LOCUS       MSTC01000055            2824 bp    DNA     linear   BCT 01-FEB-2017
DEFINITION  Lactobacillus rhamnosus strain AMC010 contig_61, whole genome
            shotgun sequence.
ACCESSION   MSTC01000055
VERSION     MSTC01000055.1
DBLINK      BioProject: PRJNA357881
            BioSample: SAMN06161582
KEYWORDS    WGS.
SOURCE      Lactobacillus rhamnosus
  ORGANISM  Lactobacillus rhamnosus
            Bacteria; Firmicutes; Bacilli; Lactobacillales; Lactobacillaceae;
            Lactobacillus.
REFERENCE   1  (bases 1 to 2824)
  AUTHORS   Arnold,J., Altermann,E., Thompson,A. and Azcarate-Peril,M.A.
  TITLE     Genome sequencing of stool bacterial isolates from healthy human
            infants
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 2824)
  AUTHORS   Arnold,J., Altermann,E., Thompson,A. and Azcarate-Peril,M.A.
  TITLE     Direct Submission
  JOURNAL   Submitted (03-JAN-2017) Cell Biology and Physiology, University of
            North Carolina at Chapel Hill, 109 Mason Farm Road, Chapel Hill, NC
            27599, USA
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Newbler v. 2.7; SPAdes v. 3.8
            Genome Representation             :: Full
            Expected Final Version            :: No
            Genome Coverage                   :: 30.0x
            Sequencing Technology             :: 454; IonTorrent
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 01/04/2017 12:39:01
            Annotation Pipeline               :: NCBI Prokaryotic Genome
            Annotation Method                 :: Best-placed reference protein
            Annotation Software revision      :: 4.0
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA;
            Genes (total)                     :: 3,230
            CDS (total)                       :: 3,171
            Genes (coding)                    :: 2,715
            CDS (coding)                      :: 2,715
            Genes (RNA)                       :: 59
            rRNAs                             :: 1, 1, 1 (5S, 16S, 23S)
            complete rRNAs                    :: 1, 1, 1 (5S, 16S, 23S)
            tRNAs                             :: 53
            ncRNAs                            :: 3
            Pseudo Genes (total)              :: 456
            Pseudo Genes (ambiguous residues) :: 3 of 456
            Pseudo Genes (frameshifted)       :: 384 of 456
            Pseudo Genes (incomplete)         :: 49 of 456
            Pseudo Genes (internal stop)      :: 44 of 456
            Pseudo Genes (multiple problems)  :: 22 of 456
            ##Genome-Annotation-Data-END##
            Bacteria and source DNA available from M. Andrea Azcarate-Peril,
            University of North Carolina at Chapel Hill.
            Annotation was added by the NCBI Prokaryotic Genome Annotation
            Pipeline (released 2013). Information about the Pipeline can be
            found here: https://www.ncbi.nlm.nih.gov/genome/annotation_prok/
            Annotation Pipeline
            set; GeneMarkS+
            repeat_region
            partial rRNAs                     ::
FEATURES             Location/Qualifiers
     source          1..2824
                     /organism="Lactobacillus rhamnosus"
                     /mol_type="genomic DNA"
                     /submitter_seqid="contig_61"
                     /strain="AMC010"
                     /isolation_source="infant stools"
                     /host="Homo sapiens"
                     /db_xref="taxon:47715"
                     /country="USA"
                     /collection_date="2011"
     gene            1..1881
                     /locus_tag="BVG98_07735"
     CDS             1..1881
                     /locus_tag="BVG98_07735"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_012807385.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="GH2"
                     /protein_id="ONG00400.1"
                     /translation="MQANLQWLDDPEVFRVNQLPAHSDHHYYHDTAEFKTGSRFIKSLN
                     GAWRFNFAKTPAERPVDFYQPDFDATDFDTIQVPGHIELAGYGQIQYINTLYPWEGKIY
                     RRPPYTLNQDQLTPGLFSDAADNTVGSYLKTFDLDDAFKGQRIIIQFQGVEEALYVWLN
                     GHFIGYAEDSFTPSEFDLTPYIQDQGNVLAVRVYKRSTAAFIEDQDMFRFSGIFRDVNI
                     LAEPASHITDLDIRPVPNANLKSGELNITTKVTGEPATLALTVKDHDGRVLTSQTQTGS
                     GSVTFDTMLFDQLHLWSPQTPYLYQLTIEVYDADHQLLEVVPYQFGFRTVELRDDKVIY
                     VNNKRLVINGVNRHEWNAHTGRVISMADMRADIQTMLANNINADRTCHYSDQLPWYQLC
                     DEAGIYLMAENNLESHGSWQKMGAIEPSYNVPGDNPHWLAAVIDRARSNYEWFKNHPSI
                     IFWSLGNESYAGEDIAAMQAFYKEHDDSRLVHYEGVVYTPELKDRISDVESRMYEKPQN
                     IVAYLEDNPTKPFLDCEYMHDMGNSLGGMQSYNDLIDKYPMYQGGFIWDFIDQALFVHD
                     PITDQDVLRYGGDFDERHSDYEFSGDGLMFADRTPKPAMQEVKYYYGLHK"
     gene            1865..2824
                     /locus_tag="BVG98_07740"
     CDS             1865..2824
                     /locus_tag="BVG98_07740"
                     /inference="COORDINATES: similar to AA
                     sequence:SwissProt:Q02604.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="beta-galactosidase"
                     /protein_id="ONG00401.1"
                     /translation="MAYTNNQLHVIYGDGSLGLQGANFHYLFSYERGGLESLVVNDKEW
                     LYRTPTPIFWRATTDNDHGSGFSVKSAQWYAADKFSTCQDIELTVDDQPVTPLPIAPLN
                     NKYTDHEIATKVSLAYHFVTTTVPSTIVTVTYTVTADGQINIATHYSGQSDLPELPAFG
                     LRFIMPTTATGFDYTGLSGETYPDRLAGATHGQFHVDSLPVTPYLVPQECGMHMQTEQV
                     TVTRSTTQNNADHDNTPFSLTFSQADAPFAFSCLPYTAAELENATHMEELPLARRTVLS
                     IYGAVRGVGGIDSWGTDVEAPYHILADQDIDFSFNIHF"
ORIGIN
        1 atgcaagcta atcttcaatg gttagatgac ccagaagtct tccgggtcaa ccaattacct
       61 gcacatagtg atcaccatta ttatcacgac acagcagaat tcaaaacggg tagtcgcttc
      121 atcaagagtc tcaatggcgc ttggcgtttt aacttcgcca agacaccggc tgaacgccca
      181 gttgattttt atcaacccga tttcgatgca accgactttg atacgattca agttcccggt
      241 catattgaac tagccggcta tggtcaaatt caatacatta acacgctata cccatgggaa
      301 ggtaaaattt atcgtcgccc accgtatacc ctcaatcaag atcaattaac accaggccta
      361 ttcagcgacg ctgcggacaa caccgtcggc tcgtacctca aaaccttcga tctcgacgat
      421 gcttttaaag ggcaacgtat tatcattcag ttccaagggg tagaagaagc cctgtacgtc
      481 tggttaaatg gccattttat tggctacgct gaagatagtt tcaccccttc agaatttgat
      541 ttgacgccgt atattcagga ccaaggtaac gttttagcgg ttcgggtcta caaacgcagt
      601 actgctgcct ttattgaaga ccaagatatg ttccgtttct ctggtatttt ccgtgacgtc
      661 aatatactgg cggagcctgc tagccatatt actgatttgg atatccgacc agttccaaat
      721 gccaatctca aaagtggtga gctcaacatc actactaaag taaccggcga accagccact
      781 ttagcgctga ccgttaaaga ccatgacggg cgagtactga cgagtcaaac gcaaaccggt
      841 agtggcagtg taacctttga tactatgtta ttcgaccaac tgcacttgtg gtcaccacaa
      901 acgccgtatc tctatcaatt gacaattgaa gtttacgatg ctgatcacca actcttggaa
      961 gtcgtcccat atcagtttgg gttccggacg gtcgagctgc gcgatgacaa agtcatttac
     1021 gtcaacaata aacggttggt gatcaacggg gttaaccggc acgaatggaa cgcccacacc
     1081 ggtcgcgtta tcagtatggc tgatatgcgc gctgatatcc aaaccatgtt agctaacaat
     1141 atcaatgccg atcggacctg ccattattct gatcaattac cttggtatca attatgtgac
     1201 gaggccggta tctacctaat ggccgaaaac aacctcgaat cgcacgggtc atggcaaaag
     1261 atgggggcta tcgagccttc ttacaatgtt cctggcgata atccacactg gttagcagcg
     1321 gtgatcgacc gggcccgttc aaactacgaa tggtttaaaa accacccatc gatcattttt
     1381 tggtcacttg gcaatgaatc gtatgctggc gaagatatcg cggcgatgca ggctttttat
     1441 aaagaacacg atgattcacg actcgtccac tacgaaggcg ttgtctacac accagaatta
     1501 aaagatcgca tttctgatgt tgaaagtcgg atgtacgaaa agccccaaaa tattgtagct
     1561 tacttggaag ataacccaac caaacctttc ctagattgtg aatatatgca tgacatgggg
     1621 aattctctgg gcggtatgca atcatataat gatttgatcg acaagtatcc aatgtatcaa
     1681 ggtggcttta tttgggactt tattgatcaa gcactcttcg ttcatgaccc aatcaccgac
     1741 caagacgtgc tccggtatgg cggtgatttc gacgaacgcc actccgatta tgaattctcc
     1801 ggtgacggct taatgtttgc cgaccggaca ccaaaaccag caatgcaaga ggtgaaatat
     1861 tattatggct tacacaaata atcaactaca cgttatttac ggcgacggga gtttaggact
     1921 acagggggct aatttccact acctctttag ctacgaacgt ggcggacttg aatcactcgt
     1981 cgtcaacgat aaagagtggc tctatcgtac acccacgccc atcttttggc gggcgacaac
     2041 cgataatgat cacggtagcg gcttttcagt caaatccgca cagtggtacg cggccgataa
     2101 gttctcaact tgtcaagata tcgaattgac ggttgacgac caaccagtca caccgttacc
     2161 aatcgcgcca ctcaataaca aatacacgga tcacgaaatc gctacgaaag tctctctggc
     2221 ttaccacttc gttaccacga ccgttcctag taccatcgtc acagtgactt atacggtgac
     2281 agcagacggt cagatcaata tcgccaccca ttatagcggt cagtctgatt tgccagagct
     2341 acccgcattt ggtctgcggt ttatcatgcc aactaccgcg accggcttcg actataccgg
     2401 tttgtccggt gagacttatc ctgaccggct ggctggcgca acacacgggc aattccacgt
     2461 tgacagtctg ccagtcacac catacttggt cccacaagaa tgcggcatgc acatgcaaac
     2521 tgaacaagtg acagtaacgc gatcaacaac acaaaataac gctgaccacg acaacacacc
     2581 attcagtttg acatttagcc aagccgatgc accattcgcc ttcagctgcc ttccctatac
     2641 cgctgctgaa ctagaaaacg caacacacat ggaagaatta ccattagcac ggcgaacggt
     2701 cttatcaatc tacggtgccg ttcgtggggt cggtggcatt gatagttggg gaacggacgt
     2761 agaagcccca tatcatatcc tcgctgatca agacattgac tttagcttta acattcattt
     2821 ctaa
//
