LOCUS NC_015699 7047 bp DNA circular BCT 24-JUN-2011
DEFINITION Lactobacillus reuteri SD2112 plasmid pLR580, complete sequence.
ACCESSION NC_015699
VERSION NC_015699.1 GI:338202351
DBLINK Project: 55357
BioProject: PRJNA55357
KEYWORDS .
SOURCE Lactobacillus reuteri SD2112
ORGANISM Lactobacillus reuteri SD2112
Bacteria; Firmicutes; Bacilli; Lactobacillales; Lactobacillaceae;
Lactobacillus.
REFERENCE 1 (bases 1 to 7047)
CONSRTM NCBI Genome Project
TITLE Direct Submission
JOURNAL Submitted (23-JUN-2011) National Center for Biotechnology
Information, NIH, Bethesda, MD 20894, USA
REFERENCE 2 (bases 1 to 7047)
AUTHORS Muzny,D., Qin,X., Buhay,C., Dugan-Rocha,S., Ding,Y., Chen,G.,
Hawes,A., Holder,M., Jhangiani,S., Johnson,A., Khan,Z., Li,Z.,
Liu,W., Liu,X., Perez,L., Shen,H., Wang,Q., Watt,J., Xi,L., Xin,Y.,
Zhou,J., Deng,J., Jiang,H., Liu,Y., Qu,J., Song,X.-Z., Zhang,L.,
Villasana,D., Johnson,A., Liu,J., Liyanage,D., Lorensuhewa,L.,
Robinson,T., Song,A., Song,B.-B., Dinh,H., Thornton,R., Coyle,M.,
Francisco,L., Jackson,L., Javaid,M., Korchina,V., Kovar,C.,
Mata,R., Mathew,T., Ngo,R., Nguyen,L., Nguyen,N., Okwuonu,G.,
Ongeri,F., Pham,C., Simmons,D., Wilczek-Boney,K., Hale,W.,
Jakkamsetti,A., Pham,P., Ruth,R., San Lucas,F., Warren,J.,
Zhang,J., Zhao,Z., Zhou,C., Zhu,D., Lee,S., Bess,C.,
Blankenburg,K., Forbes,L., Fu,Q., Gubbala,S., Hirani,K.,
Jayaseelan,J.C., Lara,F., Munidasa,M., Palculict,T., Patil,S.,
Pu,L.-L., Saada,N., Tang,L., Weissenberger,G., Zhu,Y., Hemphill,L.,
Shang,Y., Youmans,B., Ayvaz,T., Ross,M., Santibanez,J., Aqrawi,P.,
Gross,S., Joshi,V., Fowler,G., Nazareth,L., Reid,J., Worley,K.,
Petrosino,J., Highlander,S. and Gibbs,R.
TITLE Direct Submission
JOURNAL Submitted (06-JUN-2011) Human Genome Sequencing Center, Baylor
College of Medicine, One Baylor Plaza, Houston, TX 77030, USA
COMMENT PROVISIONAL REFSEQ: This record has not yet been subject to final
NCBI review. The reference sequence is identical to CP002848.
Lactobacillus reuteri SD2112
Strain source, body site: Gastrointestinal tract
Inquiries should be directed to microbe@hgsc.bcm.tmc.edu
This is a reference genome for the Human Microbiome Project. This
project is co-owned with the Human Microbiome Project DACC. Source
DNA provided by Versalovic, J. (Department of Pathology, Texas
Children's Hospital, 1102 Bates Avenue, Suite 830, Feigin Center,
Houston, TX, 77030, USA). Funded by by 'Genomes and Genetics at
BCM-HGSC' (U54 HG003273).
##Genome-Assembly-Data-START##
Finishing Goal :: Finished
Current Finishing Status :: Finished
Assembly Method :: Newbler Assembler v. 2.3.10192009
Genome Coverage :: 63x
Sequencing Technology :: 454
##Genome-Assembly-Data-END##
COMPLETENESS: full length.
FEATURES Location/Qualifiers
source 1..7047
/organism="Lactobacillus reuteri SD2112"
/mol_type="genomic DNA"
/strain="SD2112"
/culture_collection="ATCC:55730"
/db_xref="HMP:00538"
/db_xref="HOMD:tax_818"
/db_xref="taxon:491077"
/plasmid="pLR580"
gene complement(join(6394..7047,1..1485))
/locus_tag="HMPREF0538_22304"
/db_xref="GeneID:10865984"
CDS complement(join(6394..7047,1..1485))
/locus_tag="HMPREF0538_22304"
/codon_start=1
/transl_table=11
/product="replication protein"
/protein_id="YP_004650765.1"
/db_xref="GI:338202352"
/db_xref="GeneID:10865984"
/translation="MAIKIKDSSKTLSGKFDTYIKSQYKFLSLVHAGAINGLLTVTKP
KDNKHKHNFKHQPILSDNGDLGYEQYYHLDMTDNVVIPHVTMVYSNGANTAGRVVYID
NTRIAHSPLRELNEASKRTQTMVKVLDTAKQLQQIRSGSSEFCSYMTTLTIPNCNKDE
LDQVVGSMSTRITAVIKALQDGYRNGNGLRLVDHNGRPVQILGAIVKIEITINQVKLK
TCDSQGIFHPHIHIVLITANELALGPSRRILFHYWSNKNSDMILSRKAFNFKKAYSKN
QMDSDDSTSIVAEATKYATKPTMYKLLPTIKDSNNLTSDDQFKLEIFCEVFKTIKGRQ
LSRSYGLIRDATGFVNFLKNGIMVKYRGNNPMHGKHERISIFDAFMFGNYNDNKQIHV
PDIMTTRNELIPGGNFNQVDLSDDELLYANKGLLSGATWELPDNIKWPSNNQKADEYK
ELLTRFGFVQPGLGNIIDQLQSWIQTIDQRKDKVLHTVLDASERSFQYNDLLHKGEDV
RRLVRILEDVCDQYGDDTTTLTTHDYSQIYRDVDLMQVMDAHHATLHYDSYGKPDDVT
FDEPDVERRLVASYKKHDDVRFMSATAFLPREILIEYGVWLKHTPSEFIDNLASYTSH
APELEIDTVSKMDAKTTQKWINKAFNVSSSNGPQIDFHTMFTSAKMSQVQADNNDDLD
HLFDDGVGDDDDDDNTEINSLSDVFPDLKW"
misc_feature complement(454..1047)
/locus_tag="HMPREF0538_22304"
/note="Replication protein; Region: Rep_1; cl02412"
/db_xref="CDD:121293"
gene complement(1978..2475)
/locus_tag="HMPREF0538_22305"
/db_xref="GeneID:10865978"
CDS complement(1978..2475)
/locus_tag="HMPREF0538_22305"
/codon_start=1
/transl_table=11
/product="hypothetical protein"
/protein_id="YP_004650766.1"
/db_xref="GI:338202353"
/db_xref="GeneID:10865978"
/translation="MDRHVWQRLATVVLAALVIFSINTFSPVGNGDGLGITTIQAKKK
THQLPNLLDQQIAILVGLDINPNWVREQSAADSLIYGIVKPDDTVPAGINEDYSYLVT
SNRDKEISLFFKADKKKVTIKYANHGEKLHTKTVPLSRLVEQSYRTKKQRQQVNKYAS
ALRTE"
gene complement(2965..3522)
/locus_tag="HMPREF0538_22306"
/db_xref="GeneID:10865983"
CDS complement(2965..3522)
/locus_tag="HMPREF0538_22306"
/codon_start=1
/transl_table=11
/product="hypothetical protein"
/protein_id="YP_004650767.1"
/db_xref="GI:338202354"
/db_xref="GeneID:10865983"
/translation="MIFDGPWDDDERYILDDRQLYFLKQAGERLSSQDFQDLKQENDD
ELGFYSCTVDGELDRKKLPSSFLEVKVRVGRKLRSQIKQMVDDPDKLPEFGFRDYRGM
TVTDCEYLSLLELPDEWLSNYLRYFMNYSGIHSDDVYVAASGRFKLVEIDNWKNVVPD
YSDFSTVDLLQCDMNFLKAYIASIE"
gene complement(3560..4057)
/locus_tag="HMPREF0538_22307"
/db_xref="GeneID:10865979"
CDS complement(3560..4057)
/locus_tag="HMPREF0538_22307"
/codon_start=1
/transl_table=11
/product="hypothetical protein"
/protein_id="YP_004650768.1"
/db_xref="GI:338202355"
/db_xref="GeneID:10865979"
/translation="MNTKNQVKTKTKTYTTSELASLCGVTVGSISVLIKKQNLKPVKT
GQNNAKYYDAGVLKQLRLHYAKSKPKRDKTNNTQDLRTQLAVAQSENQLLRDQLESAK
STIEILRNELKIKNSQIDKLQDLTNQAQQLDLATHTQHQELLEQKSQPTDEPTKHKHG
IFNWF"
misc_feature complement(3872..4009)
/locus_tag="HMPREF0538_22307"
/note="Helix-Turn-Helix DNA binding domain of
transcription regulators from the MerR superfamily;
Region: HTH_MerR-SF; cl02600"
/db_xref="CDD:243103"
misc_feature complement(order(3908..3916,3965..3967,4007..4009))
/locus_tag="HMPREF0538_22307"
/note="DNA binding residues [nucleotide binding]"
/db_xref="CDD:133389"
gene complement(4075..5568)
/locus_tag="HMPREF0538_22308"
/db_xref="GeneID:10865980"
CDS complement(4075..5568)
/locus_tag="HMPREF0538_22308"
/codon_start=1
/transl_table=11
/product="hypothetical protein"
/protein_id="YP_004650769.1"
/db_xref="GI:338202356"
/db_xref="GeneID:10865980"
/translation="MSSITFENSFQGSFRDMGESHISIHSGQHDNMVDGEDPIIELRG
NSVSDSSWALMIAKATSQGVVSPKDWPEYNRKIPDKKRRKKDYNDYLLTLCSKPIKRL
KATQTAKNTPKAQRTKISQELASVDRDHVLNDGSLWYVAKVDDRPDNVGKKEWREFEV
EALTRFDKDPTYRMLNPGTYRSEIHLDERGEIHKQDLAVWFRPDSRGRVQYSKTSTIQ
DVLLKLYGGNKDELDRRVSLVSEITNNIDKTPGQERADTKLWRSVKSNQQPTRMLHAG
KRYNSAMITLWRYENVRILRDTALQVAKERGIDYQVSDRYETDGVHRSRDIYMQHQQA
KDSLHGEQLKKKRAQYATGKLIDAINDIYRDTLKRDPGASESPLEQTNKIINHLNEIK
EESKRIQRENDRQQQQLDQLKRQNELMKRQQFRWFELRLLIVNIIEKLWHLMFDRDLQ
HDFTNDHQKWRDSMTNQVNKEMYNQLDQDQQKQLNAPNQSNGHNLER"
gene complement(5877..6131)
/locus_tag="HMPREF0538_22309"
/db_xref="GeneID:10865981"
CDS complement(5877..6131)
/locus_tag="HMPREF0538_22309"
/codon_start=1
/transl_table=11
/product="hypothetical protein"
/protein_id="YP_004650770.1"
/db_xref="GI:338202357"
/db_xref="GeneID:10865981"
/translation="MKIFKKKCVLLEAAGRPLGERKLCKFYLHNIIAWYNRYVKSETF
HENSLSFSIDDTLKCADFTGFFNFDGFTIEPRFDFILSLD"
gene 6145..6276
/locus_tag="HMPREF0538_22310"
/db_xref="GeneID:10865982"
CDS 6145..6276
/locus_tag="HMPREF0538_22310"
/codon_start=1
/transl_table=11
/product="hypothetical protein"
/protein_id="YP_004650771.1"
/db_xref="GI:338202358"
/db_xref="GeneID:10865982"
/translation="MQVQIVTKIGPVYFPLTENKTASNGSTFRQKLTSKVGHFSVKK"
ORIGIN
1 gctacgttca cttgcgtcaa ggacagtatg taaaaccttg tctttccgtt ggtcaatcgt
61 ctgaatccaa ctttgaagtt ggtcaatgat attacctagc cccggttgaa caaatccaaa
121 ccgagttagt aattccttgt attcatctgc tttctggtta ttagacggcc atttaatgtt
181 atccggtaac tcccaagttg ctcctgataa taaacccttg ttagcatata gcaattcatc
241 atcagacaag tccacctgat taaaattacc cccagggatt agctcatttc gagttgtcat
301 aatgtccggc acatgaattt gtttattatc gttgtaattt ccgaacataa acgcatcaaa
361 gattgagatt cgttcatgct ttccgtgcat agggttatta ccacgatatt taaccataat
421 cccattcttc aaaaagttca caaatccagt tgcatcacga atcaaaccat aggaccttga
481 cagttgccgg cctttaatgg tcttaaagac ttcacaaaag atttctagtt tgaattggtc
541 atctgacgtt aaattattag aatctttaat cgttggtaac aacttataca tcgttggctt
601 cgtggcgtac ttcgtggctt cggccacaat actagtacta tcgtcactat ccatttggtt
661 tttagaatat gccttcttaa aattgaacgc cttacggctc aaaatcatat cggaattctt
721 gttactccaa taatgaaaca gaatccggcg acttggcccc aatgctaatt cgttggcagt
781 aatcaaaaca atgtgaatat gcgggtggaa aatcccttgt gaatcacagg ttttcagctt
841 aacctgatta attgtgattt cgatttttac aatcgctccc aggatctgaa ccggccggcc
901 attgtggtca actagccgga gaccattacc attacgatag ccatcttgta aagccttgat
961 aacagcagta atacgagtag acatactacc aacaacctgg tcaagttcat ctttgttaca
1021 atttggaatg gttagagttg tcatgtacga acaaaattca ctactaccac tacggatttg
1081 ttgcaattgc ttagcagtat ccaaaacctt aaccatagtt tgtgttcgtt ttgaggcttc
1141 gttgagttcc cgcaatggac tatgtgcaat ccgagtgtta tcaatataaa ccacacggcc
1201 cgccgtatta gctccattgg aataaaccat cgtaacatgt ggaattacaa cattatccgt
1261 catatccaaa tggtaatatt gttcatatcc taggtcgcca ttatcggaca aaatcggttg
1321 gtgcttgaag ttatgtttat gcttgttatc tttgggtttt gtaaccgtta ataatccatt
1381 gattgcccca gcatgaacca gagacaaaaa cttatattgt gatttaatat atgtatcaaa
1441 cttacccgat aatgttttgc ttgaatcttt aattttaatt gccataatta aaagtccctc
1501 ccaaacaccg aatcagaggg tatttagaaa ggaccgttat tagtttcata gtcaatttta
1561 taattaacac ggttgcaatt cttagtaatc tactatataa taatagtcga taacttaata
1621 accactgatc agcacccacc agataagtcg ccaaactttt tacatctgtt aggtgcttaa
1681 gtgttttaat aagtatattt tattgaattt tagatgagtt gaagttgaga aattgctcaa
1741 ttttcaactc tttttttatt ataaccgatc atcaaaccac tgacaagtcc cgttctgacg
1801 ctatctcacg caatggcaca attagcaagg cttttcacaa aattaagaaa tttttagatc
1861 cattagaagc tctctagcgt aatttgaacg tataaccata cgataattaa aataaaaaat
1921 aattaagcta tgtaaagttt cagatattca taaccctaac ttgcggtgcc cgatcaacta
1981 ctccgtccgt agcgcgctgg cgtacttatt cacctgttgg cgttgtttct tggtccggta
2041 cgattgctca accagccggg acagcgggac ggtcttagta tgcagctttt cgccgtggtt
2101 agcatacttg atcgtcacct tcttcttatc cgccttaaag aatagggaga tctccttgtc
2161 gcggttacta gtaaccaggt aactatagtc ttcattgatc cccgctggaa ccgtgtcgtc
2221 aggtttcaca ataccataga tcaagctgtc tgcggcactt tgctccctaa cccagttggg
2281 attaatatcc agacccacca aaatggcaat ctgctggtcc agcaggtttg gcagttgatg
2341 ggtctttttc ttggcctgaa tggtggtgat accgagcccg tcgccattgc ctactggtga
2401 gaaagtattg atgctgaaaa ttaccaaggc tgccagtacc acggtagcaa gcctttgcca
2461 aacgtgtcga tccaacaatg tctcctcccc tgcctgaact caagaatagt aatattgatt
2521 agaatataat accatattta ggaattaaaa taaaattgtc ctagagggca atctagagaa
2581 cgtcaaatca cgaaaaccct tgatattagc gggtttccct attttagagg tcaaatttga
2641 aaacccttga taataaaggg atttcacaat tctttatttt tgcactaaaa aatgaaagtt
2701 ggatctgaca ctaatctgaa attttcatta tggttgtagt gtggttctga ttaatggagg
2761 gagagccggg ctctctccct ccaaacctcc ctctttgtga caaacatctg actgaacgtc
2821 tggatacgtt gggggagtag gctgtcacga ttattcggac tgtatcaaga gccaggctga
2881 aatctagtgt aatcccttga tatgcaaggc tttacaaggt tttgcctaaa aaaagacttg
2941 agtataacct caagtctttt tattttattc aattgaagca atataagcct tcaaaaaatt
3001 catatcgcac tgtaataagt ctacagtact aaaatctgaa taatctggca caacgttctt
3061 ccaattatca atttcaacta acttaaagcg tccagatgcc gcaacataaa catcatcact
3121 atgaatacca gaataattca taaaataacg taaataatta ctcaaccact cgtcaggtaa
3181 ttcaagcaat gataagtatt cacaatcagt aacagtcatg ccccgataat ccctaaaacc
3241 aaactcaggc aatttatcgg ggtcatccac catttgttta atttgagaac gtaactttcg
3301 gccaacccgc actttgactt ccaaaaagct tgatggaagt ttcttccgat cgagttcacc
3361 atcaacagtg caactataaa aacctagttc atcatcgttt tcctgtttta gatcttgaaa
3421 atcctgtgaa cttaaccgtt caccagcttg tttcaggaaa tacaattgcc gatcatctaa
3481 aatataacgt tcatcatcat cccaaggacc atcaaaaatc attattactt atcctcctta
3541 ttcttatcta caatagtttc taaaaccagt tgaaaattcc atgcttatgt ttggttggtt
3601 cgtctgttgg ttgtgacttc tgttctagca actcctgatg ttgggtatga gttgccaagt
3661 caagttgttg agcttgattc gttaaatctt gcagcttatc aatttgcgaa ttcttaattt
3721 tcaactcatt tcgcaagatt tcaattgtcg atttggcaga ttcaagttga tcacgaagta
3781 actgattttc agattgggca actgccaatt gtgttctcaa atcttgcgtg ttgttagttt
3841 tatcacgttt tggttttgat tttgcgtaat gcaaccgtaa ttgtttcaaa acacctgcat
3901 cataatattt tgcgttgttt tgtccagttt ttaccggttt taagttttgc tttttgatta
3961 aaaccgaaat tgagccaaca gtcacgccac aaaggcttgc caactctgac gttgtatagg
4021 ttttagtttt tgtttttact tggtttttag tattcatagt tcaaaacctc agttctatcg
4081 ttctagattg tggccgttgg actgattagg tgcattaagt tgcttttgtt ggtcttggtc
4141 aagttggtta tacatttctt tgttcacttg attagtcata gaatcacgcc acttctggtg
4201 gtcgttggtg aaatcatgtt gtaaatcacg atcaaacatc aaatgccata atttttcgat
4261 aatgttgaca attaacagcc gaagttcaaa ccatcggaat tgttgacgtt tcattagttc
4321 attctgacgt ttgagttggt ctagttgctg ttgttgacgg tcattctctc tctggattcg
4381 cttggactct tctttgattt cattcagatg gttaataatt ttgttagttt gctccagtgg
4441 gctctcagag gcccctggat cacgtttaag ggtgtcacgg tagatatcat taatcgcatc
4501 tataagcttt ccagtggcgt actgtgcccg cttcttcttc aattgctcac catggagtga
4561 atcttttgcc tgttgatgtt gcatataaat gtcacggctc cgatgaaccc catcggtttc
4621 ataacgatca ctaacctgat aatcaatacc ccgctccttg gctacttgca gagcagtatc
4681 acgcagtata cgtacattct catagcgcca taaggtaatc atggccgaat tataccgctt
4741 accagcatgt aacattctag ttggttgctg attggattta acagaacgcc ataatttggt
4801 atcggcccgc tcttggcctg gagttttgtc gatgttgttg gtaatctctg acaccagact
4861 aacacggcga tctagctcat ctttgttacc accatacaac tttagaagca catcttgaat
4921 ggttgaggtc ttgctatact gcacacggcc tcgactatct ggacgaaacc acacagccaa
4981 atcttgtttg tggatttcac cacgttcgtc caaatggatt tcagaacggt aagttccagg
5041 attgagcatt cgataagttg gatccttatc gaatcgagtt agtgcttcaa cttcaaactc
5101 acgccattcc tttttaccaa cattatctgg tcgatcatct actttagcca cgtaccataa
5161 cgacccatca ttgagtacat ggtcacgatc aacggaagct agttcttgac tgattttagt
5221 tcgttgagcc ttaggcgtat tctttgctgt ttgagttgcc ttcaatcgct taattggttt
5281 ggaacaaagt gttaaaagat aatcgttgta gtccttctta cgccgtttct tatccggaat
5341 tttccggtta tattcaggcc aatctttggg actaaccacc ccttgactag tcgcctttgc
5401 tatcatcaaa gcccagcttg aatcactgac cgagttacca cgtaattcaa taattggatc
5461 ctcaccgtct accatgttgt catgttgtcc ggaatgaatc gaaatatggc tctctcccat
5521 gtcacggaac gaaccttgaa atgaattttc aaacgtaatc gaactcataa aaaatcactc
5581 actttcttgt cttaataaaa tcttaagaag ttgctatgta ggtcgataca ggaagagcat
5641 aaggggatct gtcaaatata cccattttta acccccaaaa tcgaccattt ttgaaaggag
5701 taggttgcca tgctacgcta atcttttaac gtacttgaca aaattcggtt ggctttgaat
5761 attctagaat attctggaat cgtgaaactg attggcatca gtagaatttc acaaaaacgg
5821 acagtttcat gtttccaatg gttttcacct cttattaact gattttctgc atttttttag
5881 tcgaggctca atatgaaatc aaaacgaggt tcgatcgtaa agccgtcaaa attgaaaaat
5941 ccagtaaaat cagcacattt caaggtatcg tcaattgaaa aagaaaggct attttcgtga
6001 aatgtttcac tttttacata tctattatac cacgcaataa tgttatgtaa ataaaattta
6061 cataacttgc gctctccgag gggcctgccg gcggcttcaa gaagaacaca tttcttcttg
6121 aaaattttca ttattccgtt cgagttgcag gtccaaattg taaccaagat tggaccagtt
6181 tattttccgt taacagaaaa taaaacagca tcgaacgggt caacttttcg tcaaaagtta
6241 acgtcaaaag tcggtcactt ttctgtcaaa aagtgacgtg ctaccgccct ccacacctct
6301 acggtgttcc ggttggttga tgtgatacgg tctgacagtt cgacaagtcg aattgtcact
6361 ccgaatcaca tgatggattc acactcaaca tcatcaccat ttcagatcag gaaatacatc
6421 tgaaagtgaa ttaatttcag tgttgtcatc atcgtcatca tcaccaacac catcatcaaa
6481 aagatgatct aaatcgtcat tattatcagc ttgaacttgg ctcattttgg cactggtaaa
6541 catggtatgg aagtcaattt gtggaccatt cgatgatgaa acattaaagg ctttgttgat
6601 ccatttttgg gtagtcttag cgtccatttt gcttactgta tcaatctcta attcaggagc
6661 gtgagacgta taagaagcca aattatcaat aaattccgat ggtgtatgtt tcaaccaaac
6721 accatactca atcaagattt cacgaggtaa aaatgcagtt gccgacatga accgaacatc
6781 atcatgcttc ttataggaag ccaccaaacg gcgctcaacg tcaggttcat caaatgttac
6841 atcatcgggc ttaccataac tatcataatg tagtgttgca tggtgggcgt ccatgacttg
6901 catcaaatcc acatcacggt aaatttgact ataatcatga gttgttaacg tggtagtatc
6961 gtcaccatat tgatcacaaa catcttctaa aatccgtacc aaacgccgaa catcttcacc
7021 tttatgaagt aaatcattgt attggaa
//
