlex.
- Small Regulatory RNAs in Prokaryotes: Key Features, Identification, Environmental Roles, and Applications.Microorganisms · 2026Review
- Profiling ofMicrobiology spectrum · 2026Article
- Non-coding regulatory sRNAs from bacteria of the Burkholderia cepacia complex.Applied microbiology and biotechnology · 2024Review
- Uncovering Nematicidal Natural Products fromJournal of agricultural and food chemistry · 2022Article
- Do small RNAs unlock the below ground microbiome-plant interaction mystery?Frontiers in molecular biosciences · 2022Review
- Regulation of Glycine Cleavage and Detoxification by a Highly Conserved Glycine Riboswitch in Burkholderia spp.Current microbiology · 2021Article
- Article
- Genome-wide identification of Azospirillum brasilense Sp245 small RNAs responsive to nitrogen starvation and likely involvement in plant-microbe interactions.BMC genomics · 2020Article
- New proposal of nitrogen metabolism regulation by small RNAs in the extreme halophilic archaeon Haloferax mediterranei.Molecular genetics and genomics : MGG · 2020Article
- In silico prediction and expression profile analysis of small non-coding RNAs in Herbaspirillum seropedicae SmR1.BMC genomics · 2020Article
- Computational discovery and annotation of conserved small open reading frames in fungal genomes.BMC bioinformatics · 2019Article
- Putative small RNAs controlling detoxification of industrial cyanide-containing wastewaters by Pseudomonas pseudoalcaligenes CECT5344.PloS one · 2019Article
- Applying a New REFINE Approach inFrontiers in microbiology · 2019Article
- Small Noncoding Regulatory RNAs fromInternational journal of molecular sciences · 2018Review
- Small RNAs of Haloferax mediterranei: Identification and Potential Involvement in Nitrogen Metabolism.Genes · 2018Article
- Identification of sRNA mediated responses to nutrient depletion in Burkholderia pseudomallei.Scientific reports · 2017Article
- Identification of small RNAs abundant in Burkholderia cenocepacia biofilms reveal putative regulators with a potential role in carbon and iron metabolism.Scientific reports · 2017Article
- Genome-Wide Detection of Small Regulatory RNAs in Deep-Sea BacteriumFrontiers in microbiology · 2017Article
- Article
- In silico prediction and qPCR validation of novel sRNAs inJournal, genetic engineering & biotechnology · 2016Article
Corrections and comments
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Authors and funding
5 authors at 2 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundThe sRNAs of bacterial pathogens are known to be involved in various cellular roles including environmental adaptation as well as regulation of virulence and pathogenicity. It is expected that sRNAs may also have similar functions for Burkholderia pseudomallei, a soil bacterium that can adapt to diverse environmental conditions, which causes the disease melioidosis and is also able to infect a wide variety of hosts.
resultsBy integrating several proven sRNA prediction programs into a computational pipeline, available Burkholderia spp. genomes were screened to identify sRNA gene candidates. Orthologous sRNA candidates were then identified via comparative analysis. From the total prediction, 21 candidates were found to have Rfam homologs. RT-PCR and sequencing of candidate sRNA genes of unknown functions revealed six putative sRNAs which were highly conserved in Burkholderia spp. and two that were unique to B. pseudomallei present in a normal culture conditions transcriptome. The validated sRNAs include potential cis-acting elements associated with the modulation of methionine metabolism and one B. pseudomallei-specific sRNA that is expected to bind to the Hfq protein.
conclusionsThe use of the pipeline developed in this study and subsequent comparative analysis have successfully aided in the discovery and shortlisting of sRNA gene candidates for validation. This integrated approach identified 29 B. pseudomallei sRNA genes - of which 21 have Rfam homologs and 8 are novel.
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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.