Draft genome sequence of the intestinal parasite Blastocystis subtype 4-isolate WR1

Genomics Data

Volumn 4, Issue , 2015, Pages 22-23

  Wawrzyniak, Ivan ^a   Courtine, Damien ^a   Osman, Marwan ^b   Hubans Pierlot, Christine ^c   Cian, Amandine ^b   Nourrisson, Céline ^a   Chabe, Magali ^b   Poirier, Philippe ^a   Bart, Aldert ^d   Polonais, Valérie ^a   Delgado Viscogliosi, Pilar ^b   El Alaoui, Hicham ^a   Belkorchia, Abdel ^a   van Gool, Tom ^d   Tan, Kevin S W ^e   Ferreira, Stéphanie ^c   Viscogliosi, Eric ^b   Delbac, Frédéric ^a  

^a UNIVERSITÉ CLERMONT AUVERGNE   (France)

^b UNIV LILLE   (France)

^c INSTITUT PASTEUR DE LILLE   (France)

^d ACADEMIC MEDICAL CENTER   (Netherlands)

^e NATIONAL UNIVERSITY OF SINGAPORE   (Singapore)

Author keywords

Annotation using Maker gene annotation pipeline; Blastocystis subtype 4 isolate WR1; Illumina HiSeq; Whole genome

Indexed keywords

GENOMIC DNA;

ARTICLE; BLASTOCYSTIS; GENE FUNCTION; GENE SEQUENCE; GENETIC VARIABILITY; GENOME ANALYSIS; HUMAN; ISOLATION PROCEDURE; NONHUMAN; PRIORITY JOURNAL;

BLASTOCYSTIS; PROTISTA; RODENTIA;

EID: 84929416762     PISSN: 22135960     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.gdata.2015.01.009     Document Type: Article

References (24)

1. Tan K.S., Mirza H., Teo J.D., Wu B., Macary P.A. Current views on the clinical relevance of Blastocystis spp. Curr. Infect. Dis. Rep. 2010, 12:28-35.
2. Wawrzyniak I., Poirier P., Viscogliosi E., Meloni D., Texier C., Delbac F., Alaoui H.E. Blastocystis an unrecognized parasite: an overview of pathogenesis and diagnosis. Ther. Adv. Infect. Dis. 2013, 1:167-178.
3. Poirier P., Wawrzyniak I., Vivares C.P., Delbac F., El Alaoui H. New insights into Blastocystis spp.: a potential link with irritable bowel syndrome. PLoS Pathog. 2012, 8:e1002545.
4. El Safadi D., Gaayeb L., Meloni D., Cian A., Poirier P., Wawrzyniak I., Delbac F., Dabboussi F., Delhaes L., Seck M., Hamze M., Riveau G., Viscogliosi E. Children of Senegal River Basin show the highest prevalence of Blastocystis sp. ever observed worldwide. BMC Infect. Dis. 2014, 14:164.
5. Nourrisson C., Scanzi J., Pereira B., NkoudMongo C., Wawrzyniak I., Cian A., Viscogliosi E., Livrelli V., Delbac F., Dapoigny M., Poirier P. Blastocystis is associated with decrease of fecal microbiota protective bacteria: comparative analysis between patients with irritable bowel syndrome and control subjects. PLoS ONE 2014, 3(2014):e111868.
6. Alfellani M.A., Taner-Mulla D., Jacob A.S., Atim Imeede C., Yoshikawa H., Stensvold C.R., Clark C.G. Genetic diversity of Blastocystis in livestock and zoo animals. Protist 2013, 164:497-509.
7. Denoeud F., Roussel M., Noel B., Wawrzyniak I., Da Silva C., Diogon M., Viscogliosi E., Brochier-Armanet C., Couloux A., Poulain J., Segurens B., Anthouard V., Texier C., Blot N., Poirier P., Ng G.C., Tan K.S., Artiguenave F., Jaillon O., Aury J.M., Delbac F., Wincker P., Vivares C.P., El Alaoui H. Genome sequence of the stramenopile Blastocystis, a human anaerobic parasite. Genome Biol. 2011, 12:R29.
8. Wawrzyniak I., Roussel M., Diogon M., Couloux A., Texier C., Tan K.S., Vivares C.P., Delbac F., Wincker P., El Alaoui H. Complete circular DNA in the mitochondria-like organelles of Blastocystis hominis. Int. J. Parasitol. 2008, 38:1377-1382.
9. Perez-Brocal V., Clark C.G. Analysis of two genomes from the mitochondrion-like organelle of the intestinal parasite Blastocystis: complete sequences, gene content, and genome organization. Mol. Biol. Evol. 2008, 25:2475-2482.
10. Stensvold C.R., Alfellani M., Clark C.G. Levels of genetic diversity vary dramatically between Blastocystis subtypes. Infect. Genet. Evol. 2012, 12:263-273.
11. Chen X.Q., Singh M., Ho L.C., Tan S.W., Ng G.C., Moe K.T., Yap E.H. Description of a Blastocystis species from Rattus norvegicus. Parasitol. Res. 1997, 83:313-318.
12. Peng Y., Leung H.C., Yiu S.M., Chin F.Y. IDBA-UD: a de novo assembler for single-cell and metagenomic sequencing data with highly uneven depth. Bioinformatics 2012, 28:1420-1428.
13. Boetzer M., Henkel C.V., Jansen H.J., Butler D., Pirovano W. Scaffolding pre-assembled contigs using SSPACE. Bioinformatics 2011, 27:578-579.
14. Boetzer M., Pirovano W. Toward almost closed genomes with GapFiller. Genome Biol. 2012, 13:R56.
15. Holt C., Yandell M. MAKER2: an annotation pipeline and genome-database management tool for second-generation genome projects. BMC Bioinf. 2011, 12:491.
16. Hoff K.J., Stanke M. WebAUGUSTUS - a web service for training AUGUSTUS and predicting genes in eukaryotes. Nucleic Acids Res. 2013, 41:W123-W128.
17. Korf I. Gene finding in novel genomes. BMC Bioinf. 2004, 5:59.
18. Stechmann A., Hamblin K., Pérez-Brocal V., Gaston D., Richmond G.S., van der Giezen M., Clark C.G., Roger A.J. Organelles that blur the distinction between mitochondria and hydrogenosomes. Curr. Biol. 2008, 18:580-585.
19. Conesa A., Gotz S., Garcia-Gomez J.M., Terol J., Talon M., Robles M. Blast2GO: a universal tool for annotation, visualization and analysis in functional genomics research. Bioinformatics 2005, 21:3674-3676.
20. Lowe T.M., Eddy S.R. tRNAscan-SE: a program for improved detection of transfer RNA genes in genomic sequence. Nucleic Acids Res. 1997, 25:955-964.
21. Rawlings N.D., Barrett A.J., Bateman A. MEROPS: the database of proteolytic enzymes, their substrates and inhibitors. Nucleic Acids Res. 2014, 40:D343-D350.
22. Petersen T.N., Brunak S., von Heijne G., Nielsen H. SignalP 4.0: discriminating signal peptides from transmembrane regions. Nat. Methods 2014, 8:785-786.
23. Horton P., Park K.J., Obayashi T., Fujita N., Harada H., Adams-Collier C.J., Nakai K. WoLF PSORT: protein localization predictor. Nucleic Acids Res. 2007, 35:W585-W587.
24. Li L., Stoeckert C.J., Roos D.S. OrthoMCL: identification of ortholog groups for eukaryotic genomes. Genome Res. 2003, 13:2178-2189.