Signaling probe design for amplification-free detection of bacterial genes using DNA microarray

2021 ◽  
Author(s):  
Haruka Uno ◽  
Hiyori Takeuchi ◽  
Tomoko Yoshino ◽  
Takashi Tadenuma ◽  
Yuko Hirakawa ◽  
...  
Keyword(s):  
Dna Microarray ◽  
Probe Design ◽  
Bacterial Genes

Amplification-free detection of bacterial genes using a signaling probe-based DNA microarray

2021 ◽  
pp. 113659
Author(s):  
Tomoyuki Taguchi ◽  
Machi Ishikawa ◽  
Momoko Ichikawa ◽  
Takashi Tadenuma ◽  
Yuko Hirakawa ◽  
...  
Keyword(s):  
Dna Microarray ◽  
Bacterial Genes

scholarly journals Evaluating oligonucleotide properties for DNA microarray probe design

2010 ◽  
Vol 38 (11) ◽  
pp. e121-e121 ◽  
Author(s):  
Xiao-Qin Xia ◽  
Zhenyu Jia ◽  
Steffen Porwollik ◽  
Fred Long ◽  
Claudia Hoemme ◽  
...  
Keyword(s):  
Dna Microarray ◽  
Probe Design ◽  
Microarray Probe

scholarly journals DNA Microarray for Detection of Macrolide Resistance Genes

2006 ◽  
Vol 50 (6) ◽  
pp. 2038-2041 ◽  
Author(s):  
Marco Cassone ◽  
Marco M. D'Andrea ◽  
Francesco Iannelli ◽  
Marco R. Oggioni ◽  
Gian Maria Rossolini ◽  
...  
Keyword(s):  
Dna Microarray ◽  
Resistance Genes ◽  
Dna Sequences ◽  
Bacterial Species ◽  
Glass Slide ◽  
Macrolide Resistance ◽  
Gram Negative Bacteria ◽  
Dna Templates ◽  
Bacterial Genes ◽  
Reference Strains

ABSTRACT A DNA microarray was developed to detect bacterial genes conferring resistance to macrolides and related antibiotics. A database containing 65 nonredundant genes selected from publicly available DNA sequences was constructed and used to design 100 oligonucleotide probes that could specifically detect and discriminate all 65 genes. Probes were spotted on a glass slide, and the array was reacted with DNA templates extracted from 20 reference strains of eight different bacterial species (Streptococcus pneumoniae, Streptococcus pyogenes, Enterococcus faecalis, Enterococcus faecium, Staphylococcus aureus, Staphylococcus haemolyticus, Escherichia coli, and Bacteroides fragilis) known to harbor 29 different macrolide resistance genes. Hybridization results showed that probes reacted with, and only with, the expected DNA templates and allowed discovery of three unexpected genes, including msr(SA) in B. fragilis, an efflux gene that has not yet been described for gram-negative bacteria.

scholarly journals Fabrication of efficient DNA microarray by additional surface modification and functional probe design

2005 ◽  
Vol 49 (1) ◽  
pp. 225-226
Author(s):  
Nagendra Kumar Kamisetty ◽  
Seung Pil Pack ◽  
Mitsuru Nonogawa ◽  
Tsutomu Kodaki ◽  
Keisuke Makino
Keyword(s):  
Surface Modification ◽  
Dna Microarray ◽  
Probe Design

Effects of a Supplemental Spanish Phonological Awareness Intervention on Latinx Preschoolers' Dual Language Emergent Literacy Skills

2020 ◽  
Vol 29 (3) ◽  
pp. 1283-1300
Author(s):  
Xigrid T. Soto ◽  
Andres Crucet-Choi ◽  
Howard Goldstein
Keyword(s):  
At Risk ◽  
Phonological Awareness ◽  
Emergent Literacy ◽  
Language Learners ◽  
Literacy Instruction ◽  
Dual Language ◽  
Literacy Skills ◽  
Dual Language Learners ◽  
Probe Design ◽  
Emergent Literacy Skills

Purpose Preschoolers' phonological awareness (PA) and alphabet knowledge (AK) skills are two of the strongest predictors of future reading. Despite evidence that providing at-risk preschoolers with timely emergent literacy interventions can prevent academic difficulties, there is a scarcity of research focusing on Latinx preschoolers who are dual language learners. Despite evidence of benefits of providing Latinxs with Spanish emergent literacy instruction, few studies include preschoolers. This study examined the effects of a supplemental Spanish PA and AK intervention on the dual emergent literacy skills of at-risk Latinx preschoolers. Method A multiple probe design across four units of instruction evaluated the effects of a Spanish supplemental emergent literacy intervention that explicitly facilitated generalizations to English. Four Latinx preschoolers with limited emergent literacy skills in Spanish and English participated in this study. Bilingual researchers delivered scripted lessons targeting PA and AK skills in individual or small groups for 12–17 weeks. Results Children made large gains as each PA skill was introduced into intervention and generalized the PA skills they learned from Spanish to English. They also improved their English initial sound identification skills, a phonemic awareness task, when instruction was delivered in Spanish but with English words. Children made small to moderate gains in their Spanish letter naming and letter–sound correspondence skills and in generalizing this knowledge to English. Conclusion These findings provide preliminary evidence Latinx preschoolers who are dual language learners benefit from emergent literacy instruction that promotes their bilingual and biliterate development.

The gut microbiota resistome provides development of drug resistance in causative agents of human infectious diseases

2017 ◽  
pp. 20-32 ◽  
Author(s):  
Е.Н. Ильина ◽  
Е.И. Олехнович ◽  
А.В. Павленко
Keyword(s):  
Drug Resistance ◽  
Antibiotic Resistance ◽  
Resistance Genes ◽  
Integrated Approach ◽  
Modern Medicine ◽  
Pathogenic Microorganisms ◽  
Human Pathogens ◽  
Potential Source ◽  
Causative Agents ◽  
Bacterial Genes

С течением времени подходы к изучению резистентности к антибиотикам трансформировались от сосредоточения на выделенных в виде чистой культуры патогенных микроорганизмах к исследованию резистентности на уровне микробных сообществ, составляющих биотопы человека и окружающей среды. По мере того, как продвигается изучение устойчивости к антибиотикам, возникает необходимость использования комплексного подхода для улучшения информирования мирового сообщества о наблюдаемых тенденциях в этой области. Все более очевидным становится то, что, хотя не все гены резистентности могут географически и филогенетически распространяться, угроза, которую они представляют, действительно серьезная и требует комплексных междисциплинарных исследований. В настоящее время резистентность к антибиотикам среди патогенов человека стала основной угрозой в современной медицине, и существует значительный интерес к определению ниши, в которых бактерии могут получить гены антибиотикорезистентности, и механизмов их передачи. В данном обзоре мы рассматриваем проблемы, возникшие на фоне широкого использования человечеством антибактериальных препаратов, в свете формирования микрофлорой кишечника резервуара генов резистентности. Over the time, studies of antibiotic resistance have transformed from focusing on pathogenic microorganisms isolated as a pure culture to analysis of resistance at the level of microbial communities that constitute human and environmental biotopes. Advancing studies of antibiotic resistance require an integrated approach to enhance availability of information about observed tendencies in this field to the global community. It becomes increasingly obvious that, even though not all resistance genes can geographically and phylogenetically spread, the threat they pose is indeed serious and requires complex interdisciplinary research. Currently, the antibiotic resistance of human pathogens has become a challenge to modern medicine, which is now focusing on determining a potential source for bacterial genes of drug resistance and mechanisms for the gene transmission. In this review, we discussed problems generated by the widespread use of antibacterial drugs in the light of forming a reservoir of resistance genes by gut microflora.

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