Cronobacter Microarray Genome Profiling

The microarray used in this study was an Affymetrix MyGeneChip Custom Array (Affymetrix design number: FDACRONOa520845F), which utilizes the whole genome sequences of 15 Cronobacter strains, as well as 18 plasmids. These 15 strains encompassed all currently proposed species of Cronobacter. A ≥97% identity threshold level between gene homologs to positively predict allelic coverage was used to obtain genes that were represented on the array as described by Tall et al. [54 (link)]. Each gene (19,287 Cronobacter gene targets) was represented on the array by 22 unique 25-mer oligonucleotide probes, as described by Tall et al. [54 (link)].

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Finkelstein S., Negrete F., Jang H., Gangiredla J., Mammel M., Patel I.R., Chase H.R., Woo J., Lee Y., Wang C.Z., Weinstein L., Tall B.D, & Gopinath G.R. (2019). Prevalence, Distribution, and Phylogeny of Type Two Toxin-Antitoxin Genes Possessed by Cronobacter Species where C. sakazakii Homologs Follow Sequence Type Lineages. Microorganisms, 7(11), 554.

Publication 2019

MyGeneChip Custom Array

A gene Allelic Cronobacter Gene Genome Microarray Oligonucleotide probes Plasmids Strains Tall

Corresponding Organization : United States Food and Drug Administration

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Variable analysis

independent variables

The researchers used 15 Cronobacter strains that encompassed all currently proposed species of Cronobacter.

dependent variables

Not explicitly mentioned.

control variables

Not explicitly mentioned.

controls

The study used a ≥97% identity threshold level between gene homologs to positively predict allelic coverage and obtain genes that were represented on the array.

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