Microarray-based long oligonucleotides probe designed for Brucella Spp. detection and identification of antibiotic susceptibility pattern

Abstract

Brucella spp. is a common zoonotic infection referred to as Brucellosis, and it is a serious public health problem around the world. There are currently six classical species (pathogenic species in both animals and humans) within the genus Brucella. The ability and practicality facilitated by a microarray experiment help us to recognize Brucella spp. and its antibiotic resistant gene. Rapid phenotypic determination of antibiotic resistance is not possible by disk diffusion methods. Thus, evaluating antibiotics pattern and Brucella detection appear necessary technique by molecular methods in brucellosis. So, the aim of this study was to design a microarray long oligonucleotides probe and primer for the complete diagnosis of Brucella spp. and obtaining genetic profiles for antibiotic resistance in bacteria at the same time. In this study, we designed 16 antibiotic-resistant gene solid-phase primers with similar melting temperatures of 60 °C and 16 long oligonucleotide probes. These primers and probes can identify tetracycline-, chloramphenicol-, and aminoglycoside-resistant genes, respectively. The design of microarray probes is a versatile process that be done in a wide range of selections. Since the long oligo microarray probes are the best choices for specific diagnosis and definite treatment, this group of probes was designed in the present survey.

Respiratory Tularemia: Francisella Tularensis and Microarray Probe Designing

“…Then the .gbk file belonging to F. tularensis subsp. tularensis FSC198 chromosome complete genome was downloaded from NCBI FTP site in FASTA format (), zipped and uploaded as a reference genome [24, 25, 32-34]. …”

“…1 ). All of the parameters in GView Server were set up as default position of the server [24, 25, 32, 34, 35]. …”

“…tularensis FSC198 were finally detected and blasted by the BLAST tool which is accessible via NCBI () [16, 19, 24, 25, 33, 34, 36, 37]. …”

“…The length of probes were selected between 55 and 64 nucleotides. Other parameters regarding AlleleID software were selected in accordance with default forms [16, 24, 25, 33, 34]. …”

“…Other parameters were presumed as default position. Finally, the proper microarray probes were designed and produced to prepare a diagnostic DNA microarray chip [16, 19, 24, 33, 34, 36]. …”