LOCUS KI260551 5323 bp DNA linear CON 22-MAR-2015
DEFINITION Treponema lecithinolyticum ATCC 700332 genomic scaffold Scaffold0,
whole genome shotgun sequence.
ACCESSION KI260551 AWVH01000000
VERSION KI260551.1
DBLINK BioProject: PRJNA198879
BioSample: SAMN02436727
KEYWORDS WGS; HIGH_QUALITY_DRAFT.
SOURCE Treponema lecithinolyticum ATCC 700332
ORGANISM Treponema lecithinolyticum ATCC 700332
Bacteria; Pseudomonadati; Spirochaetota; Spirochaetia;
Spirochaetales; Treponemataceae; Treponema.
REFERENCE 1 (bases 1 to 5323)
AUTHORS Weinstock,G., Sodergren,E., Wylie,T., Fulton,L., Fulton,R.,
Fronick,C., O'Laughlin,M., Godfrey,J., Miner,T., Herter,B.,
Appelbaum,E., Cordes,M., Lek,S., Wollam,A., Pepin,K.H.,
Palsikar,V.B., Mitreva,M. and Wilson,R.K.
TITLE Direct Submission
JOURNAL Submitted (09-AUG-2013) The Genome Institute, Washington University
School of Medicine, 4444 Forest Park, St. Louis, MO 63108, USA
COMMENT Source DNA provided by Cori Leonetti, Jessica M. Blanton, Floyd E.
Dewhirst, and Jacques Izard (The Forsyth Institute, Department of
Microbiology, 245 First St, Cambridge, Massachusetts, 02142).
Funded by NIDCR DE016937, 'A Foundation for the Oral Microbiome and
Metagenome'.
Bacteria obtained from American Type Culture Collection (P.O. Box
1549, Manassas, VA 20108, USA). The phylogenetic relative position
is available at www.homd.org.
Coding sequences were predicted using GeneMark and Glimmer3.
Intergenic regions not spanned by GeneMark and Glimmer3 were
blasted against NCBI's non-redundant (NR) database and predictions
generated based on protein alignments. tRNA genes were determined
using tRNAscan-SE and non-coding RNA genes by RNAmmer and Rfam. The
final gene set is processed through several programs such as Kegg,
psortB and Interproscan to determine possible function. Gene
product names are determined by BER. Gene names are generated at
the contig level and may not necessarily reflect any known order or
orientation between contigs.
This is a reference genome for the Human Microbiome Project. This
project is co-owned with the Human Microbiome Project DACC.
This work was funded by the National Human Genome Research
Institute (NHGRI)/National Institutes of Health (NIH) grant
5U54HG00496804 for characterization of this genome.
##Genome-Assembly-Data-START##
Finishing Goal :: High-Quality Draft
Current Finishing Status :: High-Quality Draft
Assembly Method :: Velvet v. 1.1.06
Genome Coverage :: 170x
Sequencing Technology :: Illumina
##Genome-Assembly-Data-END##
FEATURES Location/Qualifiers
source 1..5323
/organism="Treponema lecithinolyticum ATCC 700332"
/mol_type="genomic DNA"
/submitter_seqid="Scaffold0"
/strain="ATCC 700332"
/isolation_source="oral cavity- mouth"
/host="Homo sapiens"
/culture_collection="ATCC:700332"
/type_material="type strain of Treponema lecithinolyticum"
/db_xref="HMP:9193"
/db_xref="taxon:1321815"
gene <1..272
/locus_tag="HMPREF9193_00001"
CDS <1..272
/locus_tag="HMPREF9193_00001"
/codon_start=3
/transl_table=11
/product="hypothetical protein"
/protein_id="ERJ94595.1"
/translation="EARSPAEHSPTLSAADKEKLRMARINANYEHDKAALAKSDPLFA
KNQFWDVGHAEEDGEKLDEEQVKKDTAWFENSLNDEIKNRLGVHG"
gene 269..1033
/locus_tag="HMPREF9193_00002"
CDS 269..1033
/locus_tag="HMPREF9193_00002"
/inference="protein motif:HMMPfam:IPR025295"
/note="Psort location: Cytoplasmic, score: 8.96"
/codon_start=1
/transl_table=11
/product="hypothetical protein"
/protein_id="ERJ94596.1"
/db_xref="InterPro:IPR025295"
/translation="MSGKDNMDKQYTYTELLKAADSFIKKIDNFIGKAINFAKSHNRK
NYLKLQIDSESPKKEAEFMEYQTPDQIVYKSWEYNREHSLDTVILNEFNRTNDTDIEQ
VKISYGPAADEYARQNHALALVVANTIYFRNGAYKPETEEGRKLLAHELTHIAQNKNT
EAYRNSTVEEKEAEAEAKEVQQEYNPDPEIVIKIKGKYKRIRKSKIKREISALAEMEV
EKIQNEYAMISNEKKKLDYLINLETRLKRGEIKWLQ"
gene 1021..2313
/locus_tag="HMPREF9193_00003"
CDS 1021..2313
/locus_tag="HMPREF9193_00003"
/note="Psort location: Cytoplasmic, score: 8.96"
/codon_start=1
/transl_table=11
/product="hypothetical protein"
/protein_id="ERJ94597.1"
/translation="MAAISRYKAEQYVTKIFKEYLGALKEAKRNKKKLLPEANILFEG
MDEFAGFINSNNLQQKVYNRLNLEGIKELFNEAKLLALYYDLESFTSVKDCQIDTDTP
NDFQGWIVRLSSNGQVESIEYKNGNDVLEIFPDGKEEYHKYPGNGSRAGFLARYAGLP
VLADGTSTEMENVLCNAGYKYDIDAKKWIAEKNAEAEFDCYGNKIEKIPEPKDEIKKE
IYEKYYTIYKKWSKLITGINGNIIELDNGKGKIITTVPYYSQRDNATEDPPVRAGYMC
QITSLAMVLKTKGIKQKYPQMQFEDELYKIAKEKGYGGDNLWEKTAKLYDVVIKEVSS
DYTVAGIDNGYETEDVKQEIDKGNPVIMSINFKSGGHIIVVVGYTQCGFIVHDPYGNL
NKGRDDSYGFDSDGAYVEYPYNKWSIGEKWIRYLSKRK"
gene 2315..2998
/locus_tag="HMPREF9193_00004"
CDS 2315..2998
/locus_tag="HMPREF9193_00004"
/note="Psort location: Cytoplasmic, score: 8.96"
/codon_start=1
/transl_table=11
/product="hypothetical protein"
/protein_id="ERJ94598.1"
/translation="MKKQIIIALVLAIYTISKLTGQSSFFSIEDVTAYIERFKNNGLW
QEGRSSVLIERNKPETEYELNKIWDRSISTTWAEGAAGAGIGEYVTIEVRFLPSLFFE
DILSNIKIEGKLQINNGFCRSEKLFKDNNRVKRALITIYAVPLRVAQTGTFALKPGPM
ILKEFEIHIDDTNKLQVFNFDTEIQSFTDVEGSVDLFLRLTILEIYPGEKYNDTCISE
LHATAEIGN"
gene 2999..3571
/locus_tag="HMPREF9193_00005"
CDS 2999..3571
/locus_tag="HMPREF9193_00005"
/codon_start=1
/transl_table=11
/product="hypothetical protein"
/protein_id="ERJ94599.1"
/translation="MMKKKMYCLSIFILCICFCCKASDDVKKTADTFLHAMISGDYVK
MASFIKDKEGIRLSPIPFIYPDFQRKFVKNEIANCESDTALYNWFTDDPDNPDELTIK
DFIQRNYRCEAERFSKDSINKFITSTGYDDSRRYNNFYEIYPKCKFVEYYASPSGTYG
EMDWFSVCIILQAIDGDYYVVAVTCNYQGI"
gene 3603..4523
/locus_tag="HMPREF9193_00006"
CDS 3603..4523
/locus_tag="HMPREF9193_00006"
/note="Psort location: Cytoplasmic, score: 8.96"
/codon_start=1
/transl_table=11
/product="hypothetical protein"
/protein_id="ERJ94600.1"
/translation="MYRTNFSSTNSEKSSRSKFFGEKLGIGQKRADMMLQVAGYDYDS
TAGMNIPTKDKKRRTFTDFNIYGNELKIDITPEHKGDKIKEEAFNKFPEIYAVFGSRI
SGMNGTIIELDDGTGKVLGNVPYFHQRDNTTDEGTGKNRVYGDVMCQLTSLAMVLASK
GIKPTDPTKQLEDELYEIAKKEGRSGEKLWTPVKATYEKVIPKITDIYDASTGFKSED
EDLSKITEQIDIGNPVIVDIKFNSGGHVVVCVGYTAKTLIFHDPYGNLEKGKNNQYGS
DKNGAYVEYPKNKYRIGKNWIRYLSEKEDK"
gene 4523..5251
/locus_tag="HMPREF9193_00007"
CDS 4523..5251
/locus_tag="HMPREF9193_00007"
/note="Psort location: Cytoplasmic, score: 8.96"
/codon_start=1
/transl_table=11
/product="hypothetical protein"
/protein_id="ERJ94601.1"
/translation="MKKLIVLVYNILILSLFAYSFTKESASGFWEWLQKDVYWQAGRS
SVLIEKGYSAREYEWEKIRDKNLATAWVEGDNNAGIGAWIIIPINGDYQYLGYEHDIL
KKRINITLRINNGFCKNEIVFKNNNRVKKAKITIYEVPLCAYEDFRGTQAIGEPWISY
ETEIELEDRMDEQKFNFIFNPKAPYKEGSLYLFLKLTILEVYPGEKYDDTCISELHAT
ADVVKEKKPEVTKRKKSFFRKDKE"
CONTIG join(AWVH01000001.1:1..5323)
//