Draft Genome Sequence of the Type Species of the Genus Citrobacter, Citrobacter freundii MTCC 1658.

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by  Kumar, Shailesh

Draft Genome Sequence of the Type Species of the Genus Citrobacter,
Citrobacter freundii MTCC 1658
ShaileshKumar,bChandandeepKaur,aKazuyukiKimura,cMasahiroTakeo,cGajendraPalSinghRaghava,bShanmugamMayilraja
MicrobialTypeCultureCollectionandGeneBank(MTCC),Chandigarh,Indiaa;BioinformaticsCentre,CSIR-InstituteofMicrobialTechnology,Chandigarh,Indiab;
DepartmentofMaterialsScienceandChemistry,GraduateSchoolofEngineering,UniversityofHyogo,Himeji,Hyogo,Japanc
S.K.andC.K.contributedequallytothisarticle.
ThisisInstituteofMicrobialTechnology(IMTECH)communicationno.078/2012.
Wereportthe5.0-MbgenomesequenceofthetypespeciesofthegenusCitrobacter,CitrobacterfreundiistrainMTCC1658,iso-
latedfromcanalwater.ThisdraftgenomesequenceofC.freundiistrainMTCC1658Tconsistsof5,001,265bpwithaG(cid:1)Ccon-
tentof51.61%,4,691protein-codinggenes,70tRNAs,and10rRNAs.
Received12November2012 Accepted30November2012 Published31January2013
CitationKumarS,KaurC,KimuraK,TakeoM,RaghavaGPS,MayilrajS.2013.DraftgenomesequenceofthetypespeciesofthegenusCitrobacter,CitrobacterfreundiiMTCC
1658.GenomeAnnounc.1(1):e00120-12.doi:10.1128/genomeA.00120-12.
Copyright©2013Kumaretal.Thisisanopen-accessarticledistributedunderthetermsoftheAttribution3.0UnportedCreativeCommonsLicense.
AddresscorrespondencetoShanmugamMayilraj,[email protected].
ThegenusCitrobacterwasfirstproposedasCitrobacterfreun- thesisN-glycosyltransferasePgaC(EC2.4.-.-),GlmU,GlmM,and
dii(Braak1928)byWerkmanandGillen(1).Atpresent,the GlmS.Wehavealsofoundthegenesforargininedeaminase(EC
genusCitrobacterconsistsoftenrecognizedspecies,includingC. 3.5.3.6), proline iminopeptidase (EC 3.4.11.5), N-acetyl-D-
freundiiMTCC1658.ThetypespeciesC.freundiiMTCC1658isa glucosamineABCtransportsystempermeaseprotein1,N-acetyl-
Gram-negativeaerobicshort-rodbacteriumisolatedfromcanal D-glucosamine ABC transport system permease protein 2, and
waterintheUnitedStates.ThegenomeofstrainMTCC1658Twas galactosamine-6-phosphateisomerase(EC5.3.1.-).
sequencedusingastandardrunoftheRoche454sequencingtech- Nucleotide sequence accession numbers. This Whole Ge-
nology.Atotalof891,216readswithanaveragelengthof402.52 nome Shotgun project has been deposited at DDBJ/EMBL/
nucleotides(~71.7-foldcoverage)wereusedforgenomeassembly GenBank under the accession no. ANAV00000000. The version
bytheNewblerassemblerversion2.5.3(Roche)usingthedefault describedinthisarticleisthefirstversion,ANAV01000000.Ge-
parameters. A total of 171 contigs of (cid:1)500 bp in length were nomeassemblyandannotationdatacanbedownloadedfromour
constructed,withanN of196.05kb;thelargestcontigassembled genomicswebportalathttp://crdd.osdd.net/raghava/genomesrs/.
50
measured445.73kb.Thefinaldraftgenomesequenceconsistsof
ACKNOWLEDGMENTS
5,001,265bp,andtheRapidAnnotationsusingSubsystemsTech-
nology (RAST) server (2) and tRNAscan-SE-1.23 software (3) S.K.issupportedbyaresearchfellowshipfromtheCouncilofScientific
andIndustrialResearch(CSIR),India.Thisworkwaspartlysupportedby
wereusedforgenomeannotation.
theRegionalInnovationStrategySupportProgramme2012oftheMin-
Whole-genomeannotationwiththeRASTservershowsthat
istryofEducation,Culture,Sports,ScienceandTechnologyofJapanand
strainMTCC1658Tcontainsgenesforureadecomposition(i.e.,
theJapanSocietyforthePromotionofScience(JSPS)invitationfellow-
genesforureaseaccessoryproteinsUreD,UreE,UreF,andUreG),
shipforresearchinJapangrantedtoS.M.
chitinandN-acetylglucosamineutilization,dehydrogenasecom-
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January/February2013 Volume1 Issue1 e00120-12 GenomeAnnouncements genomea.asm.org 1