LOCUS       NZ_CP116999             3133 bp    DNA     linear   CON 07-JUN-2024
DEFINITION  Escherichia coli strain MLI108K2 plasmid p3_MLI108-2, complete
            sequence.
ACCESSION   NZ_CP116999
VERSION     NZ_CP116999.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN29553892
            Assembly: GCF_024331375.2
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 3133)
  AUTHORS   Riediger,M. and Zautner,A.E.
  TITLE     Molecular epidemiology of Escherichia coli with resistance against
            third-generation cephalosporins isolated from stool samples of
            European soldiers with diarrhea on deployment in Western African
            Mali
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 3133)
  AUTHORS   Riediger,M. and Zautner,A.E.
  TITLE     Direct Submission
  JOURNAL   Submitted (29-JAN-2023) Institute of Medical Microbiology and
            Hospital Hygiene, Medical Faculty, Otto-von-Guericke University
            Magdeburg, Leipziger Strasze 44, Magdeburg, Saxony-Anhalt 39120,
            Germany
REFERENCE   3  (bases 1 to 3133)
  AUTHORS   Zautner,A.E. and Riediger,M.
  TITLE     Direct Submission
  JOURNAL   Submitted (14-JUL-2022) Institute of Medical Microbiology and
            Hospital Hygiene, Medical Faculty, Otto-von-Guericke University
            Magdeburg, Leipziger Strasze 44, Magdeburg, Saxony-Anhalt 39120,
            Germany
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Date                     :: 25-JAN-2023
            Assembly Method :: trycycler v. 0.5.3; unicycler v. 0.5.0; skesa v.
            2.4.0
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 100.0x
            Sequencing Technology :: Illumina MiSeq; Oxford Nanopore MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_024331375.2-RS_2024_06_07
            Annotation Date                   :: 06/07/2024 03:09:32
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.7
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 4,991
            CDSs (total)                      :: 4,866
            Genes (coding)                    :: 4,605
            CDSs (with protein)               :: 4,605
            Genes (RNA)                       :: 125
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 91
            ncRNAs                            :: 12
            Pseudo Genes (total)              :: 261
            CDSs (without protein)            :: 261
            Pseudo Genes (ambiguous residues) :: 0 of 261
            Pseudo Genes (frameshifted)       :: 84 of 261
            Pseudo Genes (incomplete)         :: 184 of 261
            Pseudo Genes (internal stop)      :: 54 of 261
            Pseudo Genes (multiple problems)  :: 54 of 261
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP116999.1.
            Bacteria and source DNA available from Institute of Medical
            Microbiology and Hospital Hygiene Medical Faculty Otto-von-Guericke
            University Magdeburg 39120 Magdeburg, Germany.
            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..3133
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="MLI108K2"
                     /isolation_source="stool sample"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="p3_MLI108-2"
                     /geo_loc_name="Mali: Koulikoro"
                     /lat_lon="12.52 N 7.34 W"
                     /collection_date="2014-07-24"
                     /collected_by="Bundeswehr Medical Service"
     gene            complement(43..795)
                     /locus_tag="NL410_RS01730"
                     /old_locus_tag="NL410_001725"
     CDS             complement(43..795)
                     /locus_tag="NL410_RS01730"
                     /old_locus_tag="NL410_001725"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001127762.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_016249639.1"
                     /translation="MDTTSLISSISVPRLSFYETFLGCATDQEKVGAYVAYQDLSGDFF
                     CLVQMIEVALRNAINNTIKANHGPAWYDSIPQTKKSQDLVLNAKQKALDECGVRYTDDD
                     VICRLTFGFWVYMLDAPYRDTQRPCYIWTPENKAKTFPHAKNPLGGGDMKVKALFDEFH
                     KVLLFRNRLFHHEPIWKKHHCKSHSQAINNMLKEFNFLMNALSIVSNEKKELIEFIGHD
                     RRFYERCTIEYVMGIIGRIKCRELKVAG"
                     /name="hypothetical protein"
     gene            complement(1254..1577)
                     /gene="mobA"
                     /locus_tag="NL410_RS01735"
                     /old_locus_tag="NL410_001730"
     CDS             complement(1254..1577)
                     /gene="mobA"
                     /locus_tag="NL410_RS01735"
                     /old_locus_tag="NL410_001730"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:NP_052604.1"
                     /GO_process="GO:0006355 - regulation of DNA-templated
                     transcription [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="plasmid mobilization protein MobA"
                     /protein_id="WP_000166966.1"
                     /translation="MTKRSGSNTRRRAISRPVRLTAEEDQEIRKRAAECGKTVSGFLRA
                     AALGKKVNSLTDDRVLKEVMRLGALQKKLFIDGKRVGDREYAEVLIAITEYHRALLSRL
                     MAD"
                     /name="mobA"
     gene            1862..2056
                     /locus_tag="NL410_RS01740"
                     /old_locus_tag="NL410_001735"
     CDS             1862..2056
                     /locus_tag="NL410_RS01740"
                     /old_locus_tag="NL410_001735"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001041623.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="Rop family plasmid primer RNA-binding protein"
                     /protein_id="WP_025492124.1"
                     /translation="MNKQQQTALNMAKFIKSQSLTLLEKLDSLDADAQAAMCEKLHELA
                     EELQNSIQTRFESESGTGE"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            2533..2646
                     /locus_tag="NL410_RS24935"
     CDS             2533..2646
                     /locus_tag="NL410_RS24935"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_005761324.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="replication initiation protein"
                     /protein_id="WP_071790583.1"
                     /translation="MHEPPVQSDYCALSGNYRLESNPERHDLSPLAAATGN"
                     /name="replication initiation protein"
     Typing          complement(1587..1824)
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="98.75"
                     /coverage="99.0"
                     /evalue="1e-116"
     Typing          2355..2804
                     /name="rep_cluster_2358"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="88.494"
                     /coverage="90.0"
                     /evalue="1.02e-154"
     Typing          complement(1258..1577)
                     /name="MOBF"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="99.065"
                     /coverage="100.0"
                     /evalue="2.32e-62"
ORIGIN
        1 gccggtaaga gcttttgatt gtatcacatt tttccttaaa agtcaaccgg ctaccttaag
       61 ctccctgcac ttaatcctcc ctataatccc cataacatac tctatcgtgc agcgttcata
      121 aaagcgccta tcgtgcccaa taaactcaat aagttccttt ttctcgttag agacgatact
      181 caaggcattc attaaaaaat tgaactcttt caacatatta tttatggctt gactatgcga
      241 cttgcagtgg tgttttttcc aaataggctc atggtgaaaa agtcgattcc taaacaaaag
      301 aactttatga aactcgtcaa acaacgcttt aaccttcata tcccccccac ccaaaggatt
      361 cttcgcatga ggaaatgttt ttgccttgtt ctctggagtc cagatgtagc acggcctttg
      421 cgtatcccta tatggggcat ctaacatata aacccaaaag ccaaaggtta gacggcaaat
      481 aacatcatca tccgtatacc ttacgccaca ctcatctagc gctttttgtt tcgcatttaa
      541 aacaagatcc tgagatttct ttgtttgagg tatagagtcg taccaagcag gcccatgatt
      601 agctttgatt gtattgttta tcgcattacg cagagcaacc tcaatcatct ggacaagaca
      661 aaaaaaatcg ccagacagat cttggtaggc aacgtatgcc ccaacctttt cttgatcagt
      721 agcgcaccca agaaatgttt catagaaaga taatcttggt acagaaattg agctaattaa
      781 acttgttgta tccatgaaaa ctcacttatc tctttactat gaatattttt cagactacca
      841 ttacaacatt cgaggagcag gcgaactacc gtttttctgt gtacctctag agcgtaaaat
      901 ataacaaaaa agcccactac agagtgggct tttttgttat atttatctat atgaaacaac
      961 cagttatagt tattgtttca taataagaat tgaatactct tcacaatcca caacatcaga
     1021 aaatactttg ctgccaattt accataactc cccttacgcg caccgctaaa acgcgctgaa
     1081 cgcgattctg ccgcaaacac cgcaaaaaga gatgttttac ccagtgaaaa ccggaaaaat
     1141 gcgtcaggac cgttttcagc tcactgcata gctatgcatg aaagtgaatg gcgatcggtt
     1201 tggggcctta cggcgttcat accgtctgtt ttcgacagtt tctctccggg aagctaatct
     1261 gccataagcc tggataacag ggcccggtga tactccgtaa tagcgatcag cacctccgca
     1321 tactctctgt ccccgacacg cttgccgtcg ataaagagtt ttttctgtaa cgcccccagt
     1381 ctcataactt ctttcagtac ccgatcatca gtcagtgagt taactttctt accgagagct
     1441 gccgcccgta aaaaaccgga aacggtcttg ccgcattcag cagccctttt tctgatttcc
     1501 tggtcttctt ctgccgtcag acgaacaggg cgactgatag cccgcctgcg cgtattactt
     1561 ccacttcgtt ttgtcataaa acatggctcc gtatctgaca tggggtgtcg gggcgaagcc
     1621 ctgaccaggg taattgtaat agcgcgcatg tatgcgcggt ataacaatta cacatcctgt
     1681 cctgtcagca agttcgaatt accgacaaag gcacggcagt tttttggcag tgacagtatt
     1741 gtcaggcaga aatgcccgtc aaagagtcag acgacagaat accggcggca aaactgtcga
     1801 aaagtggtac gcgatataat cacacgacgc agatgacaga cagaacggag aaaacagaaa
     1861 gatgaacaag cagcagcaaa ccgcacttaa catggcaaaa ttcataaaaa gccagagcct
     1921 gacgctgctc gaaaaactgg actcactcga tgctgatgca caggccgcca tgtgtgagaa
     1981 actgcacgaa ctcgcagaag aactccagaa cagcatacag acacgctttg aatcggaaag
     2041 tggcaccggg gaataacagt gttcctacac cagacaggat gcagaacgat ataccggtgc
     2101 gtaaggagaa aataccacat aaggcgctct tccgcttcct cgctcactaa ctcgctacgc
     2161 tcggtcgttc ggctgcggcg agcggtatca gctcactcaa agacggtaat gaggttatcc
     2221 acagaatcag gggataacgc caaaagaaac atgtgagcaa aaaacaagaa cccgaaaaag
     2281 gccgcgccgg tggcgttttt ccataggctc cgcccccctg acgagcatca caaaaatcga
     2341 cgctcaagtc agaggtggcg aaacccgaca ggactataaa gataccaggc gtttccccct
     2401 gatggctccc tcgtgcgctc tcctgttcct gcctttcggt ttaccggtgt cattccgctg
     2461 ttatggccgc gttatctcat tccacgcctg acactcagtt ccgggtaggc agttcgctcc
     2521 aagctggact gtatgcacga accccccgtt cagtccgact actgcgcctt atccggtaac
     2581 tatcgtcttg agtccaaccc ggaaaggcac gacttatcgc cattggcagc agccactggt
     2641 aactgattta gaggagttag tcttgaagtt acgtgccagt taaggctaaa ctggaagaac
     2701 aagttttggt gactgcgctc ctcttaagcc agttaccgag gttcagaaac ttgccggttg
     2761 ctgaaccttc gaaaaaccac cttgccgggt ggttttttcg tttttaagat tacgatgggc
     2821 gcgatatgaa ctcaaggaaa tccgcaatta aattataaaa gtttgtggat taatggaaaa
     2881 actgatgtga atcagctatt tatccttaag atttgatgtc agatatggta taattaacca
     2941 ttcaaataga tggaataaaa agtcaacgct gccattagaa cggcataaga aatagaggat
     3001 tatgaaaatg aatactaaag ttctttttgt gaaaaaagcc ttgaaatcaa ttacttgcgc
     3061 aattctttcg ctcttaccgg ctttaagtcg cgcagtaaca gagttacgta gcctttcggc
     3121 tgcgcgactt aaa
//
