Next‐generation technologies and data analytical approaches for epigenomics

K Mensaert, S Denil, G Trooskens… - Environmental and …, 2014 - Wiley Online Library
Epigenetics refers to the collection of heritable features that modulate the genome–
environment interaction without being encoded in the actual DNA sequence. While being …

Decoding the non-coding: tools and databases unveiling the hidden world of “junk” RNAs for innovative therapeutic exploration

U Chaudhary, S Banerjee - ACS Pharmacology & Translational …, 2024 - ACS Publications
Non-coding RNAs are pivotal regulators of gene and protein expression, exerting crucial
influences on diverse biological processes. Their dysregulation is frequently implicated in …

Decoding the oak genome: public release of sequence data, assembly, annotation and publication strategies

C Plomion, JM Aury, J Amselem… - Molecular ecology …, 2016 - Wiley Online Library
Abstract The 1.5 Gbp/2C genome of pedunculate oak (Quercus robur) has been sequenced.
A strategy was established for dealing with the challenges imposed by the sequencing of …

SRD: a Staphylococcus regulatory RNA database

M Sassi, Y Augagneur, T Mauro, L Ivain… - Rna, 2015 - rnajournal.cshlp.org
An overflow of regulatory RNAs (sRNAs) was identified in a wide range of bacteria. We
designed and implemented a new resource for the hundreds of sRNAs identified in …

Analysis of the biodegradative and adaptive potential of the novel polychlorinated biphenyl degrader Rhodococcus sp. WAY2 revealed by its complete genome …

D Garrido-Sanz, P Sansegundo-Lobato… - Microbial …, 2020 - microbiologyresearch.org
The complete genome sequence of Rhodococcus sp. WAY2 (WAY2) consists of a circular
chromosome, three linear replicons and a small circular plasmid. The linear replicons …

Genome Analysis of Carbaryl-Degrading Strain Pseudomonas putida XWY-1

S Zhu, H Wang, W Jiang, Z Yang, Y Zhou, J He… - Current …, 2019 - Springer
Carbaryl was a widely used pesticide in the agriculture industry. The toxicity against non-
target organisms and the environmental pollution it caused became the focus of public …

Transcriptome sequencing reveals wide expression reprogramming of basal and unknown genes in Leptospira biflexa biofilms

G Iraola, L Spangenberg, B Lopes Bastos, M Graña… - Msphere, 2016 - Am Soc Microbiol
The genus Leptospira is composed of pathogenic and saprophytic spirochetes. Pathogenic
Leptospira is the etiological agent of leptospirosis, a globally spread neglected disease. A …

Comparative Genomics of H. pylori and Non‐Pylori Helicobacter Species to Identify New Regions Associated with Its Pathogenicity and Adaptability

DM Cao, QF Lu, SB Li, JP Wang… - BioMed Research …, 2016 - Wiley Online Library
The genus Helicobacter is a group of Gram‐negative, helical‐shaped pathogens consisting
of at least 36 bacterial species. Helicobacter pylori (H. pylori), infecting more than 50% of the …

Mycoplasma non-coding RNA: identification of small RNAs and targets

FM Siqueira, GL de Morais, S Higashi, LS Beier… - BMC genomics, 2016 - Springer
Abstract Background Bacterial non-coding RNAs act by base-pairing as regulatory elements
in crucial biological processes. We performed the identification of trans-encoded small …

Transcriptional landscape of the pMP7017 megaplasmid and its impact on the Bifidobacterium breve UCC2003 transcriptome

RL Dineen, F Bottacini… - Microbial …, 2024 - Wiley Online Library
The 190 kb megaplasmid pMP7017 of Bifidobacterium breve JCM7017 represents the first
conjugative and largest plasmid characterised within this genus to date. In the current study …