LOCUS CP002350 4916 bp DNA circular BCT 25-JUL-2016
DEFINITION Marivirga tractuosa DSM 4126 plasmid pFTRAC01, complete sequence.
ACCESSION CP002350
VERSION CP002350.1
DBLINK BioProject: PRJNA37901
BioSample: SAMN00138949
KEYWORDS GSC:MIGS:2.1.
SOURCE Marivirga tractuosa DSM 4126
ORGANISM Marivirga tractuosa DSM 4126
Bacteria; Bacteroidota; Cytophagia; Cytophagales; Marivirgaceae;
Marivirga.
REFERENCE 1 (bases 1 to 4916)
AUTHORS Pagani,I., Chertkov,O., Lapidus,A., Lucas,S., Del Rio,T.G.,
Tice,H., Copeland,A., Cheng,J.F., Nolan,M., Saunders,E.,
Pitluck,S., Held,B., Goodwin,L., Liolios,K., Ovchinikova,G.,
Ivanova,N., Mavromatis,K., Pati,A., Chen,A., Palaniappan,K.,
Land,M., Hauser,L., Jeffries,C.D., Detter,J.C., Han,C., Tapia,R.,
Ngatchou-Djao,O.D., Rohde,M., Goker,M., Spring,S., Sikorski,J.,
Woyke,T., Bristow,J., Eisen,J.A., Markowitz,V., Hugenholtz,P.,
Klenk,H.P. and Kyrpides,N.C.
TITLE Complete genome sequence of Marivirga tractuosa type strain (H-43T)
JOURNAL Stand Genomic Sci 4 (2), 154-162 (2011)
PUBMED 21677852
REFERENCE 2 (bases 1 to 4916)
AUTHORS Lucas,S., Copeland,A., Lapidus,A., Bruce,D., Goodwin,L.,
Pitluck,S., Kyrpides,N., Mavromatis,K., Pagani,I., Ivanova,N.,
Ovchinnikova,G., Chertkov,O., Held,B., Detter,J.C., Han,C.,
Tapia,R., Land,M., Hauser,L., Markowitz,V., Cheng,J.-F.,
Hugenholtz,P., Woyke,T., Wu,D., Spring,S., Schroeder,M.,
Schneider,S., Klenk,H.-P. and Eisen,J.A.
CONSRTM US DOE Joint Genome Institute (JGI-PGF)
TITLE Direct Submission
JOURNAL Submitted (18-NOV-2010) US DOE Joint Genome Institute, 2800
Mitchell Drive, Walnut Creek, CA 94598-1698, USA
COMMENT URL -- http://www.jgi.doe.gov
JGI Project ID: 4085041
Source DNA and organism available from Hans-Peter Klenk at the
German Collection of Microorganisms and Cell Cultures (DSMZ)
(hans-peter.klenk@dsmz.de)
Contacts: Jonathan A. Eisen (jaeisen@ucdavis.edu)
David Bruce (microbe@cuba.jgi-psf.org)
Whole genome sequencing and draft assembly at JGI-PGF
Finishing done by JGI-LANL
Annotation by JGI-ORNL and JGI-PGF
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 :: Marivirga tractuosa Lewin H43, DSM 4126
collection_date :: Missing
lat_lon :: 12.250 109.199
depth :: Missing
alt_elev :: Missing
country :: Vietnam
environment :: Missing
num_replicons :: 2
ref_biomaterial :: DSM 4126, ATCC 23168, IFO 15989, NBRC 15989,
NCMB 1408
biotic_relationship :: Free living
trophic_level :: Missing
rel_to_oxygen :: Missing
isol_growth_condt :: 5360476
sequencing_meth :: WGS
assembly :: Newbler v. 2.3 (pre-release)
finishing_strategy :: Finished
GOLD Stamp ID :: Gi03940
Type Strain :: Yes
Greengenes ID :: 58628
Funding Program :: DOE-GEBA 2007
Gene Calling Method :: IMG/ER 2.8
Isolation Site :: beach sand from Nha Trang
Isolation Comments :: isolated by RA Lewin
Temperature Range :: Mesophile
Temperature Optimum :: 30C
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
Genome Coverage :: 30x
Sequencing Technology :: Illumina, 454
##Genome-Assembly-Data-END##
FEATURES Location/Qualifiers
source 1..4916
/organism="Marivirga tractuosa DSM 4126"
/mol_type="genomic DNA"
/strain="DSM 4126"
/isolation_source="beach sand"
/type_material="type strain of Marivirga tractuosa"
/db_xref="taxon:643867"
/plasmid="pFTRAC01"
/country="Viet Nam: Nha Trang"
/lat_lon="12.250 N 109.199 E"
/collected_by="RA Lewin"
gene 237..1217
/locus_tag="Ftrac_3801"
CDS 237..1217
/locus_tag="Ftrac_3801"
/note="InterPro IPR005094;
KEGG: sli:Slin_7038 relaxase/mobilization nuclease family
protein;
PFAM: Relaxase/mobilization nuclease family protein;
SPTR: Relaxase/mobilization nuclease family protein;
PFAM: Relaxase/Mobilisation nuclease domain"
/codon_start=1
/transl_table=11
/product="Relaxase/mobilization nuclease family protein"
/protein_id="ADR23767.1"
/translation="MPTVSNGKALAESLQPRASGRAPQACRDGKQPQPNSAQRERRGK
AKAFLPARLGADTRTFKQAKMIGKTGTGRSFGGLIEYLLDEKKEAEILAVDGVCDHDK
KTAIEDFNMMRKQLPTLGKAVWHSSISFAEGDNMSNEEMKEIASEFMQEMGLENTQYM
VVKHNDSKHQHLHIVANRVNYEGKAISDSHSKRKTVDRCEKIAKKHGLTNAKEQGNQR
KEAIKKTIYQGIDQGKDLAGIMKGVEKLGYTVQYNQAKTGKISGVSYKMEDKGIIFKA
SEIDRNLSYTKLLRHIEEHKEREKTKQKQQDKSKNISTKRSIDQSKGMSR"
gene 1214..1807
/locus_tag="Ftrac_3802"
CDS 1214..1807
/locus_tag="Ftrac_3802"
/note="KEGG: gga:419769 centrosomal protein 164kDa;
SPTR: SMC proteins Flexible Hinge Domain"
/codon_start=1
/transl_table=11
/product="hypothetical protein"
/protein_id="ADR23768.1"
/translation="MSNTIEIQLEAIADSLEKLEKQLKGKKEPKDHSADLETISRQIK
ALERLSIENANNAPEIDLSSLESKFEALNDKMDKLERSARHMQWLFPDLKATFWKFGV
AVKLFLWIAVIGLGIGFYSYYQKADRYEESATKYYFYKYSAYTMSEIDSLYKTHADRI
NFIVDSTQEARAKRSEIEARKKQLEEEEKSLNQKQSN"
gene 1816..2034
/locus_tag="Ftrac_3803"
CDS 1816..2034
/locus_tag="Ftrac_3803"
/note="KEGG: aga:AgaP_AGAP011062 AGAP011062-PA;
SPTR: AGAP011062-PA"
/codon_start=1
/transl_table=11
/product="hypothetical protein"
/protein_id="ADR23769.1"
/translation="MQGTRTKERVSVELTLYEVWEHYRRLAYDYDQEPRWHSDDNTTL
IESQKKALIAMKSLIEKELESDKFKEQK"
gene complement(2043..2258)
/locus_tag="Ftrac_3804"
CDS complement(2043..2258)
/locus_tag="Ftrac_3804"
/note="COGs: COG1724 periplasmic or secreted lipoprotein;
InterPro IPR012933;
KEGG: cyt:cce_2178 hypothetical protein;
PFAM: YcfA family protein;
SPTR: YcfA family protein;
PFAM: YcfA-like protein"
/codon_start=1
/transl_table=11
/product="YcfA family protein"
/protein_id="ADR23770.1"
/translation="MKAKDLIKELQKNGFELARSKGSHHIFKHSDGRRTTVPLHGGDM
PTGTYKAIIKQSGIPDPEKQKGKKKGK"
gene complement(2324..2542)
/locus_tag="Ftrac_3805"
CDS complement(2324..2542)
/locus_tag="Ftrac_3805"
/note="COGs: COG1598 conserved hypothetical protein;
InterPro IPR005357;
KEGG: pmo:Pmob_1308 hypothetical protein;
PFAM: Uncharacterised protein family UPF0150;
SPTR: Putative uncharacterized protein;
PFAM: Uncharacterised protein family (UPF0150)"
/codon_start=1
/transl_table=11
/product="Uncharacterized protein family UPF0150"
/protein_id="ADR23771.1"
/translation="MQTFRIVLHPEIEGGYTVTVPSLSGCITWGKDVQEARAMAKEAI
ELYLEDLQASGEPIPDDSQSLELSLTVA"
gene complement(2577..2765)
/locus_tag="Ftrac_3806"
CDS complement(2577..2765)
/locus_tag="Ftrac_3806"
/note="KEGG: eok:G2583_1235 hypothetical protein;
SPTR: Putative uncharacterized protein yccE"
/codon_start=1
/transl_table=11
/product="hypothetical protein"
/protein_id="ADR23772.1"
/translation="MRAKRVNIDGHDFAEVSQVERPELFREWIKGQNVPDIADFDGIY
WHDYLRYLDYLKWKEKQC"
gene complement(2762..3070)
/locus_tag="Ftrac_3807"
CDS complement(2762..3070)
/locus_tag="Ftrac_3807"
/note="KEGG: ddi:DDB_G0271832 hypothetical protein;
SPTR: Cell wall-binding protein associated
metalloendopeptidase"
/codon_start=1
/transl_table=11
/product="hypothetical protein"
/protein_id="ADR23773.1"
/translation="MTEKKRKELEALSFQDLEYLSEKGLKIWDRLTDAYTHIGLISSD
PGSSNPETDYYFAMHQDADNILREKVEKIFGEVPRTEKTIYESQKLWDYLDEKDKREK
"
gene complement(3078..4136)
/locus_tag="Ftrac_3808"
CDS complement(3078..4136)
/locus_tag="Ftrac_3808"
/note="InterPro IPR000525;
KEGG: cbf:CLI_A0012 RepB family protein;
PFAM: initiator RepB protein;
SPTR: RepB family protein;
PFAM: Initiator Replication protein"
/codon_start=1
/transl_table=11
/product="initiator RepB protein"
/protein_id="ADR23774.1"
/translation="MAHKDKRSPQISIPMEYPEKELKEIAKQHWNITFAKQKKVSVVA
KRIMDNVLGQIHDNDLTLKPFYQMHVSEVVNYSDSGSAYDITRKAFTDLASTSWLIQD
LEKKYFAPRHLLDTTKTEVKDGFETAYKDGMITIAINPVLEPYFVQVAHYTRYERGQL
KNFTSWYSVRIWEILSGFEDILQKGEKWYVSLEELRGWMDCEKKYKNNTKDLLYNIFK
EPLIELKGTKLEFDYDKVYAKGVKGRPPIIGLEFYLVNPQGLKPASKILEEWIEKTPE
QDREKKRRCIEKGREWKISDENLVKCLPIIKEAGAWKLYKQFSEKDNARGTEKKIQDK
KAFCNSAMLIAAGLKKPK"
BASE COUNT 1626 a 1027 c 924 g 1339 t
ORIGIN
1 aaaaccctcc taaaggagtg atttttaata cgcattcaac catcttgttt tgcgcccttc
61 ggttgcaaaa gggtagccca gaacaaagtt tgtgctatgg aaaaagagaa caacaaaggc
121 ggacggccac gagtggcagt ccagaagaaa aagcgaatta cccttaactg cacatcagca
181 gaatatcggg caatcaagag caaagccgaa aggtcaaact tgagcctttc cgactattgc
241 ctacggtcag caatggcaaa gcccttgccg aaagtttaca gccccgagcg agtggacgag
301 ctccgcaagc ttgcagggat ggcaaacaac ctcaaccaaa tagcgcacag cgtgaacgca
361 ggggaaaggc taaagctttc ctccctgcaa gacttggagc agatacgaga acttttaagc
421 aagctaaaat gataggaaag acaggcacag gcagaagctt cggaggactg atagaatacc
481 ttctggacga aaagaaggaa gcggagatcc tcgcagtcga tggagtttgc gaccatgaca
541 aaaaaacggc tattgaggat ttcaacatga tgcgaaaaca attgccaaca ctaggaaaag
601 cggtttggca cagctctatt tcctttgctg aaggagacaa catgagcaat gaagaaatga
661 aagaaattgc aagcgaattt atgcaggaaa tggggcttga aaatacgcaa tacatggttg
721 taaagcacaa cgacagcaag caccaacatt tacacattgt cgccaatcgg gtcaactatg
781 aaggcaaagc catatccgac agccacagca aacgaaagac agttgacaga tgcgaaaaaa
841 tagctaagaa acacggattg acgaacgcca aagagcaagg caaccaacgc aaagaagcca
901 tcaagaaaac catataccag ggcatcgacc aggggaagga tttagccggc atcatgaaag
961 gcgttgaaaa gttgggctat acagtccaat acaaccaagc gaaaacaggg aaaataagcg
1021 gtgtaagcta caaaatggaa gataaaggaa tcatattcaa ggcttctgaa atagaccgaa
1081 acctaagtta cactaagctt ttaaggcaca ttgaggaaca caaagagcga gaaaaaacca
1141 agcagaaaca acaggataaa tccaagaata ttagtacaaa acgaagtatt gaccaatcaa
1201 aaggaatgag ccgatgagta ataccataga aatacaactg gaagccattg cagacagctt
1261 agagaagttg gagaagcaac tgaaagggaa gaaagaaccg aaagaccaca gcgcagattt
1321 agaaactatt tcacgccaaa taaaggcttt agaaagactt tcaattgaaa acgctaacaa
1381 tgcacccgaa attgatttga gtagcttaga atcgaaattt gaagccttaa acgataaaat
1441 ggataagcta gaaaggtcag cccgacacat gcaatggctt tttcccgatt tgaaagccac
1501 cttttggaaa ttcggggtag ccgtcaaatt gtttctttgg attgccgtaa taggcttagg
1561 aattggtttt tacagctatt accaaaaggc ggacagatac gaggaatcag ccacaaaata
1621 ctatttttac aagtacagtg cctacacaat gagcgaaatt gacagccttt acaaaacaca
1681 tgctgacagg ataaatttca ttgtcgacag cacacaggaa gcaagagcca aaagatccga
1741 aatcgaagct agaaagaaac agcttgaaga ggaagaaaaa tcattaaacc aaaaacaatc
1801 aaattaacta tagaaatgca aggaacaaga acgaaagaaa gagtatccgt tgagcttacc
1861 ctatatgaag tatgggagca ttacagaaga ttagcatacg attacgacca agagccacga
1921 tggcacagcg atgataatac aacactcatt gaaagccaaa aaaaggcttt aatagctatg
1981 aagtcattaa ttgagaaaga acttgaaagc gataaattta aagaacagaa atagagggga
2041 tgttattttc cctttttctt tcccttttgt ttttcagggt ctggaatacc agattgtttg
2101 ataatcgctt tgtaagtacc tgtaggcata tccccaccat gcaaaggaac agttgtgcgc
2161 cttccgtcag aatgtttgaa aatatgatgg ctccctttgc ttctagcaag ttcaaagccg
2221 tttttttgaa gttccttgat taagtctttt gctttcataa cagtgtttct taataaatac
2281 tgtcaaagct tgaaaaagcc gatcagtatt cagaagacaa tttttaagcg actgttaatg
2341 agagttctag actttgacta tcgtcaggaa ttggctctcc cgaagcttgc agatcctcga
2401 gataaagttc aatagcttcc ttagccattg cccttgcttc ttggacatct ttcccccaag
2461 tgatacagcc agacaaggaa ggaacagtaa cggtatatcc tccctcaatc tcgggatgta
2521 ggactattct gaatgtttgc atagttcaaa tttaagcgtt tttattagac tttagttcag
2581 cattgttttt ctttccattt aagataatcc agatagcgca aatagtcgtg ccagtatatc
2641 ccgtcaaagt ctgcgatatc gggaacgttt tgccccttga tccattccct gaacagctca
2701 ggacgttcga cttggcttac ctcagcgaaa tcatgaccgt caatatttac ccttttagcc
2761 ctcatttttc ccttttgtct ttttcgtcta agtaatccca aagcttctga ctttcataaa
2821 tcgtcttttc tgttctagga acctcaccga atatcttttc tactttttca cgcaaaatat
2881 tatctgcatc ctgatgcatt gcaaaataat aatcagtctc tggattagaa gatccaggat
2941 cagagcttat caaaccaatg tgcgtataag catcagtaag cctatcccaa atctttaatc
3001 ctttttcact tagatattcc aaatcttgaa atgataatgc ttctagttct tttctttttt
3061 tctcggtcat ttccttctta ttttggtttc tttaagccag cagcaatcaa catagcacta
3121 ttgcaaaaag cctttttatc ttgtattttc ttttccgtac ctcttgcatt atccttttca
3181 gaaaattgct tatatagctt ccatgcgcct gcttctttaa tgataggcaa gcactttact
3241 agattttcat ctgatatttt ccattcacgc cccttttcaa tgcaccgtct tttcttttcc
3301 ctatcttgtt caggggtctt ttcaatccat tcctcgagta ttttagaagc aggtttcaac
3361 ccttgtggat tgactaaata gaattctaaa ccaattatag gcggcctccc tttaacccct
3421 ttggcataaa ctttatcata gtcaaattca agttttgtgc ctttcaattc aatcaaaggc
3481 tctttgaaaa tattataaag cagatccttt gtattgtttt tgtatttctt ctcacagtcc
3541 atccaacccc ttaattcttc aagcgaaaca taccattttt cccccttctg taatatatcc
3601 tcaaatcctg aaagaatctc ccagatacgc acagaatacc atgaagtaaa attctttaat
3661 tgacccctct catatcgagt ataatgagca acttgcacga aatatggctc taaaactgga
3721 ttgattgcta tagtgatcat tccgtcttta tatgctgttt caaaaccatc cttaacctct
3781 gtttttgtag tgtcaagcaa atgacgaggg gcaaaatatt ttttttctaa gtcttgaatg
3841 agccaagaag tacttgccaa atctgtaaaa gctttcctcg ttatatcata agcacttcca
3901 ctatcagagt aattaaccac ttctgaaacg tgcatttgat aaaagggctt taaagtaaga
3961 tcattatcat gaatttgacc taaaacatta tccattatcc gttttgccac cacagaaact
4021 ttcttctgtt tagcaaacgt aatgttccag tgttgcttag caatctcctt caactccttt
4081 tcagggtatt ccatcgggat ggaaatttgc ggacttcttt tgtctttatg agccatgcac
4141 aaacataata aaagtagttt aaaaaacaaa ctcaatataa gagccacaaa cctcccttta
4201 aataattact tcacgccact ccactccctt taactcacgc cacaaacctc cctttaatta
4261 gttttactcc ttatagtaac tatttagtaa atactactat ttagttatgc tatgaaaaac
4321 gaattaaaaa acgtctaaaa atttcattca agatgatgaa ataggaacga gtgcagtcca
4381 ttaaatcagg gtgcaaacca aaacaaaaac aaaagggaaa aaaagaaatg ggcaacgaag
4441 tgccaccatt tagaaaagga aaattgcgcg cggtttatat atgctaaagg tgtatataaa
4501 aaaggaagcc atcaggaccc ctcccgatgg ctcatttcaa ccaaaacctt agcaaagtca
4561 agagcttgac ttcggtaaga taagcttcaa aggtaatgta ttttcctcac ccctgaaaat
4621 gcaaagttaa ttccgaccat tcgggagcca gtcaaggttt cccttcggca gtcttcaaaa
4681 aaatctccac cctttgggta gtattttttc ttgcctgacc ttgcccgtcc cgaaggtgcg
4741 gagttaaggg gcatttaaga ggttgaggga aaaaggagtg ttcgcaatgg tggcattcca
4801 tagcgagcat cctgtttgtt caacggctct cacaaagctt gcaaatttcc ttgcatggca
4861 attcatttag cagtagcttt gtagagagag gaagcaagat gtgttaaatg cattaa
//