[HTML][HTML] IMP: a pipeline for reproducible reference-independent integrated metagenomic and metatranscriptomic analyses

S Narayanasamy, Y Jarosz, EEL Muller… - Genome biology, 2016 - Springer
Existing workflows for the analysis of multi-omic microbiome datasets are lab-specific and
often result in sub-optimal data usage. Here we present IMP, a reproducible and modular …

[HTML][HTML] Biogenic Silver Nanoparticles as a Post-surgical Treatment for Corynebacterium pseudotuberculosis Infection in Small Ruminants

LM Santos, D Stanisic, UJ Menezes… - Frontiers in …, 2019 - frontiersin.org
Caseous lymphadenitis (CL) is an infectious and zoonotic disease characterized by the
development of granulomas in the lymph nodes and internal organs of small ruminants. The …

[HTML][HTML] Activity of Ethanolic and Supercritical Propolis Extracts in Corynebacterium pseudotuberculosis and Its Associated Biofilm

LM Santos, DM Rodrigues, MA Kalil… - Frontiers in Veterinary …, 2021 - frontiersin.org
Corynebacterium pseudotuberculosis is the etiological agent of caseous lymphadenitis in
small ruminants, a chronic disease characterized by the development of granulomas in …

[HTML][HTML] Genomic repeats, misassembly and reannotation: a case study with long-read resequencing of Porphyromonas gingivalis reference strains

L Acuña-Amador, A Primot, E Cadieu, A Roulet… - BMC genomics, 2018 - Springer
Background Without knowledge of their genomic sequences, it is impossible to make
functional models of the bacteria that make up human and animal microbiota. Unfortunately …

Recombinant esterase from Corynebacterium pseudotuberculosis in DNA and subunit recombinant vaccines partially protects mice against challenge

AA Brum, AFS Rezende… - Journal of medical …, 2017 - microbiologyresearch.org
Purpose. We tested the efficacy of the esterase encoded by cp1002_RS09720 from
Corynebacterium pseudotuberculosis in recombinant subunit and DNA caseous …

[HTML][HTML] Activity of biogenic silver nanoparticles in planktonic and biofilm-associated Corynebacterium pseudotuberculosis

LM Santos, DM Rodrigues, BVB Alves, MA Kalil… - PeerJ, 2024 - peerj.com
Corynebacterium pseudotuberculosis is a gram-positive bacterium and is the etiologic agent
of caseous lymphadenitis (CL) in small ruminants. This disease is characterized by the …

[HTML][HTML] Re-sequencing and optical mapping reveals misassemblies and real inversions on Corynebacterium pseudotuberculosis genomes

TJ Sousa, D Parise, R Profeta, MTD Parise… - Scientific Reports, 2019 - nature.com
The number of draft genomes deposited in Genbank from the National Center for
Biotechnology Information (NCBI) is higher than the complete ones. Draft genomes are …

[HTML][HTML] Proteus: An algorithm for proposing stabilizing mutation pairs based on interactions observed in known protein 3D structures

JRMS Barroso, D Mariano, SR Dias, REO Rocha… - BMC …, 2020 - Springer
Background Protein engineering has many applications for industry, such as the
development of new drugs, vaccines, treatment therapies, food, and biofuel production. A …

riboSeed: leveraging prokaryotic genomic architecture to assemble across ribosomal regions

NR Waters, F Abram, F Brennan, A Holmes… - Nucleic Acids …, 2018 - academic.oup.com
The vast majority of bacterial genome sequencing has been performed using Illumina short
reads. Because of the inherent difficulty of resolving repeated regions with short reads …

[HTML][HTML] SIMBA: a web tool for managing bacterial genome assembly generated by Ion PGM sequencing technology

DCB Mariano, FL Pereira, EL Aguiar, LC Oliveira… - BMC …, 2016 - Springer
Abstract Background The evolution of Next-Generation Sequencing (NGS) has considerably
reduced the cost per sequenced-base, allowing a significant rise of sequencing projects …