LOCUS ETN69056.1 823 aa PRT CON 23-MAR-2015
DEFINITION Necator americanus EB module protein.
ACCESSION KI669176-96
PROTEIN_ID ETN69056.1
SOURCE Necator americanus (New World hookworm)
ORGANISM Necator americanus
Eukaryota; Metazoa; Ecdysozoa; Nematoda; Chromadorea; Rhabditida;
Rhabditina; Rhabditomorpha; Strongyloidea; Ancylostomatidae;
Bunostominae; Necator.
REFERENCE 1 (bases 1 to 1237885)
AUTHORS Mitreva,M.
TITLE Draft genome of the hookworm Necator americanus
JOURNAL Unpublished
REFERENCE 2 (bases 1 to 1237885)
AUTHORS Mitreva,M., Abubucker,S., Martin,J., Minx,P., Warren,C.,
Pepin,K.H., Palsikar,V.B., Zhang,X.W.E. and Wilson,R.K.
TITLE Direct Submission
JOURNAL Submitted (17-APR-2013) The Genome Institute, Washington University
School of Medicine, 4444 Forest Park, St. Louis, MO 63108, USA
COMMENT Necator americanus is a roundworm that causes most of the human
hookworm infections. N. americanus is a blood-feeding nematode
infecting people in the rural areas of the tropics and subtropics
causing an estimated disease burden of 22 million disability
adjusted life years. The life cycle of the parasite begins when
parasite eggs from an infected host are passed in the feces. In
favorable environmental condition they hatch, and through 2 larval
stages develop to the infective stage (L3). L3s penetrate human
skin, migrate through the circulatory system and lung to finally
reside in duodenum. The development continues and the adult stages
attach to the intestinal mucosa and feed on blood.
The strain being sequenced was obtained from the laboratory of Dr.
Peter Hotez by Dr. Bin Zhan, originally isolated from an infected
patient in Hunan province, China, and has been maintained in
hamster since 1976.The adult worms were collected from intestines
of hamsters infected subcutaneously with N. americanus L3 for 8
weeks. Worm isolation and DNA extraction was performed by Bin Zhan
with QIAamp DNA mini kit according to manufacturers instructions
(Qiagen). Jian et. al., 2003 Exp Parasitol.
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, an in-house tool CIGA (Cdna tool for Improving Genome
Assembly), was 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.
The repeat library was generated using Repeatmodeler (A.F.A. Smit,
R. Hubley & P. Green http://repeatmasker.org). The Ribosomal RNA
genes were identified using RNAmmer (Lagesen et. al., 2007 Nucleic
Acids Res.) and transfer RNA's were identified with tRNAscan-SE
(Lowe and Eddy, Nucleic Acids Res. 1997). Non-coding RNAs, such as
microRNAs, were identified by sequence homology search of the Rfam
database (Griffiths-Jones et. al., 2003 Nucleic Acids Res.).
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
(Korf, 2004 BCM Bioinformatics), Fgenesh (Salamov A., Solovyev V.
2000, Genome Res.) and Augustus (M. Stanke, et. al., 2008
Bioinformatics) and the annotation pipeline tool Maker (M. Yandell
et. al., 2007 Genomic Research) 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
(http://ber.sourceforge.net).
Our goal is to explore this WGS draft sequence of N. americanus 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 N.
americanus 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-04/19/2010-patch-
08/17/2010
Assembly Name :: N_ americanus_v1
Genome Coverage :: 26.15x
Sequencing Technology :: 454
##Genome-Assembly-Data-END##
FEATURES Qualifiers
source /organism="Necator americanus"
/mol_type="genomic DNA"
/submitter_seqid="N_americanus-1.0_Cont9"
/host="Homo sapiens"
/db_xref="taxon:51031"
/chromosome="Unknown"
/lab_host="hamster"
/country="China: Hunan Province"
protein /locus_tag="NECAME_01166"
/inference="protein motif:HMMPfam:IPR006149"
/db_xref="InterPro:IPR006149"
intron_pos 17:1 (1/21)
intron_pos 54:0 (2/21)
intron_pos 113:1 (3/21)
intron_pos 150:2 (4/21)
intron_pos 212:0 (5/21)
intron_pos 231:1 (6/21)
intron_pos 255:1 (7/21)
intron_pos 305:1 (8/21)
intron_pos 338:0 (9/21)
intron_pos 374:1 (10/21)
intron_pos 398:1 (11/21)
intron_pos 434:2 (12/21)
intron_pos 463:1 (13/21)
intron_pos 513:0 (14/21)
intron_pos 549:1 (15/21)
intron_pos 573:0 (16/21)
intron_pos 610:0 (17/21)
intron_pos 652:0 (18/21)
intron_pos 695:1 (19/21)
intron_pos 733:2 (20/21)
intron_pos 782:1 (21/21)
BEGIN
1 MRTRCSSEKA PLFVLSVCDA NSLSGRMCMT VELYRTADNS SQFYECAPLA REEVVEYNLT
61 DKYLGVWNLR DCPENFDFDV SRQKCIERKT MRRQQAACAK NPASTGCQAP CSGAASIPTI
121 GSPCDWKEAA LHPDPKSNAY FVQCSPQSAG TPCGEWTRMA CAPNTVFSKP SSICVSMSVQ
181 SSACGSQREP VCNCAKTAGA TQCPGTSTCN KNVCCQQKDV IDNFIQHQAP YSACVQGLGC
241 CPVPVNQPKE AIQITLCPGS FSPPLGSCGS CPTGTSCSPA INACCPFATK SPPDLTFNVV
301 QLCPNGSPAL QSCSRGCPDG YSCYQGSCCP MSCPVGQTAL GFCSSGACSG GGSCYTPGGC
361 CCQETVKLPV CANGMWATYG MLEWRMLSDA ILSHRGTSPN ALWKQQYDLR FGTFMSGRAL
421 LSFTSLSKRN NLIRCSNGCA NCCPFGHSCV NGGCCPLPQC PAGGLALTMC GTRSCSVGNE
481 CVGGGCCPLP RCPSGLQATQ RCQRGIGCPR GHQCENGVCC AMPTCSAGLI AASVCGMGNS
541 CPMGFVCEVH PQKFILPQHY KFNNVDAQRG ECEEVVAKNR LHFAQMEAEL FNGAVEELNA
601 LQDLDVLLSE DVAFYRWNQC AQHKRTQSAN VLPIVLAHRV QRAQWERVVP KMPAKVLTLA
661 RNGCDQYGSP CTVLLSTARR KPIIAPVGNI TDAPLFFNVA TERRCVVNAT DVNFDPDSTC
721 LPNEKCINGE CRMKLWPGEY GCITDDECTS RCPNTYCEKK KSDKNVAQCQ CRDGQLLFGR
781 CFSQCPPGFH ESGAYCMHDD EDAFWADGDA QDRIKALLNA SPC
//