Analysis of strand-specific RNA-seq data using machine learning reveals the structures of transcription units in Clostridium thermocellum
Identification of transcription units (TUs) encoded in a bacterial genome is essential to
elucidation of transcriptional regulation of the organism. To gain a detailed understanding of …
elucidation of transcriptional regulation of the organism. To gain a detailed understanding of …
Choice of next-generation sequencing pipelines
F Del Chierico, M Ancora, M Marcacci… - … : Methods and Protocols, 2015 - Springer
The next-generation sequencing (NGS) technologies are revolutionary tools which have
made possible achieving remarkable advances in genetics since the beginning of the twenty …
made possible achieving remarkable advances in genetics since the beginning of the twenty …
[HTML][HTML] Emerging tools for synthetic genome design
Synthetic biology is an emerging discipline for designing and synthesizing predictable,
measurable, controllable, and transformable biological systems. These newly designed …
measurable, controllable, and transformable biological systems. These newly designed …
Bacterial whole-genome determination and applications
Thousands of bacterial genomes have been sequenced, analyzed, and applied for different
purposes. This chapter starts with the introduction of bacterial genomes, genome …
purposes. This chapter starts with the introduction of bacterial genomes, genome …
[HTML][HTML] RNA sequencing provides evidence for functional variability between naturally co-existing Alteromonas macleodii lineages
Background Alteromonas macleodii is a ubiquitous gammaproteobacterium shown to play a
biogeochemical role in marine environments. Two A. macleodii strains (AltDE and AltDE1) …
biogeochemical role in marine environments. Two A. macleodii strains (AltDE and AltDE1) …
[HTML][HTML] Current challenges in bacterial transcriptomics
S Cho, Y Cho, S Lee, J Kim, H Yum, SC Kim… - Genomics & …, 2013 - ncbi.nlm.nih.gov
Over the past decade or so, dramatic developments in our ability to experimentally
determine the content and function of genomes have taken place. In particular, next …
determine the content and function of genomes have taken place. In particular, next …
[HTML][HTML] Global Gene Expression of Kosteletzkya virginica Seedlings Responding to Salt Stress
X Tang, H Wang, C Shao, H Shao - PloS one, 2015 - journals.plos.org
Soil salinization is becoming a serious threat to crop yield all over the world. Nowadays,
acquainting the specific molecular mechanisms underlying various abiotic stresses …
acquainting the specific molecular mechanisms underlying various abiotic stresses …
[HTML][HTML] New Insights into the Anti-pathogenic Potential of Lactococcus garvieae against Staphylococcus aureus Based on RNA Sequencing Profiling
The bio-preservation potential of Lactococcus garvieae lies in its capacity to inhibit the
growth of staphylococci, especially Staphylococcus aureus, in dairy products and in vitro. In …
growth of staphylococci, especially Staphylococcus aureus, in dairy products and in vitro. In …
[HTML][HTML] Transcriptome analysis of Acidovorax avenae subsp. avenae cultivated in vivo and co-culture with Burkholderia seminalis
Response of bacterial pathogen to environmental bacteria and its host is critical for
understanding of microbial adaption and pathogenesis. Here, we used RNA-Seq to …
understanding of microbial adaption and pathogenesis. Here, we used RNA-Seq to …
Differences in acid tolerance between Bifidobacterium breve BB8 and its acid-resistant derivative B. breve BB8dpH, revealed by RNA-sequencing and physiological …
X Yang, X Hang, J Tan, H Yang - Anaerobe, 2015 - Elsevier
Bifidobacteria are common inhabitants of the human gastrointestinal tract, and their
application has increased dramatically in recent years due to their health-promoting effects …
application has increased dramatically in recent years due to their health-promoting effects …