WS248: Parasite Papers II

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For the upcoming WS248 release, a set of new papers have been added to the WormBase database. Some papers of interest to the parasite community are shown below.

Doharey PK, Suthar MK, Verma A, Kumar V, Yadav S, Balaramnavar VM, Rathaur S, Saxena AK, Siddiqi MI, Saxena JK. Molecular cloning and characterization of Brugia malayi thymidylate kinase. Acta Trop. 2014 May;133:83-92. doi:10.1016/j.actatropica.2014.02.003. Epub 2014 Feb 17.

genes referred to: Bm5401

Singh VK, Doharey PK, Kumar V, Saxena JK, Siddiqi MI, Rathaur S, Narender T.
Synthesis, molecular docking and Brugia malayi thymidylate kinase (BmTMK) enzyme inhibition study of novel derivatives of [6]-shogaol. Eur J Med Chem. 2015 Mar 26;93:74-82. doi: 10.1016/j.ejmech.2015.01.035. Epub 2015 Jan 20.

genes referred to: Bm5401

Bulman CA, Bidlow CM, Lustigman S, Cho-Ngwa F, Williams D, Rascón AA Jr, Tricoche N, Samje M, Bell A, Suzuki B, Lim KC, Supakorndej N, Supakorndej P, Wolfe AR, Knudsen GM, Chen S, Wilson C, Ang KH, Arkin M, Gut J, Franklin C,
Marcellino C, McKerrow JH, Debnath A, Sakanari JA. Repurposing auranofin as a lead candidate for treatment of lymphatic filariasis and onchocerciasis. PLoS Negl Trop Dis. 2015 Feb 20;9(2):e0003534. doi: 10.1371/journal.pntd.0003534. eCollection 2015 Feb.

genes referred to: Bma-trxr-1

WS248: Parasite Papers I

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For the upcoming WS248 release, a set of new papers have been added to the WormBase database. Some papers of interest to the parasite community are shown below.

Singh AR, Joshi S, Arya R, Kayastha AM, Srivastava KK, Tripathi LM, Saxena JK. Molecular cloning and characterization of Brugia malayi hexokinase. Parasitol Int. 2008 Sep;57(3):354-61. doi: 10.1016/j.parint.2008.03.004. Epub 2008 Apr 9.

genes referred to: Bm4678

Poole CB, Davis PJ, Jin J, McReynolds LA. Cloning and bioinformatic identification of small RNAs in the filarial nematode, Brugia malayi. Mol Biochem Parasitol. 2010 Feb;169(2):87-94. doi: 10.1016/j.molbiopara.2009.10.004. Epub 2009 Oct 27.

linked miRNA genes can be found at the WBPaper00046326 page

Singh N, Heneberg P, Singh N, Singh SK, Rathaur S. Identification of a novel stress regulated FERM domain containing cytosolic protein having PTP activity in Setaria cervi, a bovine filarial parasite. Biochem Biophys Res Commun. 2015 Feb 27;458(1):194-200. doi: 10.1016/j.bbrc.2015.01.100. Epub 2015 Jan 31.

genes referred to: Bma-ptp-1 , ptp-1

Devarajan E, Mishra PK, Thirugnanam S, Mehta K, Chandrashekar R, Perumal K. Molecular characterization of a Brugia malayi transglutaminase. Parasitol Res. 2004 Jun;93(2):145-50. Epub 2004 May 1.

genes referred to: Bma-pdi-3

WormBook: Operon chapter added

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Dear WormBook reader,

Operon and non-operon gene clusters in the C. elegans genome, by Thomas Blumenthal, Paul Davis and Alfonso Garrido-Lecca, has been published in the Molecular biology section of WormBook. This chapter discusses a variety of tight-linkage gene arrangements in the C. elegans genome, summarizes the current knowledge on several variations of operon processing, and describes non-operon gene clusters.

Please proceed to read this new chapter and others on nematode biology at http://www.wormbook.org/. If you have any comments or suggestions, please submit them via the Feedback page on wormbook.org.

Thank you for your interest in WormBook.

Jane

WormBase Workshop at International Worm Meeting 2015

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Thursday, June 25 – 1pm -2:30pm
Saturday, June 27 – 1pm – 2:30pm

For the 2015 International C. elegans meeting, WormBase will present two identical workshops to cover some of WormBase’s newer tools and data as well as ways in which the nematode research community may contribute data and annotations to the database. We will cover basics of data mining with WormMine (the WormBase instance of Intermine), introduce our instantiation of the JBrowse genome browser, and demo the new ParaSite website which hosts genome sequences for parasitic nematode species. We will discuss WormBase sequence data available in complementary resources such as Ensembl Genomes and the UCSC Assembly Hub for C. elegans. We will also provide a number of options for users to submit their own data using sequence variation data, gene concise descriptions and Gene Ontology annotations as examples.