FARME

{{Short description|Biological database}} {{Primary sources|date=June 2019}} {{Infobox biodatabase|title=Functional Antibiotic Resistance Metagenomic Element|logo=|description=Compilation of publicly available predicted proteins and DNA elements that confer Antibiotic Resistance, regulatory elements and mobile genetic elements.|scope=Antimicrobial resistance genes and DNA Elements|organism=Bacteria|center=|laboratory=|author=|pmid=28077567|released=|standard=|format=|url={{URL|http://staff.washington.edu/jwallace/farme/}}|download=[http://staff.washington.edu/jwallace/farme/download.html Download]|webservice=|sql=|sparql=|webapp=|standalone=|license=|versioning=|frequency=|curation=|bookmark=yes|version=}}

'''FARME''' also known as '''Functional Antibiotic Resistance Metagenomic Element''' is a database that compiles publicly available DNA elements and predicted proteins that confer antibiotic resistance, regulatory elements and mobile genetic elements. It is the first database to focus on functional metagenomics. This allows the database to understand 99% of bacteria which cannot be cultured, the relationship between environmental antibiotic resistance sequences and antibiotic genes derived from cultured isolates.<ref>{{Cite journal|last1=Wallace|first1=James C.|last2=Port|first2=Jesse A.|last3=Smith|first3=Marissa N.|last4=Faustman|first4=Elaine M.|date=2017|title=FARME DB: a functional antibiotic resistance element database|journal=Database|language=en|volume=2017|article-number=baw165|doi=10.1093/database/baw165|pmid=28077567|pmc=5225399|issn=1758-0463}}</ref> This information was derived from 20 metagenomics<ref>{{Cite journal|last1=Forsberg|first1=K. J.|last2=Reyes|first2=A.|last3=Wang|first3=B.|last4=Selleck|first4=E. M.|last5=Sommer|first5=M. O. A.|last6=Dantas|first6=G.|date=2012-08-30|title=The Shared Antibiotic Resistome of Soil Bacteria and Human Pathogens|journal=Science|volume=337|issue=6098|pages=1107–1111|doi=10.1126/science.1220761|pmid=22936781|pmc=4070369|bibcode=2012Sci...337.1107F|issn=0036-8075}}</ref><ref>{{Cite journal|last1=Moore|first1=Aimée M.|last2=Patel|first2=Sanket|last3=Forsberg|first3=Kevin J.|last4=Wang|first4=Bin|last5=Bentley|first5=Gayle|last6=Razia|first6=Yasmin|last7=Qin|first7=Xuan|last8=Tarr|first8=Phillip I.|last9=Dantas|first9=Gautam|date=2013-11-13|title=Pediatric Fecal Microbiota Harbor Diverse and Novel Antibiotic Resistance Genes|journal=PLOS ONE|volume=8|issue=11|article-number=e78822|doi=10.1371/journal.pone.0078822|pmid=24236055|issn=1932-6203|pmc=3827270|bibcode=2013PLoSO...878822M|doi-access=free}}</ref><ref>{{Cite journal|last1=Parsley|first1=L. C.|last2=Consuegra|first2=E. J.|last3=Kakirde|first3=K. S.|last4=Land|first4=A. M.|last5=Harper|first5=W. F.|last6=Liles|first6=M. R.|date=2010-04-09|title=Identification of Diverse Antimicrobial Resistance Determinants Carried on Bacterial, Plasmid, or Viral Metagenomes from an Activated Sludge Microbial Assemblage|journal=Applied and Environmental Microbiology|volume=76|issue=11|pages=3753–3757|doi=10.1128/aem.03080-09|pmid=20382816|issn=0099-2240|pmc=2876469|bibcode=2010ApEnM..76.3753P}}</ref> projects from GenBank. Also from GenBank are the protein sequence predictions and annotations.

== See also == * Antimicrobial Resistance databases

== References == {{reflist}}

Category:Metagenomics Category:Biological databases Category:Antimicrobial resistance organizations