LOCUS       NC_018067               3897 bp    DNA     circular CON 01-JUL-2014
DEFINITION  Desulfosporosinus acidiphilus SJ4 plasmid pDESACI.02, complete
            sequence.
ACCESSION   NC_018067
VERSION     NC_018067.1  GI:391738065
DBLINK      BioProject: PRJNA156759
KEYWORDS    RefSeq; GSC:MIGS:2.1.
SOURCE      Desulfosporosinus acidiphilus SJ4
  ORGANISM  Desulfosporosinus acidiphilus SJ4
            Bacteria; Firmicutes; Clostridia; Clostridiales; Peptococcaceae;
            Desulfosporosinus.
REFERENCE   1  (bases 1 to 3897)
  AUTHORS   Huntemann,M., Wei,C.-L., Han,J., Detter,J.C., Han,C., Davenport,K.,
            Daligault,H., Erkkila,T., Gu,W., Munk,A.C.C., Teshima,H., Xu,Y.,
            Chain,P., Tapia,R., Chen,A., Krypides,N., Mavromatis,K.,
            Markowitz,V., Szeto,E., Ivanova,N., Mikhailova,N., Ovchinnikova,G.,
            Pagani,I., Pati,A., Goodwin,L., Peters,L., Pitluck,S., Woyke,T.,
            Pester,M., Spring,S., Ollivier,B., Rattei,T., Klenk,H.-P.,
            Wagner,M. and Loy,A.
  CONSRTM   US DOE Joint Genome Institute
  TITLE     Finished plasmid 2 of genome of Desulfosporosinus acidiphilus SJ4
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 3897)
  CONSRTM   NCBI Genome Project
  TITLE     Direct Submission
  JOURNAL   Submitted (15-JUN-2012) National Center for Biotechnology
            Information, NIH, Bethesda, MD 20894, USA
REFERENCE   3  (bases 1 to 3897)
  AUTHORS   Huntemann,M., Wei,C.-L., Han,J., Detter,J.C., Han,C., Davenport,K.,
            Daligault,H., Erkkila,T., Gu,W., Munk,A.C.C., Teshima,H., Xu,Y.,
            Chain,P., Tapia,R., Chen,A., Krypides,N., Mavromatis,K.,
            Markowitz,V., Szeto,E., Ivanova,N., Mikhailova,N., Ovchinnikova,G.,
            Pagani,I., Pati,A., Goodwin,L., Peters,L., Pitluck,S., Woyke,T.,
            Pester,M., Spring,S., Ollivier,B., Rattei,T., Klenk,H.-P.,
            Wagner,M. and Loy,A.
  CONSRTM   US DOE Joint Genome Institute
  TITLE     Direct Submission
  JOURNAL   Submitted (01-JUN-2012) US DOE Joint Genome Institute, 2800
            Mitchell Drive B310, Walnut Creek, CA 94598-1698, USA
COMMENT     PROVISIONAL REFSEQ: This record has not yet been subject to final
            NCBI review. The reference sequence is identical to CP003641.
            URL -- http://www.jgi.doe.gov
            JGI Project ID: 4092115
            Source DNA and Organism available from Alexander Loy
            (loy@microbial-ecology.net)
            Contacts: Alexander Loy (loy@microbial-ecology.net)
                      Tanja Woyke (microbe@cuba.jgi-psf.org)
            Whole genome sequencing and draft assembly at JGI-PGF
            Annotation by JGI-ORNL
            The JGI and collaborators endorse the principles for the
            distribution and use of large scale sequencing data adopted by the
            larger genome sequencing community and urge users of this data to
            follow them. It is our intention to publish the work of this
            project in a timely fashion and we welcome collaborative
            interaction on the project and analysis.
            (http://www.genome.gov/page.cfm?pageID=10506376).
            
            ##MIGS-Data-START##
            investigation_type  :: bacteria_archaea
            project_name        :: Desulfosporosinus acidiphilus SJ4, DSM 22704
            collection_date     :: 2010
            lat_lon             :: 45.888783 4.605968
            depth               :: Missing
            alt_elev            :: Missing
            country             :: France
            environment         :: Acid mine, Fresh water, Mud, Sea water, Soil
            num_replicons       :: 3
            ref_biomaterial     :: DSM 22704
            biotic_relationship :: Free living
            trophic_level       :: Missing
            rel_to_oxygen       :: Obligate anaerobe
            isol_growth_condt   :: Missing
            sequencing_meth     :: WGS
            assembly            :: Newbler v. 2.3 (pre-release), VELVET v.
                                   1.0.13, Parallel phrap v. 4.24 SPS
            finishing_strategy  :: Finished
            GOLD Stamp ID       :: Gi08592
            Funding Program     :: DOE-CSP 2010
            Gene Calling Method :: GenePrimp, Prodigal1.4
            Isolation Site      :: Acid mining effluent decantation pond;
                                   France, Chessy les Mines.
            Isolation Comments  :: isolated by Alazard et al.
            Cell Shape          :: Rod-shaped
            Motility            :: Motile
            Sporulation         :: Sporulating
            Temperature Range   :: Mesophile
            Temperature Optimum :: 37C
            Gram Staining       :: Gram-
            Diseases            :: None
            ##MIGS-Data-END##
            
            ##Genome-Assembly-Data-START##
            Finishing Goal           :: Finished
            Current Finishing Status :: Finished
            Assembly Method          :: Newbler v. 2.3 (pre-release), VELVET v.
                                        1.0.13, Parallel phrap v. 4.24 SPS
            Genome Coverage          :: 30x
            Sequencing Technology    :: 454/Illumina
            ##Genome-Assembly-Data-END##
            COMPLETENESS: full length.
FEATURES             Location/Qualifiers
     source          1..3897
                     /organism="Desulfosporosinus acidiphilus SJ4"
                     /mol_type="genomic DNA"
                     /strain="SJ4"
                     /isolation_source="acid mining effluent decantation pond"
                     /culture_collection="DSM:22704"
                     /db_xref="taxon:646529"
                     /plasmid="pDESACI.02"
                     /country="France: Chessy les Mines"
                     /lat_lon="45.8888 N 4.6060 E"
                     /collection_date="2010"
     gene            271..585
                     /locus_tag="Desaci_4800"
                     /note="IMG reference gene:2507129230"
                     /db_xref="GeneID:13084118"
     CDS             271..585
                     /locus_tag="Desaci_4800"
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="REF_jgi:Desaci_4800"
                     /protein_id="YP_006464450.1"
                     /db_xref="GI:391738066"
                     /db_xref="GeneID:13084118"
                     /translation="MRKSMMETLEEIQKKKQQLAEREKLIRNKISTMDRKERTRRLIQ
                     IGAIIESHLPVKSTYDAEALANYFGSHPDAFAEVAKYIEEKSPLIQAQSEEKKMTSKR
                     KI"
     misc_feature    289..>432
                     /locus_tag="Desaci_4800"
                     /note="Protein of unknown function (DUF3847); Region:
                     DUF3847; pfam12958"
                     /db_xref="CDD:205163"
     misc_feature    <403..>543
                     /locus_tag="Desaci_4800"
                     /note="TIM barrel proteins share a structurally conserved
                     phosphate binding motif and in general share an eight
                     beta/alpha closed barrel structure. Specific for this
                     family is the conserved phosphate binding site at the
                     edges of strands 7 and 8. The phosphate...; Region:
                     TIM_phosphate_binding; cl17186"
                     /db_xref="CDD:266538"
     gene            complement(801..980)
                     /locus_tag="Desaci_4801"
                     /note="IMG reference gene:2507129231"
                     /db_xref="GeneID:13084115"
     CDS             complement(801..980)
                     /locus_tag="Desaci_4801"
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="REF_jgi:Desaci_4801"
                     /protein_id="YP_006464451.1"
                     /db_xref="GI:391738067"
                     /db_xref="GeneID:13084115"
                     /translation="MTDEQIEHCIAQVDGSFAMEGMSLTEEDKKVLRRFAKGEITMEQ
                     VIASAREIYGHSNEK"
     misc_feature    complement(822..953)
                     /locus_tag="Desaci_4801"
                     /note="VbhA antitoxin and related proteins; Region:
                     VbhA_like; cd11586"
                     /db_xref="CDD:212155"
     misc_feature    complement(order(822..824,831..836,843..848,855..857,
                     876..878,885..887,897..899,906..947,951..953))
                     /locus_tag="Desaci_4801"
                     /note="FIC domain binding interface [polypeptide binding];
                     other site"
                     /db_xref="CDD:212155"
     gene            complement(985..1464)
                     /locus_tag="Desaci_4802"
                     /note="IMG reference gene:2507129232"
                     /db_xref="GeneID:13084116"
     CDS             complement(985..1464)
                     /locus_tag="Desaci_4802"
                     /codon_start=1
                     /transl_table=11
                     /product="Firmicute plasmid replication protein (RepL)"
                     /protein_id="REF_jgi:Desaci_4802"
                     /protein_id="YP_006464452.1"
                     /db_xref="GI:391738068"
                     /db_xref="InterPro:IPR008813"
                     /db_xref="InterPro:IPR011991"
                     /db_xref="GeneID:13084116"
                     /translation="MEIERVGKLSKNTITTEFDLETGEIKRQYAVVEIQRKQIPGGFF
                     MAMQEGFTYLAKLDLTGEQLKVLFYIMGKLDFENYILLQQKEVAEALNMRQPHVSRAF
                     VRLVEAGVIHEGPKVGKVKTYRLDPSFGWKGKGKNYVKEVNRLRLVRGGKHLSKKEN"
     misc_feature    complement(<1027..1311)
                     /locus_tag="Desaci_4802"
                     /note="Transcriptional regulators [Transcription]; Region:
                     MarR; COG1846"
                     /db_xref="CDD:224759"
     misc_feature    complement(<1129..1311)
                     /locus_tag="Desaci_4802"
                     /note="Arsenical Resistance Operon Repressor and similar
                     prokaryotic, metal regulated homodimeric repressors. ARSR
                     subfamily of helix-turn-helix bacterial transcription
                     regulatory proteins (winged helix topology). Includes
                     several proteins that appear to...; Region: HTH_ARSR;
                     cl17220"
                     /db_xref="CDD:266564"
     misc_feature    complement(order(1096..1104,1117..1125,1144..1149,
                     1153..1158,1165..1170,1174..1185))
                     /locus_tag="Desaci_4802"
                     /note="putative DNA binding site [nucleotide binding];
                     other site"
                     /db_xref="CDD:238042"
     gene            complement(2202..3887)
                     /locus_tag="Desaci_4803"
                     /note="IMG reference gene:2507129233"
                     /db_xref="GeneID:13084117"
     CDS             complement(2202..3887)
                     /locus_tag="Desaci_4803"
                     /note="PFAM: MobA/MobL family;
                     manually curated"
                     /codon_start=1
                     /transl_table=11
                     /product="MobA/MobL family protein"
                     /protein_id="REF_jgi:Desaci_4803"
                     /protein_id="YP_006464453.1"
                     /db_xref="GI:391738069"
                     /db_xref="InterPro:IPR005053"
                     /db_xref="GeneID:13084117"
                     /translation="MAIYHLSSQIIGRSGGKSSVASAAYRSGEKIQDEHIGQTFDYTK
                     KMGVDYKEILAPDHSPAWVQDRGQLWNQVELAERRKDAQLARELNIALPKELSKEQQI
                     ELIRSFTKEKFVDKGMVADITMHHLDGENPHAHVMLTTREIGPEGFGKKNREWNDREL
                     LKDWRKEWAERTNQALEKADISERIDHRSLKDQGIKNRLPQKHIGVHASAMEKRGIQT
                     ERGNQNRLILEINADLKSYDQDNAVYKQAEKQYQKAKSEADIHASKPTPVQPQPKPLG
                     PEEKEVSNEINTRDRNKAHEKPTPPIHEQTQPTTSFNQSFDEIIKGMETDGNTQSKAL
                     EPMEKEVGNGRNTLSVDDWKKEILQAKQVTVQPQQQPQEKTYQEIRADFDQARIEFGR
                     QQEAIDRLDSQLRSETFKLQKFDNYEKRIGEVEERLGKLSSFKPWQWNEKKALEQSKA
                     RLIKDKQADFGETERGHIVQRITQLHSEKRSKEKKLPDLEKRYKETKGTYDQRSAEIK
                     AMNRQRDFVKSKDLLERYQTGENISDKDKQLINSFSKELNIKKIRIESLDRAR"
     misc_feature    complement(3246..3839)
                     /locus_tag="Desaci_4803"
                     /note="MobA/MobL family; Region: MobA_MobL; pfam03389"
                     /db_xref="CDD:251918"
CONTIG      join(CP003641.1:1..3897)
ORIGIN      
        1 tcctttcgtg ctgagtgttt tattgaaatc caaaggattg aaatataaat cacgaagctt
       61 gcagggtgca gggatgcaat ccctgtcgca cacattgcgg agcaatgtat aagtgcgcct
      121 ttcggacttt cttcgttctg ctatgattgt actacgaggg catgagtagt gcaatcatag
      181 cagtccacga aaacgagcac taggattgtt atttgtgata taatcacaaa taacaatcct
      241 agatgcgaat gtttgagggg ggtgtcagtt atgcgtaaaa gcatgatgga aacactggaa
      301 gaaatccaaa aaaagaaaca gcaattagcc gaacgagaaa agctcattcg aaataaaatc
      361 tctaccatgg acaggaaaga gagaaccagg cggcttattc agatcggcgc gatcatagaa
      421 agtcatttgc ctgttaaaag tacctacgat gctgaagctc tggccaacta ttttggcagt
      481 catccagatg cctttgctga agtggcaaaa tatatcgagg aaaaatcacc ccttattcaa
      541 gcgcagagtg aagaaaagaa aatgacttct aagcgtaaaa tttagggcgt ggttcgttta
      601 taacgatgtg gcgaaggctt caataccccg gacaagcttt caaaggctta gaagggtgtt
      661 taaaagcctg tttataatta ttctaatgga cggtgatttc gtgtatatta cctagacgaa
      721 gaaacaccct ggtattaacc agggtgtcat ttgtccttat cgaatcttgg ctaaagaaac
      781 aaaagtttcg ttgcaacttt tcatttttcg ttgctatgac cgtaaatttc cctcgcactt
      841 gctatgacct gctccatagt gatttcacct ttagcaaacc gtctaagaac ctttttgtcc
      901 tcttccgtca gagacattcc ctccatggca aagctcccat ctacctgagc tatgcaatgc
      961 tcgatctgct catctgtcat ggctttaatt ctccttttta gaaagatgtt ttccccctct
     1021 tactaaccgc aatctgttga cctcttttac atagttttta cctttgcctt tccagccgaa
     1081 agacggatct aggcgataag ttttgacttt accaaccttc gggccttcat gaataactcc
     1141 tgcttcaaca agacggacaa aagctctaga aacgtgtggt tgcctcatgt ttaaggcttc
     1201 agcaacttct ttttgctgaa gcagaatata attttcaaag tccaatttcc ccatgatata
     1261 aaataaaact ttgagttgtt ctccagttaa atcaagtttc gctagatatg taaatccctc
     1321 ttgcatcgcc ataaaaaaac ctcccggtat ttgttttctc tggatttcta caacggcata
     1381 ctgtctttta atctcacctg tttctaaatc gaactcagtt gtaattgtat ttttactgag
     1441 tttccccacc ctttcaattt ccatttttca acctcacttt catataccat tattggtata
     1501 caacatacca tatttggtat atgaagacaa gctctaacac ttgcaattcc tcactttttt
     1561 taccctccct tatgtctatg tataaaatat agtcgttttt ccgtcgtttt ttcacttctc
     1621 aacttccatt tatgtaaatt tatggtatgc aattttaccc ttatttttct ctttccaact
     1681 ggaaaaaaaa gtacgccctg cgaacagggc gttgcatgta ttaaaatttc gggtcagggg
     1741 aaacgaagac cgaagacgct cggcgctagc caaggggaag tcccttttgc tgtggggagg
     1801 gaattttggg tcaaagggac gttccccgtc cttcagctta ttggttcgtg gcacgtgtca
     1861 atgggatgat gacgagcata tcctcgggct tacgccctgc ggtatccctc gcatcaccct
     1921 tgacacttct caaaggctcg ttaacttacc atgtccaatt tacggaaatt cggacttgaa
     1981 aatgcgccct tttctgcctg acttccccct tagcgaccgt tacccaagac ccaaaagaat
     2041 tacccagtgc aagggtccaa gaacaaattt tcgtcgagaa aatttttccc cttgcgcggt
     2101 tgagctgggt acaattcgat gcggggggag gtcgttctcc cccttggcat atattacgaa
     2161 atcacagtcc acttttccta atttctgtaa attggatgcc tttatctcgc tcgatctagg
     2221 ctctctatgc ggattttttt aatgttcagt tccttggaga aagaatttat taactgctta
     2281 tccttgtcag aaatattctc gccggtctga taccgctcta aaaggtcttt gctcttgacg
     2341 aaatcccttt gtcggttcat ggcctttatc tctgccgagc gttgatcgta agtgcctttt
     2401 gtctccttat agcgtttttc taagtcaggc agcttcttct ctttcgatct cttttcactg
     2461 tgcagctgcg tgatgcgctg cacaatgtgt cctcgctccg tttctccaaa atcagcttgc
     2521 ttgtccttaa tcaatctcgc cttgctttgt tccagggctt ttttctcatt ccattgccat
     2581 ggcttgaaac tacttagctt tcctaatctc tcttcaacct cgccgatccg cttctcatag
     2641 ttgtcaaact tttgcagttt gaaagtctct gaacgtagct gactatcaag tctatcaatc
     2701 gcttcttgtt gtctgccaaa ttctatcctg gcctggtcga agtctgctct tatctcctgg
     2761 taggtctttt cctggggttg ttgttgcggt tgtactgtga cctgttttgc ctgtaaaatt
     2821 tcctttttcc aatcgtcaac agaaagtgtg tttcttccgt taccaacttc cttttccatc
     2881 ggctccaacg cttttgattg cgtgtttccg tccgtttcca tgcctttgat aatctcatca
     2941 aaactttgat taaagctcgt tgttggttgt gtctgctcgt ggatcggcgg ggttggtttc
     3001 tcatgcgctt tattcctatc ccgagtattt atttcgttgc tgacttcttt ttcttctggc
     3061 cccaatggtt ttggttgggg ttgtactgga gttggcttgc ttgcatgtat gtctgcttca
     3121 ctcttagctt tttgatattg cttttcagcc tgtttgtata ctgcattatc ttgatcgtac
     3181 gattttaaat ctgcgttgat ctccaggatg agcctgtttt gatttccgcg ctcagtctga
     3241 atgccacgct tttccatggc actggcatga acaccaatgt gtttttgcgg tagtcggttt
     3301 ttaattcctt gatcttttag gcttcgatgg tcgatgcgct ctgaaatatc tgctttctca
     3361 agtgcttggt ttgtccgttc tgcccattcc ttgcgccaat ctttaagcag ttcccgatca
     3421 ttccactctc gatttttctt gccaaatcct tcaggtccga tttccctggt ggttagcatg
     3481 acatgagcat gagggttttc accgtctagg tggtgcatgg tgatgtcggc aaccatgcct
     3541 ttatccacga atttctcttt ggtaaaactc cggattagct caatctgctg ttctttgctg
     3601 agttccttgg gtaaggcaat atttaactcc ctggctagtt gggcatcttt cctacgttca
     3661 gccagttcca cttggttcca tagttgccct cgatcttgca cccaggccgg ggaatggtcg
     3721 ggagcaagaa tttctttgta atccacgccc attttcttgg tgtagtcgaa ggtttgcccg
     3781 atatgttcat cttgtatttt ttcaccagaa cggtaagcgg cacttgctac cgaacttttc
     3841 cctcctgaac gtcctattat ttgcgaagac aaatgataga tagccatgct ctcaccg
//
