LOCUS       NZ_CP116921             3713 bp    DNA     linear   CON 11-MAR-2024
DEFINITION  Escherichia coli strain MLI104K1 plasmid p3_MLi104-1, complete
            sequence.
ACCESSION   NZ_CP116921
VERSION     NZ_CP116921.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN29553883
            Assembly: GCF_024330145.2
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 3713)
  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  JOURNAL   Unpublished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 3713)
  AUTHORS   Riediger,M. and Zautner,A.E.
  TITLE     Direct Submission
  JOURNAL   Submitted (28-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 3713)
  AUTHORS   Zautner,A.E.
  TITLE     Direct Submission
  JOURNAL   Submitted (13-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; Illumina MiSeq
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 03/11/2024 05:22:58
            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)                     :: 4,728
            CDSs (total)                      :: 4,607
            Genes (coding)                    :: 4,405
            CDSs (with protein)               :: 4,405
            Genes (RNA)                       :: 121
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 90
            ncRNAs                            :: 9
            Pseudo Genes (total)              :: 202
            CDSs (without protein)            :: 202
            Pseudo Genes (ambiguous residues) :: 0 of 202
            Pseudo Genes (frameshifted)       :: 58 of 202
            Pseudo Genes (incomplete)         :: 136 of 202
            Pseudo Genes (internal stop)      :: 46 of 202
            Pseudo Genes (multiple problems)  :: 35 of 202
            Pseudo Genes (short protein)      :: 4 of 202
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP116921.1.
            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..3713
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="MLI104K1"
                     /isolation_source="stool sample"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="p3_MLi104-1"
                     /geo_loc_name="Mali: Koulikoro"
                     /lat_lon="12.52 N 7.34 W"
                     /collection_date="2014-06-27"
                     /collected_by="Bundeswehr Medical Service"
     gene            complement(39..723)
                     /locus_tag="NL419_RS00445"
                     /old_locus_tag="NL419_000445"
                     /pseudo=""
     CDS             complement(39..723)
                     /locus_tag="NL419_RS00445"
                     /old_locus_tag="NL419_000445"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_012477181.1"
                     /GO_function="GO:0004803 - transposase activity [Evidence
                     IEA]"
                     /note="frameshifted; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="IS1 family transposase"
                     /name="IS1 family transposase"
     gene            complement(875..1474)
                     /locus_tag="NL419_RS00450"
                     /old_locus_tag="NL419_000450"
     CDS             complement(875..1474)
                     /locus_tag="NL419_RS00450"
                     /old_locus_tag="NL419_000450"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000430080.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="GNVR domain-containing protein"
                     /protein_id="WP_255055843.1"
                     /translation="MSIVLFVVFSLILSSIFLLANKNKININYELNMIANSPGMIINCG
                     DDFYCKANIIQSIINNKSKFITSNIDERGKKINLSWAGDDRYKPLVTAEVNAIHKAIND
                     WYIQDYKTYKSIVNNQDSNYINGTETYAKVALLTKTNTSGERNFISINTEIVNKKYKSA
                     LIMTLTLIMAIIFSSSYHIIKRSVLDYKNKSNGSFY"
                     /name="GNVR domain-containing protein"
     gene            complement(1995..2120)
                     /locus_tag="NL419_RS23640"
     CDS             complement(1995..2120)
                     /locus_tag="NL419_RS23640"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_007772075.1"
                     /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_072006160.1"
                     /translation="MHEPPVQSDRCACSGNYRLESNPERHDKAPLAAAIGNLVRR"
                     /name="replication initiation protein"
     gene            2714..2863
                     /locus_tag="NL419_RS00455"
                     /old_locus_tag="NL419_000455"
     CDS             2714..2863
                     /locus_tag="NL419_RS00455"
                     /old_locus_tag="NL419_000455"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_017880354.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_001442891.1"
                     /translation="MPSEYDEQLDSTDTQLPGEYDLFDLMAQVTEENLHAPVDFGPPVG
                     REAL"
                     /name="hypothetical protein"
     Typing          2508..2679
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="80.0"
                     /coverage="100.0"
                     /evalue="9.999999999999999e-26"
     Typing          complement(1778..2301)
                     /name="rep_cluster_2358"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="91.199"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 ttatatatcc acggttcaga atctggtagt gcatccaatt agtagagcat gtgtttttcg
       61 ataaacgctc cgatcacttt tttgtggatc tcaactgagc gtgagaagct ggttgtttta
      121 cgagccaacc gcttaatgcg ggtgcgtagc gtcagattat tacgctcgat gcgttggggg
      181 aatattttgc cggtcagatg cttattcttc ggcaccaccc ggccatagct gccccagtca
      241 tcgctggtga gcatgccgat attgaagggt gtaagcagtg ccagtagctc ccggcacgtt
      301 tgatcggttc ggagaccaaa agtgtaggcc agtacaccgc ctgttttggt gttgtacgcg
      361 taccagagcc agtgttgccg gcaacgtagc tccattgttc atcaagctcg cagataagcg
      421 ccacatcagc atgggcaaca ggcgaagaag ttattcgcgt tggcgcgagt tttttaaagt
      481 ccggatgacg gtgttaatac caattttcag tgtcctggcg gtatcgcgaa ccccggcacc
      541 attaaagtcc atttcagtga tcagctcttt catacccggc ttacgtgctt gataagtata
      601 agtgagctga aacacacggt ggcagtcacg gcagcgaaat ctgtcacggc ctttagggtt
      661 ctgaccatgg cggtaaaccc gagctaactg acaacgggga caatgaatat taacgctggc
      721 tatgagataa cctcaaaagc ccgtattata catcagattc aactaattag aggcatcact
      781 cagtgagatt tatcgggagg cccgctatta gcgggctttt ctgcatcagg cgtgtaacgg
      841 atgttgctag aatacggtta ttaatcgtta caggctaata aaaagaccca tttgacttat
      901 ttttatagtc aagtacagat ctttttatta tatggtacga ggaggaaaag ataatagcca
      961 taattaatgt tagagtcata attaaagctg acttatactt tttatttact atttcagtat
     1021 tgattgaaat aaagtttctt tctccggaag tgtttgtttt agttaataat gcaacctttg
     1081 catatgtttc agtgccattt atatagttgc tatcctggtt gttaactatg cttttataag
     1141 ttttataatc ttggatgtac cagtcattaa tagctttatg gatagcgttt acttcagcgg
     1201 taaccaaggg tttataacgg tcatcaccag cccatgacag gtttattttt tttcctctct
     1261 catctatatt tgatgttata aacttgcttt tattgtttat aattgattgt ataatattcg
     1321 ctttacaata aaagtcatcc ccacagttaa taatcatacc tggtgaatta gcgatcatat
     1381 ttaattcgta atttatattt attttgtttt tgtttgctaa caagaaaata gatgacaaaa
     1441 tcaatgagaa aacaacaaac aaaacaatgc tcacgatttt tttcttaaga aagagaaata
     1501 actcgatgaa atcaatatca ggtgaattac tttccatttt tatataccaa caatagttat
     1561 taaagtatag gataaataaa taaataaaat taaagtagct gtgatgaata ttttcgctga
     1621 tttagtatat ttcattttaa aagccaatca aataaaaaac attttaccta ttatttaggt
     1681 gtgagaaaac tcttaaaatc attttttttt gtttattttt tgttcgatta tgtctatgga
     1741 ggaagttgtt atcagcctgt atcctttcca catattttaa gatcttcttg agattcttgt
     1801 gttacagccg taatctcttg gtctgaaaac gaaaaaacca cccggcaagg tggttttttc
     1861 gaaggttcag taaaccggca agtttctgaa ccgtggtaac tggctttcgc agagcacagc
     1921 aaccaaatct gtccttccag tgtagccgta ctgatgcgca cacttcaaga gcaacttcgt
     1981 gtttagctaa caaatcatct gcgaaccaag ttaccaatgg ctgctgccag tggcgctttg
     2041 tcgtgtcttt ccgggttgga ctcaagtcga tagttaccgg aacaggcgca gcggtcggac
     2101 tgaacggggg gttcgtgcat acagtccagc ttggagcgaa ctgcctaccc ggaactgagt
     2161 gtcaggcgtg gaatgagata aacgcggcca taacagcgga atgacaccgg taaaccgaaa
     2221 ggcaggaaca ggagagcgca cgagggagcc accaggggga aacgcctggt atctttaagt
     2281 cctgtcgggt ttcgccacca ctgatttgag cgtccgattc tgtgatgctt gtcagggggg
     2341 cggagcctat ggaaaaccgg caacgccggg atcctctctc cgggcctttc ttcctgcgca
     2401 catgttcttc tgccgcttct cccctgaatc tgtggatcat gtagcttcca ttcccgggca
     2461 tgctttcccc gctcgccgca gccgaacgac cgagcgtagc gagtcagtga gcgaggaagc
     2521 ggaatatcac cggtcctgca ttttctgctt acgcgcccgt catggcatta cacctgcttt
     2581 atgtggcagc tatgcattat gtttctgcga tgttacattt taagccagta tacactccgc
     2641 tagcgctacg tgactggttc agggctgcgc cccgaaaccc tctaacaacc tctcagctat
     2701 tggatatcac cccatgccat ctgaatatga tgaacaactg gattcgactg atacgcagct
     2761 tcccggcgaa tatgaccttt ttgatttaat ggcgcaggtt actgaagaga acctgcacgc
     2821 cccggtggat tttgggccgc ctgtcggccg tgaagcgtta tagctttttc gcttacccat
     2881 gtacgtggta atacgccggt attacatctt atttctttat tttcatgtga ttacaggtgg
     2941 ttgtaatacg ttgcgtatta cataaataaa cggggacttc agtttttacc ttttaattca
     3001 tgcaattgcg atgaaaatcg cggttgcgta tggtgtatga ccatttaagg ggcaaaaaat
     3061 tatcattctg gctgggtgat ctgcgcaggt taaggggcat cggtaacgaa aaagcgtcct
     3121 aacgacctcg ttcatgcgag tatgaacgga ttatttttcc ggactacagg taaactacaa
     3181 agcggaagtg aaactactac agcattacta ctgaattact acaaatcgga ggaggatgac
     3241 tacttatcta ctactgattt actactgaat tacgtcagaa cagttctctg aaccattcgt
     3301 acatccgacc cccttatctt catgcttgat gttcttgcca acgcctcacg gccacgcaat
     3361 aaattgcgtc cccgttcacc gttttcggat gagaagaacg ccggaaacag gacttcccct
     3421 ggctgaatgg tgtgaaattc tgcgctatgc acttgcgcgc atactcatgc atgccgtaaa
     3481 aacagagcct gcgcgtttct ggcgggtttt cgggtggttt gttgcctgtt ttaccggttt
     3541 cccgtcagaa acgccctgag ggcctctcag gcggtgcacg caacagatgt tatggtaaat
     3601 taggcgcatg ataactcatt ccgtatatat tattttcttt agtaacgtat ggacaggata
     3661 ttggtaaatg gattcagtaa aaaaaacggg attgatgaag ctgaaatgca gac
//
