2022
DOI: 10.3390/antibiotics11070952
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Mining Amphibian and Insect Transcriptomes for Antimicrobial Peptide Sequences with rAMPage

Abstract: Antibiotic resistance is a global health crisis increasing in prevalence every day. To combat this crisis, alternative antimicrobial therapeutics are urgently needed. Antimicrobial peptides (AMPs), a family of short defense proteins, are produced naturally by all organisms and hold great potential as effective alternatives to small molecule antibiotics. Here, we present rAMPage, a scalable bioinformatics discovery platform for identifying AMP sequences from RNA sequencing (RNA-seq) datasets. In our study, we d… Show more

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Cited by 16 publications
(26 citation statements)
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References 120 publications
(158 reference statements)
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“…A total of 1137 putative AMPs were identified by rAMPage, and 88 peptides were selected for synthesis using three selection criteria: “Species Count”, “Insect Peptide”, or “AMPlify Score” (see Methods). The shortlist of 88 putative AMPs include 21 peptides described previously [ 22 ]. We investigated, in three independent experiments per peptide, the antimicrobial activity of the 88 peptides against Escherichia coli ATCC 25922, a clinical strain of Salmonella enterica serovar Enteritidis, and Staphylococcus aureus ATCC 29213.…”
Section: Resultsmentioning
confidence: 99%
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“…A total of 1137 putative AMPs were identified by rAMPage, and 88 peptides were selected for synthesis using three selection criteria: “Species Count”, “Insect Peptide”, or “AMPlify Score” (see Methods). The shortlist of 88 putative AMPs include 21 peptides described previously [ 22 ]. We investigated, in three independent experiments per peptide, the antimicrobial activity of the 88 peptides against Escherichia coli ATCC 25922, a clinical strain of Salmonella enterica serovar Enteritidis, and Staphylococcus aureus ATCC 29213.…”
Section: Resultsmentioning
confidence: 99%
“…In the present study, we characterized 51 AMP candidates originally derived from a bioinformatics scan of RNA-seq data from amphibians and insects using rAMPage [ 22 ]. Fourteen of these had high antimicrobial activity to at least one of the bacterial species tested.…”
Section: Discussionmentioning
confidence: 99%
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“…They consist of between 10 and 50 amino acids and are now candidates for addressing the challenges associated with antibiotic resistance [ 8 , 9 ]. Antimicrobial peptides are derived from a wide range of sources, and as many as 3000 have been identified and isolated from mammals [ 10 ], amphibians [ 11 ], marine animals [ 12 ], insects [ 13 ], and plants [ 14 , 15 ]. Antimicrobial peptides can rupture bacteria by forming ion channels in cell membranes [ 16 ], piercing pores, and promoting membrane disintegration.…”
Section: Introductionmentioning
confidence: 99%