The canine hookworm genome:: Analysis and classification of Ancylostoma caninum survey sequences

被引：33

作者：

Abubucker, Sahar ^{[1
]}

Martin, John ^{[1
]}

Yin, Yong ^{[1
]}

Fulton, Lucinda ^{[1
]}

Yang, Shiaw-Pyng ^{[1
]}

Hallsworth-Pepin, Kym ^{[1
]}

Johnston, J. Spencer ^{[2
]}

Hawdon, John ^{[3
]}

McCarter, James P. ^{[1
,4
]}

Wilson, Richard K. ^{[1
]}

Mitreva, Makedonka ^{[1
]}

机构：

[1] Washington Univ, Sch Med, Dept Genet, Genome Sequencing Ctr, St Louis, MO 63108 USA

[2] Texas A&M Univ, Dept Entomol, College Stn, TX 77843 USA

[3] George Washington Univ, Med Ctr, Dept Microbiol Immunol & Trop Med, Washington, DC 20037 USA

[4] Divergence Inc, St Louis, MO 63141 USA

来源：

MOLECULAR AND BIOCHEMICAL PARASITOLOGY | 2008年 / 157卷 / 02期

关键词：

hookworm; Ancylostoma caninum; genome survey sequences; expressed sequence tags; genome; comparative genomics;

D O I：

10.1016/j.molbiopara.2007.11.001

中图分类号：

Q5 [生物化学]; Q7 [分子生物学];

学科分类号：

071010 ; 081704 ;

摘要：

Hookworms infect nearly a billion people. The Ancylostoma caninum hookworm of canids is a model for studying human infections and information from its genome coupled with functional genomics and proteomics can accelerate progress towards hookworm control. As a step towards a full-scale A. caninum genome project, we generated 104,000 genome survey sequences (GSSs) and determined the genome size of the canine hookworm. GSSs assembled into 57.6 Mb of unique sequence from a genome that we estimate by flow cytometry of isolated nuclei to be 347 +/- 1.2 Mb, substantially larger than other Rhabditina species. Gene finding identified 5538 genes in the GSS assembly, for a total of 9113 non-redundant A. caninum genes when EST sequences are also considered. Functional classifications of many of the 70% of genes with homology to genes in other species are provided based on gene ontology and KEGG associations and secreted and membrane-bound proteins are also identified. (c) 2007 Elsevier B.V. All rights reserved.

引用

页码：187 / 192

页数：6

共 30 条

[1] The InterPro database, an integrated documentation resource for protein families, domains and functional sites [J].

Apweiler, R ;

Attwood, TK ;

Bairoch, A ;

Bateman, A ;

Birney, E ;

Biswas, M ;

Bucher, P ;

Cerutti, T ;

Corpet, F ;

Croning, MDR ;

Durbin, R ;

Falquet, L ;

Fleischmann, W ;

Gouzy, J ;

Hermjakob, H ;

Hulo, N ;

Jonassen, I ;

Kahn, D ;

Kanapin, A ;

Karavidopoulou, Y ;

Lopez, R ;

Marx, B ;

Mulder, NJ ;

Oinn, TM ;

Pagni, M ;

Servant, F ;

Sigrist, CJA ;

Zdobnov, EM .

NUCLEIC ACIDS RESEARCH, 2001, 29 (01) :37-40

[2] Gene Ontology: tool for the unification of biology [J].

Ashburner, M ;

Ball, CA ;

Blake, JA ;

Botstein, D ;

Butler, H ;

Cherry, JM ;

Davis, AP ;

Dolinski, K ;

Dwight, SS ;

Eppig, JT ;

Harris, MA ;

Hill, DP ;

Issel-Tarver, L ;

Kasarskis, A ;

Lewis, S ;

Matese, JC ;

Richardson, JE ;

Ringwald, M ;

Rubin, GM ;

Sherlock, G .

NATURE GENETICS, 2000, 25 (01) :25-29

[3]

BAO Z, 2002, GENOME RES, V12, P1152

[4]

BENNETT MD, 2003, ANN BOT, P547

[5] Soil-transmitted helminth infections: ascariasis, trichuriasis, and hookworm [J].

Bethony, J ;

Brooker, S ;

Albonico, M ;

Geiger, SM ;

Loukas, A ;

Diemert, D ;

Hotez, PJ .

LANCET, 2006, 367 (9521) :1521-1532

[6] Recombinant nematode anticoagulant protein c2, an inhibitor of tissue factor/factor VIIa, attenuates coagulation and the interleukin-10 response in human endotoxemia [J].

De Pont, ACJM ;

Moons, AHM ;

De Jonge, E ;

Meijers, JCM ;

Vlasuk, GP ;

Rote, WE ;

Büller, HR ;

Van der Poll, T ;

Levi, M .

JOURNAL OF THROMBOSIS AND HAEMOSTASIS, 2004, 2 (01) :65-70

[7] Soil-transmitted helminth infections: updating the global picture [J].

de Silva, NR ;

Brooker, S ;

Hotez, PJ ;

Montresor, A ;

Engels, D ;

Savioli, L .

TRENDS IN PARASITOLOGY, 2003, 19 (12) :547-551

[8] EAnnot: A genome annotation tool using experimental evidence [J].

Ding, L ;

Sabo, A ;

Berkowicz, N ;

Meyer, RR ;

Shotland, Y ;

Johnson, MR ;

Pepin, KH ;

Wilson, RK ;

Spieth, J .

GENOME RESEARCH, 2004, 14 (12) :2503-2509

[9] Pfam:: clans, web tools and services [J].

Finn, Robert D. ;

Mistry, Jaina ;

Schuster-Bockler, Benjamin ;

Griffiths-Jones, Sam ;

Hollich, Volker ;

Lassmann, Timo ;

Moxon, Simon ;

Marshall, Mhairi ;

Khanna, Ajay ;

Durbin, Richard ;

Eddy, Sean R. ;

Sonnhammer, Erik L. L. ;

Bateman, Alex .

NUCLEIC ACIDS RESEARCH, 2006, 34 :D247-D251

[10] Rfam: an RNA family database [J].

Griffiths-Jones, S ;

Bateman, A ;

Marshall, M ;

Khanna, A ;

Eddy, SR .

NUCLEIC ACIDS RESEARCH, 2003, 31 (01) :439-441

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