LOCUS KHJ99715.1 1987 aa PRT CON 15-DEC-2014
DEFINITION Oesophagostomum dentatum myosin head protein.
ACCESSION KN549208-31
PROTEIN_ID KHJ99715.1
SOURCE Oesophagostomum dentatum
ORGANISM Oesophagostomum dentatum
Eukaryota; Metazoa; Ecdysozoa; Nematoda; Chromadorea; Rhabditida;
Rhabditina; Rhabditomorpha; Strongyloidea; Strongylidae;
Oesophagostomum.
REFERENCE 1 (bases 1 to 574610)
AUTHORS Mitreva,M.
TITLE Draft genome of the hookworm Oesophagostomum dentatum
JOURNAL Unpublished
REFERENCE 2 (bases 1 to 574610)
AUTHORS Mitreva,M., Pepin,K.H., Abubucker,S., Martin,J., Minx,P.,
Warren,C., Palsikar,V.B., Zhang,X. and Wilson,R.K.
TITLE Direct Submission
JOURNAL Submitted (29-MAR-2014) The Genome Institute, Washington University
School of Medicine, 4444 Forest Park, St. Louis, MO 63108, USA
COMMENT Oesophagostomum dentatum, a Nodule worm, infects various livestock
species and can also be found in humans. The larval stages invade
the large intestinal wall and cause granulomatous inflammatory
reactions. O. dentatum infects pigs in all production systems
worldwide. Due to the lack of effective immune reactions worm
burdens can be high and the parasite is found in pigs of all age
groups. O. dentatum can be cultivated in vitro in all life cycle
stages and serves as a model for strongylid nematodes which
constitute a group of parasites most closely related to C. elegans.
The sequenced strain (OD-Hann) was collected in Lower Saxony,
Germany, around 1990 by Prof. Dr. Arwid Daugschies, and is since
maintained in pigs, currently at the Institute of Parasitology,
Vetmeduni Vienna, Austria. Material for sequencing was obtained
from Prof Dr Anja Joachim (Anja.Joachim@vetmeduni.ac.at) of the
Vetmeduni Vienna where it has been maintained since 2003. Worm
isolation and extraction of nucleic acids was done by Prof Joachim
and coworkers at the Institute of Parasitology, Vetmeduni Vienna,
or the Genome Institute production team.
This assembly consists of fragments, 3kb and 8kb insert whole
genome shotgun libraries. The sequences were generating on the
Roch/454 platform and assembled using Newbler. To improve
scaffolding, in house tools CIGA (Cdna tool for Improving Genome
Assembly) and Pygap (Gap closure tool) were used to map 454 cDNA
reads using blat to the genomic assembly to link genomic contigs
based on cDNA evidence. Only joins confirmed by additional
independent data typing were accepted and used to close gaps,
followed by the Pyramid assembler using Illumina paired reads to
close gaps and extending contigs.
The repeat library was generated using Repeatmodeler (A. Smit, R.
Hubley http://www.systemsbiology.org/). The Ribosomal RNA genes
were identified using RNAmmer
((http://www.cbs.dtu.dk/cgi-bin/nph-sw_request?rnammer ) and
transfer RNA's were identified with tRNAscan-SE (Lowe and Eddy,
1997). Non-coding RNAs, such as microRNAs, were identified by
sequence homology search of the Rfam database
(http://selab.janelia.org/software.html). Repeats and predicted
RNA's were then masked using RepeatMasker (A. Smit, R. Hubley & P.
Green http://repeatmasker.org). Protein-coding genes were predicted
using a combination of ab initio programs Snap (I. Korf, 2004),
Fgenesh (Softberry, Corp) and Augustus (M. Stanke, et. Al 2008) and
the annotation pipeline tool Maker (M. Yandell et. al., 2007) which
aligns mRNA, EST and protein information from same species or
cross-species to aid in gene structure determination and
modifications. A consensus gene set from the above prediction
algorithms was generated, using a logical, hierarchical approach
developed at the Genome institute. Gene product naming was
determined by BER (JCVI: http://ber.sourceforge.net).
Our goal is to explore this WGS draft sequence of Oesophagostomum
dentatum to better define proteins involved in nematode parasitism
that impact health and disease and are relevant to both
host-parasite relationships and basic biological processes.
For information regarding this assembly or project, or any other
GSC genome project, please visit our Genome Groups web page
(http://genome.wustl.edu/genome_group_index.cgi) and email the
designated contact person. For specific questions regarding the
Oesophagostomum dentatum genome project contact Makedonka Mitreva
(mmitreva@genome.wustl.edu) at Washington University School of
Medicine. The National Human Genome Research Institute (NHGRI) of
the National Institutes of Health (NIH) provided funds for this
project.
##Genome-Assembly-Data-START##
Finishing Goal :: High-Quality Draft
Current Finishing Status :: High-Quality Draft
Assembly Method :: Newbler v. MapAsmResearch-10/14/2011
Assembly Name :: O_dentatum_10.0.ec.cg.pg
Genome Coverage :: 15.0x
Sequencing Technology :: LaRoche 454
##Genome-Assembly-Data-END##
FEATURES Qualifiers
source /organism="Oesophagostomum dentatum"
/mol_type="genomic DNA"
/submitter_seqid="O_dentatum_1.0_Cont9"
/strain="OD-Hann"
/db_xref="taxon:61180"
/chromosome="Unknown"
/lab_host="pig"
/country="Germany: Lower Saxony"
/collection_date="1990"
/collected_by="Arwid Daugschies"
protein /locus_tag="OESDEN_00322"
/inference="protein motif:HMMPfam:IPR001609"
/inference="protein motif:HMMPfam:IPR002928"
/inference="protein motif:HMMPfam:IPR004009"
/note="KEGG: dme:Dmel_CG15792 0. zip; zipper K10352"
/db_xref="InterPro:IPR001609"
/db_xref="InterPro:IPR002928"
/db_xref="InterPro:IPR004009"
intron_pos 46:2 (1/46)
intron_pos 82:0 (2/46)
intron_pos 111:0 (3/46)
intron_pos 163:1 (4/46)
intron_pos 172:2 (5/46)
intron_pos 213:0 (6/46)
intron_pos 244:0 (7/46)
intron_pos 298:1 (8/46)
intron_pos 346:1 (9/46)
intron_pos 378:1 (10/46)
intron_pos 404:0 (11/46)
intron_pos 463:2 (12/46)
intron_pos 504:1 (13/46)
intron_pos 579:1 (14/46)
intron_pos 619:1 (15/46)
intron_pos 680:0 (16/46)
intron_pos 741:2 (17/46)
intron_pos 775:2 (18/46)
intron_pos 803:0 (19/46)
intron_pos 834:0 (20/46)
intron_pos 878:0 (21/46)
intron_pos 910:0 (22/46)
intron_pos 943:0 (23/46)
intron_pos 985:0 (24/46)
intron_pos 1025:0 (25/46)
intron_pos 1091:2 (26/46)
intron_pos 1135:2 (27/46)
intron_pos 1174:0 (28/46)
intron_pos 1227:0 (29/46)
intron_pos 1278:0 (30/46)
intron_pos 1319:0 (31/46)
intron_pos 1358:0 (32/46)
intron_pos 1388:0 (33/46)
intron_pos 1420:0 (34/46)
intron_pos 1458:0 (35/46)
intron_pos 1508:0 (36/46)
intron_pos 1553:2 (37/46)
intron_pos 1577:0 (38/46)
intron_pos 1632:0 (39/46)
intron_pos 1674:2 (40/46)
intron_pos 1711:0 (41/46)
intron_pos 1754:0 (42/46)
intron_pos 1789:0 (43/46)
intron_pos 1880:0 (44/46)
intron_pos 1933:2 (45/46)
intron_pos 1973:1 (46/46)
BEGIN
1 MEESDLRFLQ VQRAAVADPA RASEWAGKKL CWVPHEKDGF VAGSIKKETN DEVIVEICDT
61 GKTVTISKDD VQKANPPKFD KVEDMSELTY LNEASVLHNL KERYFSSLIY TYSGLFCVVI
121 NPYKRLPIYS ESLIEEFKGK KRHEMPPHIF AIADSAYRSM LQDREDQSIL CTGESGAGKT
181 ENTKKVIQYL AHVAGATRSK GGPQGPAASP AKGELEHQLL QANPILEAFG NSKTVKNDNS
241 SRFGKFIRIN FDMSGYISGA NIEFYLLEKS RTLRQAPDER SFHIFYQFLR GTTPAEKANY
301 LLEDIDKYRF LVNGNITLPN VDDAQEFQST LKSMRIMGFA EDEITSVLRV VSATILMGNF
361 EFTQEKKSDQ AILPDDRVIQ KVCHLLGLQV IELTKAFLRP RIKVGREFVN KAQNKEQAEF
421 AVEAIAKASY ERMFKWLVNR INKSLDRTRR QGASFIGILD IAGFEIFELN SFEQLCINYT
481 NEKLQQLFNN TMFILEQEEY QREGIEWQFI DFGLDLQPTI DLIEKPMGLL ALLDEQCLFP
541 KATDKTLVEK LQKTHSKHPK FIVPDMRAKS DFAVVHYAGR VDYSADQWLM KNMDPLNENV
601 VALMQASTDP FVCGIWKDAE FAGICAAEMN ETAFGVRAKK GMFRTVSQLH KEQLTRLMTT
661 LRNTSPHFVR CIIPNHEKKA GKINSMLVLE QLRCNGVLEG IRICRQGFPN RVPFQEFRHR
721 YEILTPNVIP RGFMDGKESV KKMIEYLEID ANLYRIGQSK VFFRTGVLAH LEEERDLKLT
781 DLIIQFQAQC RAFLARRLYV KRMQQSSAIR VLQRNGLAWM KLRNWQWWRL FTKVKPLLQV
841 TNQEAAISAK EDELRVVREK LDKVESEYKE SLSKIDQVLA ERNVLQDQLQ QETDNNAELE
901 EVKNRLQLKK NELEEMVNEM RDRLVDEEQR TEKMSQEKKK LVETVRDLEE QLEQEEQARQ
961 KLQLDKANVD QRVKNVETKL VDITDAHDKL LKEKRILEDK MNQLNLQLSE EEERVKQVAR
1021 QRGKVEGHVQ ELEQELLRER QIKSELEQQK RKLITELDDS RELLEEKRGK LEELNGQLMK
1081 REEELSQVLT RSDEEAATIA LLQKQIRDMQ ATIDELREDI ETERAARNKA EMARREVVAQ
1141 LEKVKGDMLD KVDETSVLQD IMRRKEDEVR DLKKALETST HTLENKLEEQ KLKYNRQIEE
1201 LHEKIELQKK VNAQQEKYKH QADTERAELA QELANIQAQK AEADKRRKQQ EVQFLDIQSQ
1261 LAECDEHRLQ VIEQLEKARE ELEHISRARE DEEQLVSNLN RKIAALEEQL HELSDQVQEE
1321 TRAKLAQINR VRQLEEEKAA VAEERDEMDA ARQHLERDIG VLRQQLAEAR KKADEGVIQQ
1381 MEELRKKAQR DLENTQHQLE ESEASKERLI QSKKKLQQEL EDANIELENI RTASREMEKR
1441 QKKFDMQLAE ERANVQKAIL ERDAHAQESR DRETRILSLV NEIEQMKGTI DETERVRRML
1501 QLELDESISS KDDVGKNVHE LEKAKRQLEQ TVQEQKATIE ELEDQLGFAE DARLRLEVNI
1561 QALRAEQDRN LSAKDQEAED KRRSLVKQLR DLEQELENER RSKAGAISQK KKMEAHIAEI
1621 EQQLDVANRL KDEYNKQLKK NQQMIKEYQH DSEEARQMKE EIASQLRDIE RRLRSAEAEN
1681 QRLSEANEML TSQKRQLEQE KDELEELRGR GGSFSSEEKR RLEQKLAQLE EELEEEQNNA
1741 EIAIDKQRKA QQQLEQLTTE LSMERSVAQK SEAERQGLER QNRELKAKIA ELESTAQSRA
1801 RAQIAALEAK IQYLEEQNSV ESQERHNATR QFRFVRAHIS AHSKMMVDCV LFRRIEKRLH
1861 DTILQLEDER RNVEQQKEIA EKCNLRAKQM RRQLDEQEEE MTRERAKSRN LQREIDDLTE
1921 ANDTLTRENN TLRGGAARRN RENMRLRSAY QIPGSSDNLS RNDDEDGSIG TEVTGSDHTD
1981 ELKKTSV
//