LOCUS       NZ_CP073047             4938 bp    DNA     circular CON 26-JAN-2024
DEFINITION  Citrobacter sp. MGH103 plasmid unnamed4, complete sequence.
ACCESSION   NZ_CP073047
VERSION     NZ_CP073047.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN03280163
            Assembly: GCF_001034475.2
KEYWORDS    RefSeq.
SOURCE      Citrobacter sp. MGH103
  ORGANISM  Citrobacter sp. MGH103
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Citrobacter; Citrobacter freundii complex.
REFERENCE   1  (bases 1 to 4938)
  AUTHORS   Earl,A.M., Manson,A.L., Bhattacharyya,R., Brennan-Krohn,T.,
            Cosimi,L., Delaney,M., Ferraro,M.J., Gilmore,M., Gussin,G.,
            Hooper,D., Huang,S., Kim,D., Kirby,J., Onderdonk,A., Peterson,E.,
            Pierce,V., Shenoy,E., Wurster,J., Shea,T.D., Chapman,S., Howe,W.,
            Walker,B. and Birren,B.W.
  TITLE     Multi-genus dynamics of carbapenem resistance within hospitals
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 4938)
  AUTHORS   Earl,A.M., Manson,A.L., Bhattacharyya,R., Brennan-Krohn,T.,
            Cosimi,L., Delaney,M., Ferraro,M.J., Gilmore,M., Gussin,G.,
            Hooper,D., Huang,S., Kim,D., Kirby,J., Onderdonk,A., Peterson,E.,
            Pierce,V., Shenoy,E., Wurster,J., Shea,T.D., Chapman,S., Howe,W.,
            Walker,B. and Birren,B.W.
  TITLE     Direct Submission
  JOURNAL   Submitted (06-MAY-2021) Infectious Disease and Microbiome Program,
            Broad Institute, 415 Main Street, Cambridge, MA 02142, USA
  REMARK    Sequence update by submitter
REFERENCE   3  (bases 1 to 4938)
  AUTHORS   Earl,A.M., Manson,A.L., Bhattacharyya,R., Brennan-Krohn,T.,
            Cosimi,L., Delaney,M., Ferraro,M.J., Gilmore,M., Gussin,G.,
            Hooper,D., Huang,S., Kim,D., Kirby,J., Onderdonk,A., Peterson,E.,
            Pierce,V., Shenoy,E., Wurster,J., Shea,T.D., Chapman,S., Howe,W.,
            Walker,B. and Birren,B.W.
  TITLE     Direct Submission
  JOURNAL   Submitted (27-AUG-2020) Infectious Disease and Microbiome Program,
            Broad Institute, 415 Main Street, Cambridge, MA 02142, USA
REFERENCE   4  (bases 1 to 4938)
  AUTHORS   Earl,A.M., Onderdonk,A.B., Kirby,J., Ferraro,M.J., Huang,S.,
            Spencer,M., Fodor,A., Hooper,D., Dekker,J., O'Brien,T., Quan,V.,
            Gombosev,A., Delaney,M., DuBois,A., Ernst,C., Kim,D.S., Rossman,W.,
            Gohs,F., Petruso,H., Nozar,T., Mougeot,F., Manson-McGuire,A.,
            Young,S., Abouelleil,A., Cao,P., Chapman,S.B., Griggs,A., Priest,M.,
            Shea,T., Wortman,I., Wortman,J.R., Nusbaum,C. and Birren,B.
  CONSRTM   The Broad Institute Genomics Platform, The Broad Institute Genome
            Sequencing Center for Infectious Disease
  TITLE     Direct Submission
  JOURNAL   Submitted (10-JUN-2015) Broad Institute of MIT and Harvard, 7
            Cambridge Center, Cambridge, MA 02142, USA
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. v0.4.3
            Assembly Name                     :: MGH103
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 207x
            Sequencing Technology             :: Illumina; Oxford Nanopore
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 01/24/2024 14:23:32
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.6
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 5,298
            CDSs (total)                      :: 5,175
            Genes (coding)                    :: 5,057
            CDSs (with protein)               :: 5,057
            Genes (RNA)                       :: 123
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 83
            ncRNAs                            :: 15
            Pseudo Genes (total)              :: 118
            CDSs (without protein)            :: 118
            Pseudo Genes (ambiguous residues) :: 0 of 118
            Pseudo Genes (frameshifted)       :: 32 of 118
            Pseudo Genes (incomplete)         :: 85 of 118
            Pseudo Genes (internal stop)      :: 19 of 118
            Pseudo Genes (multiple problems)  :: 18 of 118
            Pseudo Genes (short protein)      :: 1 of 118
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP073047.1.
            The annotation was added by the NCBI Prokaryotic Genome Annotation
            Pipeline (PGAP). Information about PGAP can be found here:
            https://www.ncbi.nlm.nih.gov/genome/annotation_prok/
            COMPLETENESS: full length.
FEATURES             Location/Qualifiers
     source          1..4938
                     /organism="Citrobacter sp. MGH103"
                     /mol_type="genomic DNA"
                     /strain="MGH103"
                     /host="Homo sapiens"
                     /db_xref="taxon:1686378"
                     /plasmid="unnamed4"
                     /collection_date="2014"
     gene            208..699
                     /locus_tag="SK33_RS26335"
     CDS             208..699
                     /locus_tag="SK33_RS26335"
                     /inference="COORDINATES: ab initio prediction:GeneMarkS-2+"
                     /note="Derived by automated computational analysis using
                     gene prediction method: GeneMarkS-2+."
                     /codon_start=1
                     /transl_table=11
                     /product="MbeB family mobilization protein"
                     /protein_id="WP_016355729.1"
                     /translation="MSSLLTLAKDLEQQSKAQQKSTGEMLKAAFSEHEQSVRAELNASA
                     RRISDAISAHEQSMSEAMEKNRRSVLLTAGRTWLTILMVSALLIATSGSILWWQGRQIT
                     DNYTHLRQQEDTLAKMTARTWGVRYQESNDGRRFLILPPGMQAEAIPYDGTTWIRLKQE
                     "
                     /name="MbeB family mobilization protein"
     gene            706..921
                     /locus_tag="SK33_RS26340"
     CDS             706..921
                     /locus_tag="SK33_RS26340"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000137422.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MbeD family mobilization/exclusion protein"
                     /protein_id="WP_000137422.1"
                     /translation="MTELEKQLLSALEQLQQDYSQRLDEWESAFAEWRSMCGLMQRENA
                     VLNERVSDLSTQVLSLSEQLRRLSGN"
                     /name="MbeD family mobilization/exclusion protein"
     gene            1850..3136
                     /locus_tag="SK33_RS26345"
     CDS             1850..3136
                     /locus_tag="SK33_RS26345"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002437803.1"
                     /GO_process="GO:0006935 - chemotaxis [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="PAS domain-containing methyl-accepting chemotaxis
                     protein"
                     /protein_id="WP_306170312.1"
                     /translation="MFSLNLQRSAISYDAICQNKPVIEFSPEGVINKASPLFLSTMGYR
                     ADEIIGHHHRIFCPPSLVSSPEYSQFWQRLARGESFSGKYLRLAKGNRSVWLEASYIPV
                     SDRRGRVIRVIKIAADISERVHSALEQEAVVNAINRSMAIITFNPEGIVLEANENFVNA
                     TGYKRDEIIGKHHRLFCAETLYKSDEYRHFWESLNQGEFFSGLFPRLNRQGDPLWFRAT
                     YNPVFNSDGQLYKIVKFATDVTADVLRNQREQEAAVHAWDMAVQTRESAQNGANVIENS
                     ILMIDRIAQGMGAVSTDISRLNNQSESIDDMVETIRKFAMQTRLIALNAAIEAARAGAS
                     GRSFAVVAAEVRNLAASVSSATEEIEQVVASNSQLAKDVLCGIENSLMNTREGVTLMRE
                     AGEVMTSIQRNAAGVETAVKDVAISVKAG"
                     /name="PAS domain-containing methyl-accepting chemotaxis
                     protein"
     gene            4145..4468
                     /locus_tag="SK33_RS26350"
     CDS             4145..4468
                     /locus_tag="SK33_RS26350"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000957083.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MobC family plasmid mobilization relaxosome
                     protein"
                     /protein_id="WP_007899679.1"
                     /translation="MLTMWVTEDEHRRLLERCDGRQLAAWMRQTCLDEKPARTAKLPSI
                     SPALLRQLAGMGNNLNQIARRVNAGVGTGHDRVQIVAALMAIDAGLERLRHAVLEKGTD
                     DDR"
                     /name="MobC family plasmid mobilization relaxosome protein"
     Typing          3858..4030
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="9.14e-86"
     Typing          complement(3387..3933)
                     /name="rep_cluster_2335"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="94.545"
                     /coverage="90.0"
                     /evalue="0.0"
     Typing          4..1022
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="83.544"
                     /coverage="99.0"
                     /evalue="0.0"
     Typing          4146..4462
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="91.509"
                     /coverage="99.0"
                     /evalue="3.03e-59"
     Typing          4459..4937
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="99.0"
                     /evalue="2.07e-98"
ORIGIN
        1 ccggactgcc gaaaacgaag caggaagccg cagaagccat cacccgtgga ctgctgagct
       61 tagcctcgtc cggggagctg aaaagccgtc aggacgtcac tgaggctctt gaaggtgcag
      121 gttttgaggt ggtgcgtaca acgaaaagca gtatcagcat tgccgaccct gacggggggc
      181 gaaacatccg actgaaggga gccatctatg agcagtcttt taacgctggc gaaggactta
      241 gagcagcaat cgaaagcgca gcagaagagt accggcgaga tgctgaaagc cgcattcagc
      301 gagcacgagc agtctgtcag agcggaactg aacgcaagcg cgaggagaat cagcgacgcc
      361 atcagcgccc acgagcagag tatgagcgag gcgatggaga aaaaccggcg gagcgtgttg
      421 ctgacggccg ggaggacatg gctcaccatc ctgatggtgt cagcgctgct gatcgccacg
      481 agcgggagca ttctgtggtg gcagggacgg cagataaccg acaattacac acatcttcgt
      541 cagcaggaag ataccctggc gaaaatgacc gcccggacgt ggggagtacg ctatcaggag
      601 agcaacgacg gccggaggtt ccttatcctg ccgccgggga tgcaagccga agccatcccc
      661 tacgacggga cgacctggat ccgcctgaaa caggagtagc ggaaaatgac agagctggaa
      721 aagcagttgc tgagcgcatt agagcagcta cagcaggact actcgcaaag gctggacgaa
      781 tgggagagcg ccttcgcgga atggcggagc atgtgtggac ttatgcaacg ggagaacgcg
      841 gtgctgaacg agcgcgtgtc ggacttgagc acgcaggtgc tgagtttaag cgagcagcta
      901 cgccgcttgt ccgggaactg aatgccatcg aggagaaggc tgcactggag tatcagcgtc
      961 agaacgagct ggagctgacg ctccgacaga agcagaagag tttcgatggt ccgaagatga
     1021 ggtgacagcc cgcacgaaga agggctcatc gcgttcctgc taaataggct gactaccgga
     1081 atggtagtga cttatcccgg aggaagtgat gaaaattctc aacgttattg aagccctgct
     1141 gaactgtttt tacctggtga tggagctgtg tgagttgccg gagaggcatt tgccggtttt
     1201 taaggcgttc gcgctgattt tagtgtgact ttacgctgca tgcatctggc tgcatgacta
     1261 tgcatcagtg taatatccag cggctgcgtt tttggtgttt tttcgtcatg tctgtcgcca
     1321 ctttctcgcg tctggcaccg gaaacgcagc caaccccgtt tctgcggtgc gggcaagggg
     1381 tgttatgtta aaagccgagg tctggcggat acggaaaaaa ttatgccggc cgggcttatg
     1441 cccgcggcaa tccggccgat acttaaatta tccttcacaa aggatgtgct gcgatccagg
     1501 cagttgagtg ttttccggct cccggatgtg agccattttt ttgccttctg atgcctgtta
     1561 atgcatgcgg agctgcgctg gttcttccaa gattgataga cgccagcttc tctgctggag
     1621 ccggcggatt tgccgtaaat atgaacattt tcttattgtt cagcccgcta aagatggcgg
     1681 gttttttacg cgtgaaatcc ggagccggac atcatgccgg catggctgaa gagcgggctt
     1741 tttcccgccc tgtcgcagta atatataacg ctacataagg agtagccgat aaccatggca
     1801 gtacttacat tatccgggca atctgattca tatgttttca cttaaaaata tgttctccct
     1861 gaacctccag cgatcagcca tttcgtatga cgcaatttgt cagaataagc ctgtcattga
     1921 gttcagtccg gagggggtga taaataaagc cagcccgctt tttctctcca ctatggggta
     1981 cagggctgat gaaataatcg gtcaccacca tcgtatattc tgcccgccct cgctggtaag
     2041 ttcaccggaa tacagccagt tctggcagcg ccttgccagg ggagaaagct ttagtggcaa
     2101 gtacctgcgg ctggcaaagg gaaatcgttc cgtatggctt gaagccagtt atatccccgt
     2161 ttctgacagg cgcggccgtg ttatcagagt cattaaaatt gctgccgata tttctgagcg
     2221 cgtgcattct gctcttgagc aggaagcagt cgtaaatgcc ataaaccgtt ctatggccat
     2281 catcaccttc aatcctgaag ggatcgtgct tgaagcaaat gaaaatttcg tcaatgccac
     2341 tggctataag cgggatgaaa tcataggtaa gcatcatcgt ctgttctgtg ccgagacgct
     2401 ttacaaaagt gatgaatacc gacatttctg ggagagtctg aatcaaggtg agtttttttc
     2461 tggtctgttt ccacgcctta accgtcaggg agaccctctg tggttccgtg caacttataa
     2521 ccctgtcttt aacagtgatg ggcagcttta taaaattgtg aaattcgcta cagatgttac
     2581 ggctgatgtc ctgcgaaacc agagagagca agaggctgct gtgcatgcat gggatatggc
     2641 cgtgcagacc cgagaaagtg cgcagaacgg tgccaatgtt attgaaaata gcatccttat
     2701 gattgacaga attgcgcagg ggatgggggc tgtctccacc gatatctcac ggctcaacaa
     2761 tcagtctgaa agtattgacg atatggtgga aaccatccgg aagtttgcca tgcagacaag
     2821 acttattgca ctgaatgccg cgattgaagc agcaagggct ggcgcatccg gaagaagttt
     2881 tgcggttgtt gccgcagaag tgcgtaatct tgcggcgagc gtcagtagcg cgactgaaga
     2941 aattgagcaa gtcgtggcca gcaatagtca actggccaag gatgttctct gtggcattga
     3001 aaacagcctg atgaacactc gggaaggggt tacactcatg cgcgaagcgg gtgaagttat
     3061 gaccagcatt cagaggaatg ctgcaggggt tgagactgcg gttaaggatg tcgccatttc
     3121 agttaaagcc ggataggcca tggtgcatat ccccatatct gtcgaacatc acagatgatc
     3181 ttcttgagat cctttccgtt gcgtcgtaat ctcttgctct gaaaacgaaa aaaccacccg
     3241 gaaaggtggc tttttcgaag gttcgcaaga gttgacgctc ttttgaaccg cggtaactgg
     3301 cttggaggag cacagtcacc aaaactgtcc tttcagtgta gccttatcgc acccgaaact
     3361 tcaagactct cctcctctaa acctgttacc agtggctgct gccagtggcg ctttgtcgtg
     3421 tttttccgga ttggactcaa gttgatagtt accggataag gcgcagcggt cggactgaac
     3481 ggggggttcg tgcatacagt ccagcttgga gcgaactgcc ttcccggaac tgagtgtcag
     3541 gcgtggaatg agacaaacgc ggccataaca gcggaatgac accggtaaac cgaaaggcag
     3601 gaacaggaga gcgcacgagg gagccaccag ggggaaacgc ctggtatctt tatagtcctg
     3661 tcgggtttcg ccaccactga tttgagcgtc agatttcgtg atgcttgtca ggggggcgga
     3721 gcctatggaa aaacggcttc gccgcggcct tatcgcttcc ctgttaagct tctttctggc
     3781 atctcccagg aaatttccgc cccgcctgta agccggtacc gctcgccgca gccgaacgac
     3841 cgagcgcagc gagtcagtga gcgaggaagc ggaatatatc ctgtatcgca tattctgctg
     3901 acgctccgct gctgcatttt tctcctgcca catgaagcac ttcactgata ttcgcatccg
     3961 tgccaacata gtaagccagt atacactccg ctagcgctac gtgactggtt cagggctgcg
     4021 ccccgaaacc cgctaacagc cactgacgcg cctgcggctt gtccaacccc gcgccgaccg
     4081 ggaaaggttt tcccgcccgt cccggggtta tcaggagact gttttgtcag agaaacggaa
     4141 caagatgctc accatgtggg tgacggagga tgagcacagg cggctacttg agcgctgcga
     4201 cggcaggcag ctggcggcgt ggatgcggca gacctgcctg gacgaaaagc cggctcgtac
     4261 cgcaaaactt ccttcgatct cgccggcgct gctgcgccag cttgccggta tgggcaacaa
     4321 cctgaaccag atagcccgcc gtgttaacgc cggcgtcggt accggtcatg accgggtgca
     4381 gattgtggcg gcgctgatgg ccatcgatgc cgggcttgag cggctgcggc acgccgttct
     4441 tgagaaagga acggacgatg atcgttaaat ttcatccacg cggtcgcggc ggtggcgccg
     4501 ggccggtgga ctatctgctg ggtaaagacc ggcagcgtga aggcgccagc gtcctgcagg
     4561 ggaagccgga agaagtccgg gagctgatcg acgcgtcgcc ttacgtgaag aaatacacct
     4621 ccggcgtcct gtcgtttgcg gaggccgatc tgcctcccgg ccagcgggaa aaactgatgg
     4681 ccagcttcga gcgggttctg atgcccggac ttgataaaga tcagtacagc attctgtggg
     4741 tggagcacga ggacaagggg cgtctggagc tgaactttct gatccccaat accgagctgc
     4801 tgaccggcag gcggctccag ccgtactacg accgcgccga ccggccgcgt atcgatgcct
     4861 ggcagaccat cgtgaacggc agactggggc tgcacgatcc gaacgcgccg gaaaaccgcc
     4921 gggcgctggt cacgccgg
//
