LOCUS       NZ_CP117000             1551 bp    DNA     linear   CON 07-JUN-2024
DEFINITION  Escherichia coli strain MLI108K2 plasmid p1_MLI108-2, complete
            sequence.
ACCESSION   NZ_CP117000
VERSION     NZ_CP117000.1
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 1551)
  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  JOURNAL   Unpublished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 1551)
  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 1551)
  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
            CP117000.1.
            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..1551
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="MLI108K2"
                     /isolation_source="stool sample"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="p1_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            <1..477
                     /locus_tag="NL410_RS01745"
                     /old_locus_tag="NL410_001740"
     CDS             <1..477
                     /locus_tag="NL410_RS01745"
                     /old_locus_tag="NL410_001740"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000469298.1"
                     /GO_function="GO:0003677 - DNA binding [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="helix-turn-helix domain-containing protein"
                     /protein_id="WP_000469298.1"
                     /translation="MFIDSEKRLKQLSDEAKKNTEDLEEAKKNSRFTQVSPKGWERVRE
                     LLKDSQGISALKLYSFLAEHIDPTCGAVVADQQFLAEKLGVSRSTIIRWLNYLESKNAL
                     VRIPVAGKVCAYALDPHEVWKGYNTTKNHAAFVTKTLVNKDGDIQRRIMAMFSN"
                     /name="helix-turn-helix domain-containing protein"
     gene            525..815
                     /locus_tag="NL410_RS01750"
                     /old_locus_tag="NL410_001745"
     CDS             525..815
                     /locus_tag="NL410_RS01750"
                     /old_locus_tag="NL410_001745"
                     /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="hypothetical protein"
                     /protein_id="WP_153274583.1"
                     /translation="MIVYPALLFCRLKILCVFLLPVLQKKPSRHGSGSALSATGNRLGR
                     TPDPHRCNTDGLRPPTNRVATCSVLMGFAGGWRGSWRPESPWLGVSARLTS"
                     /name="hypothetical protein"
     Typing          1070..1155
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="96.552"
                     /coverage="95.0"
                     /evalue="9.38e-33"
     Typing          complement(1365..1473)
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="99.091"
                     /coverage="100.0"
                     /evalue="9.09e-49"
     Typing          complement(709..969)
                     /name="Col(MG828)"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="92.748"
                     /coverage="100.0"
                     /evalue="8.56e-103"
ORIGIN
        1 atgtttattg attcagaaaa acgactgaaa caactttcag atgaggcaaa gaaaaacacc
       61 gaggatctcg aagaagcaaa gaaaaattca aggtttacac aggtatcccc aaaaggttgg
      121 gaacgcgttc gagagctgct gaaggatagc caaggcatat cagcactgaa gctgtactca
      181 tttttagcgg agcatatcga tcctacgtgt ggcgctgtcg ttgcggatca gcaattccta
      241 gctgaaaaac ttggagttag cagaagcaca attattcgtt ggctcaatta cttagaatca
      301 aaaaatgcat tagttagaat ccccgttgct ggtaaggttt gtgcgtatgc cctcgatcca
      361 catgaagtct ggaagggata caacactacg aaaaaccatg cagcgtttgt cactaaaaca
      421 ctggtcaaca aagacggtga tattcagcgc cgaatcatgg ccatgttttc aaattgagct
      481 agcggcaggc ggacaatcag gggctacgtg ttaacgttct gaccatgatt gtctatcctg
      541 cattgctctt ttgccgcctc aaaatccttt gcgtgttttt gctccccgtt ctccagaaaa
      601 aaccgagccg ccacggttcc ggcagcgcct tgagcgctac cggaaaccgt ctggggagaa
      661 ccccagaccc ccatcgctgt aacaccgacg gtctacgacc acctaccaac cgtgtggcta
      721 cctgttccgt gctaatgggc tttgcagggg gctggcgcgg ttcctggcga cctgaaagcc
      781 cctggttagg ggtatcggcg cgcctgacct cctgaaaccc tctgtaagcg tttttcgcgc
      841 cttccatgcc ctggcgggca tctaaaaccc gtttcgtgcg tctgagagct tgtgagcgcg
      901 tttgaggggc tatctggcga ctcatccccg aaagaacaac aacgggatca ccgacaacat
      961 gcgagaggtg atcccgctcg ccgcaagtcg atgaccgagc gtagcgagcg aatcgacgag
     1021 gaagcggaag agaaccggaa accacattga gcacgtacgc actgatgcgg ggtgtcgggg
     1081 cgaagccctg accagatggc aattgtgata gcgtcgcgtg tgacggtatt acaattacac
     1141 atcctgtccc gatttctgag gcgttttaac ggtgaacgga cggcaaaaac atgatggagc
     1201 tgttgaacgt ggagagcgcg aaatcggaca aaaatcacgg ctgacgaggc ttgcagagga
     1261 gtaagccagt atacactccg ctagcgctac gtgactgggt cagggcttcg ccccgacacc
     1321 cccaaagggc gttgcgtttc acgcaacacc cttgcctaga atagatcttt tacgccgatt
     1381 tgtaagttgt tgttttttta gtgtgttttt tatttacctg tcgcatccag ggtgacacaa
     1441 cgttgtcgca tcctggatgc gacaacacgc aacaaggtgt tgcacggttg tgtcatgatg
     1501 gcttaaattt gaaccaacgt tagtgcatgg gattttcaga gggaaaaaat c
//
