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Items: 1 to 50 of 251

1.

Functional insights into the infective larval stage of Anisakis simplex s.s., Anisakis pegreffii and their hybrids based on gene expression patterns.

Llorens C, Arcos SC, Robertson L, Ramos R, Futami R, Soriano B, Ciordia S, Careche M, González-Muñoz M, Jiménez-Ruiz Y, Carballeda-Sangiao N, Moneo I, Albar JP, Blaxter M, Navas A.

BMC Genomics. 2018 Aug 7;19(1):592. doi: 10.1186/s12864-018-4970-9.

2.

The ash dieback invasion of Europe was founded by two genetically divergent individuals.

McMullan M, Rafiqi M, Kaithakottil G, Clavijo BJ, Bilham L, Orton E, Percival-Alwyn L, Ward BJ, Edwards A, Saunders DGO, Garcia Accinelli G, Wright J, Verweij W, Koutsovoulos G, Yoshida K, Hosoya T, Williamson L, Jennings P, Ioos R, Husson C, Hietala AM, Vivian-Smith A, Solheim H, MaClean D, Fosker C, Hall N, Brown JKM, Swarbreck D, Blaxter M, Downie JA, Clark MD.

Nat Ecol Evol. 2018 Jun;2(6):1000-1008. doi: 10.1038/s41559-018-0548-9. Epub 2018 Apr 23.

PMID:
29686237
3.

Improving the annotation of the Heterorhabditis bacteriophora genome.

McLean F, Berger D, Laetsch DR, Schwartz HT, Blaxter M.

Gigascience. 2018 Apr 1;7(4). doi: 10.1093/gigascience/giy034.

4.

Daphnia magna microRNAs respond to nutritional stress and ageing but are not transgenerational.

Hearn J, Chow FW, Barton H, Tung M, Wilson PJ, Blaxter M, Buck A, Little TJ.

Mol Ecol. 2018 Mar;27(6):1402-1412. doi: 10.1111/mec.14525. Epub 2018 Mar 7.

PMID:
29420841
5.

Sex- and Gamete-Specific Patterns of X Chromosome Segregation in a Trioecious Nematode.

Tandonnet S, Farrell MC, Koutsovoulos GD, Blaxter ML, Parihar M, Sadler PL, Shakes DC, Pires-daSilva A.

Curr Biol. 2018 Jan 8;28(1):93-99.e3. doi: 10.1016/j.cub.2017.11.037. Epub 2017 Dec 21.

6.

Genome comparisons indicate recent transfer of wRi-like Wolbachia between sister species Drosophila suzukii and D. subpulchrella.

Conner WR, Blaxter ML, Anfora G, Ometto L, Rota-Stabelli O, Turelli M.

Ecol Evol. 2017 Oct 8;7(22):9391-9404. doi: 10.1002/ece3.3449. eCollection 2017 Nov.

7.

Comparative Genomics of Apomictic Root-Knot Nematodes: Hybridization, Ploidy, and Dynamic Genome Change.

Szitenberg A, Salazar-Jaramillo L, Blok VC, Laetsch DR, Joseph S, Williamson VM, Blaxter ML, Lunt DH.

Genome Biol Evol. 2017 Oct 1;9(10):2844-2861. doi: 10.1093/gbe/evx201.

8.

KinFin: Software for Taxon-Aware Analysis of Clustered Protein Sequences.

Laetsch DR, Blaxter ML.

G3 (Bethesda). 2017 Oct 5;7(10):3349-3357. doi: 10.1534/g3.117.300233.

9.

Comparative genomics of the tardigrades Hypsibius dujardini and Ramazzottius varieornatus.

Yoshida Y, Koutsovoulos G, Laetsch DR, Stevens L, Kumar S, Horikawa DD, Ishino K, Komine S, Kunieda T, Tomita M, Blaxter M, Arakawa K.

PLoS Biol. 2017 Jul 27;15(7):e2002266. doi: 10.1371/journal.pbio.2002266. eCollection 2017 Jul.

10.

Toward Universal Forward Genetics: Using a Draft Genome Sequence of the Nematode Oscheius tipulae To Identify Mutations Affecting Vulva Development.

Besnard F, Koutsovoulos G, Dieudonné S, Blaxter M, Félix MA.

Genetics. 2017 Aug;206(4):1747-1761. doi: 10.1534/genetics.117.203521. Epub 2017 Jun 19.

11.

GenomeHubs: simple containerized setup of a custom Ensembl database and web server for any species.

Challis RJ, Kumar S, Stevens L, Blaxter M.

Database (Oxford). 2017 Jan 1;2017. doi: 10.1093/database/bax039.

12.

Annotated mitochondrial genome with Nanopore R9 signal for Nippostrongylus brasiliensis.

Chandler J, Camberis M, Bouchery T, Blaxter M, Le Gros G, Eccles DA.

F1000Res. 2017 Jan 19;6:56. doi: 10.12688/f1000research.10545.1. eCollection 2017.

13.

A high-coverage draft genome of the mycalesine butterfly Bicyclus anynana.

Nowell RW, Elsworth B, Oostra V, Zwaan BJ, Wheat CW, Saastamoinen M, Saccheri IJ, Van't Hof AE, Wasik BR, Connahs H, Aslam ML, Kumar S, Challis RJ, Monteiro A, Brakefield PM, Blaxter M.

Gigascience. 2017 Jul 1;6(7):1-7. doi: 10.1093/gigascience/gix035.

14.

Erratum: How many biological replicates are needed in an RNA-seq experiment and which differential expression tool should you use?

Schurch NJ, Schofield P, Gierliński M, Cole C, Sherstnev A, Singh V, Wrobel N, Gharbi K, Simpson GG, Owen-Hughes T, Blaxter M, Barton GJ.

RNA. 2016 Oct;22(10):1641. doi: 10.1261/rna.058339.116. No abstract available.

15.

Genetic Drift, Not Life History or RNAi, Determine Long-Term Evolution of Transposable Elements.

Szitenberg A, Cha S, Opperman CH, Bird DM, Blaxter ML, Lunt DH.

Genome Biol Evol. 2016 Oct 5;8(9):2964-2978.

16.

The genome of the emerging barley pathogen Ramularia collo-cygni.

McGrann GR, Andongabo A, Sjökvist E, Trivedi U, Dussart F, Kaczmarek M, Mackenzie A, Fountaine JM, Taylor JM, Paterson LJ, Gorniak K, Burnett F, Kanyuka K, Hammond-Kosack KE, Rudd JJ, Blaxter M, Havis ND.

BMC Genomics. 2016 Aug 9;17:584. doi: 10.1186/s12864-016-2928-3.

17.

Imagining Sisyphus happy: DNA barcoding and the unnamed majority.

Blaxter M.

Philos Trans R Soc Lond B Biol Sci. 2016 Sep 5;371(1702). pii: 20150329. doi: 10.1098/rstb.2015.0329. Review.

18.

A molecular palaeobiological exploration of arthropod terrestrialization.

Lozano-Fernandez J, Carton R, Tanner AR, Puttick MN, Blaxter M, Vinther J, Olesen J, Giribet G, Edgecombe GD, Pisani D.

Philos Trans R Soc Lond B Biol Sci. 2016 Jul 19;371(1699). pii: 20150133. doi: 10.1098/rstb.2015.0133. Review.

19.

The genome of the yellow potato cyst nematode, Globodera rostochiensis, reveals insights into the basis of parasitism and virulence.

Eves-van den Akker S, Laetsch DR, Thorpe P, Lilley CJ, Danchin EG, Da Rocha M, Rancurel C, Holroyd NE, Cotton JA, Szitenberg A, Grenier E, Montarry J, Mimee B, Duceppe MO, Boyes I, Marvin JM, Jones LM, Yusup HB, Lafond-Lapalme J, Esquibet M, Sabeh M, Rott M, Overmars H, Finkers-Tomczak A, Smant G, Koutsovoulos G, Blok V, Mantelin S, Cock PJ, Phillips W, Henrissat B, Urwin PE, Blaxter M, Jones JT.

Genome Biol. 2016 Jun 10;17(1):124. doi: 10.1186/s13059-016-0985-1.

20.

Para-allopatry in hybridizing fire-bellied toads (Bombina bombina and B. variegata): Inference from transcriptome-wide coalescence analyses.

Nürnberger B, Lohse K, Fijarczyk A, Szymura JM, Blaxter ML.

Evolution. 2016 Aug;70(8):1803-18. doi: 10.1111/evo.12978. Epub 2016 Jul 8. Erratum in: Evolution. 2016 Oct;70(10 ):2429.

21.

Stage-specific Proteomes from Onchocerca ochengi, Sister Species of the Human River Blindness Parasite, Uncover Adaptations to a Nodular Lifestyle.

Armstrong SD, Xia D, Bah GS, Krishna R, Ngangyung HF, LaCourse EJ, McSorley HJ, Kengne-Ouafo JA, Chounna-Ndongmo PW, Wanji S, Enyong PA, Taylor DW, Blaxter ML, Wastling JM, Tanya VN, Makepeace BL.

Mol Cell Proteomics. 2016 Aug;15(8):2554-75. doi: 10.1074/mcp.M115.055640. Epub 2016 May 25.

22.

Reminder to deposit DNA sequences.

Blaxter M, Danchin A, Savakis B, Fukami-Kobayashi K, Kurokawa K, Sugano S, Roberts RJ, Salzberg SL, Wu CI.

Science. 2016 May 13;352(6287):780. doi: 10.1126/science.aaf7672. Epub 2016 May 11. No abstract available.

PMID:
27169596
23.

Characterization of the mantle transcriptome in bivalves: Pecten maximus, Mytilus edulis and Crassostrea gigas.

Yarra T, Gharbi K, Blaxter M, Peck LS, Clark MS.

Mar Genomics. 2016 Jun;27:9-15. doi: 10.1016/j.margen.2016.04.003. Epub 2016 May 7.

PMID:
27160853
24.

No evidence for extensive horizontal gene transfer in the genome of the tardigrade Hypsibius dujardini.

Koutsovoulos G, Kumar S, Laetsch DR, Stevens L, Daub J, Conlon C, Maroon H, Thomas F, Aboobaker AA, Blaxter M.

Proc Natl Acad Sci U S A. 2016 May 3;113(18):5053-8. doi: 10.1073/pnas.1600338113. Epub 2016 Mar 24.

25.

How many biological replicates are needed in an RNA-seq experiment and which differential expression tool should you use?

Schurch NJ, Schofield P, Gierliński M, Cole C, Sherstnev A, Singh V, Wrobel N, Gharbi K, Simpson GG, Owen-Hughes T, Blaxter M, Barton GJ.

RNA. 2016 Jun;22(6):839-51. doi: 10.1261/rna.053959.115. Epub 2016 Mar 28. Erratum in: RNA. 2016 Oct;22(10 ):1641.

26.

Formin Is Associated with Left-Right Asymmetry in the Pond Snail and the Frog.

Davison A, McDowell GS, Holden JM, Johnson HF, Koutsovoulos GD, Liu MM, Hulpiau P, Van Roy F, Wade CM, Banerjee R, Yang F, Chiba S, Davey JW, Jackson DJ, Levin M, Blaxter ML.

Curr Biol. 2016 Mar 7;26(5):654-60. doi: 10.1016/j.cub.2015.12.071. Epub 2016 Feb 25.

27.

A single chromosome assembly of Bacteroides fragilis strain BE1 from Illumina and MinION nanopore sequencing data.

Risse J, Thomson M, Patrick S, Blakely G, Koutsovoulos G, Blaxter M, Watson M.

Gigascience. 2015 Dec 4;4:60. doi: 10.1186/s13742-015-0101-6. eCollection 2015.

28.

Supergroup C Wolbachia, mutualist symbionts of filarial nematodes, have a distinct genome structure.

Comandatore F, Cordaux R, Bandi C, Blaxter M, Darby A, Makepeace BL, Montagna M, Sassera D.

Open Biol. 2015 Dec;5(12):150099. doi: 10.1098/rsob.150099.

29.

A metagenetic approach to determine the diversity and distribution of cyst nematodes at the level of the country, the field and the individual.

Eves-van den Akker S, Lilley CJ, Reid A, Pickup J, Anderson E, Cock PJ, Blaxter M, Urwin PE, Jones JT, Blok VC.

Mol Ecol. 2015 Dec;24(23):5842-51. doi: 10.1111/mec.13434.

30.

A supergene determines highly divergent male reproductive morphs in the ruff.

Küpper C, Stocks M, Risse JE, Dos Remedios N, Farrell LL, McRae SB, Morgan TC, Karlionova N, Pinchuk P, Verkuil YI, Kitaysky AS, Wingfield JC, Piersma T, Zeng K, Slate J, Blaxter M, Lank DB, Burke T.

Nat Genet. 2016 Jan;48(1):79-83. doi: 10.1038/ng.3443. Epub 2015 Nov 16.

31.

Oviposition but Not Sex Allocation Is Associated with Transcriptomic Changes in Females of the Parasitoid Wasp Nasonia vitripennis.

Cook N, Trivedi U, Pannebakker BA, Blaxter M, Ritchie MG, Tauber E, Sneddon T, Shuker DM.

G3 (Bethesda). 2015 Oct 28;5(12):2885-92. doi: 10.1534/g3.115.021220.

32.

Erratum: Exosomes secreted by nematode parasites transfer small RNAs to mammalian cells and modulate innate immunity.

Buck AH, Coakley G, Simbari F, McSorley HJ, Quintana JF, Le Bihan T, Kumar S, Abreu-Goodger C, Lear M, Harcus Y, Ceroni A, Babayan SA, Blaxter M, Ivens A, Maizels RM.

Nat Commun. 2015 Oct 22;6:8772. doi: 10.1038/ncomms9772. No abstract available.

33.

ReproPhylo: An Environment for Reproducible Phylogenomics.

Szitenberg A, John M, Blaxter ML, Lunt DH.

PLoS Comput Biol. 2015 Sep 3;11(9):e1004447. doi: 10.1371/journal.pcbi.1004447. eCollection 2015 Sep.

34.

Statistical models for RNA-seq data derived from a two-condition 48-replicate experiment.

Gierliński M, Cole C, Schofield P, Schurch NJ, Sherstnev A, Singh V, Wrobel N, Gharbi K, Simpson G, Owen-Hughes T, Blaxter M, Barton GJ.

Bioinformatics. 2015 Nov 15;31(22):3625-30. doi: 10.1093/bioinformatics/btv425. Epub 2015 Jul 23.

35.

The genomes of two key bumblebee species with primitive eusocial organization.

Sadd BM, Barribeau SM, Bloch G, de Graaf DC, Dearden P, Elsik CG, Gadau J, Grimmelikhuijzen CJ, Hasselmann M, Lozier JD, Robertson HM, Smagghe G, Stolle E, Van Vaerenbergh M, Waterhouse RM, Bornberg-Bauer E, Klasberg S, Bennett AK, Câmara F, Guigó R, Hoff K, Mariotti M, Munoz-Torres M, Murphy T, Santesmasses D, Amdam GV, Beckers M, Beye M, Biewer M, Bitondi MM, Blaxter ML, Bourke AF, Brown MJ, Buechel SD, Cameron R, Cappelle K, Carolan JC, Christiaens O, Ciborowski KL, Clarke DF, Colgan TJ, Collins DH, Cridge AG, Dalmay T, Dreier S, du Plessis L, Duncan E, Erler S, Evans J, Falcon T, Flores K, Freitas FC, Fuchikawa T, Gempe T, Hartfelder K, Hauser F, Helbing S, Humann FC, Irvine F, Jermiin LS, Johnson CE, Johnson RM, Jones AK, Kadowaki T, Kidner JH, Koch V, Köhler A, Kraus FB, Lattorff HM, Leask M, Lockett GA, Mallon EB, Antonio DS, Marxer M, Meeus I, Moritz RF, Nair A, Näpflin K, Nissen I, Niu J, Nunes FM, Oakeshott JG, Osborne A, Otte M, Pinheiro DG, Rossié N, Rueppell O, Santos CG, Schmid-Hempel R, Schmitt BD, Schulte C, Simões ZL, Soares MP, Swevers L, Winnebeck EC, Wolschin F, Yu N, Zdobnov EM, Aqrawi PK, Blankenburg KP, Coyle M, Francisco L, Hernandez AG, Holder M, Hudson ME, Jackson L, Jayaseelan J, Joshi V, Kovar C, Lee SL, Mata R, Mathew T, Newsham IF, Ngo R, Okwuonu G, Pham C, Pu LL, Saada N, Santibanez J, Simmons D, Thornton R, Venkat A, Walden KK, Wu YQ, Debyser G, Devreese B, Asher C, Blommaert J, Chipman AD, Chittka L, Fouks B, Liu J, O'Neill MP, Sumner S, Puiu D, Qu J, Salzberg SL, Scherer SE, Muzny DM, Richards S, Robinson GE, Gibbs RA, Schmid-Hempel P, Worley KC.

Genome Biol. 2015 Apr 24;16:76. doi: 10.1186/s13059-015-0623-3.

36.

A conserved set of maternal genes? Insights from a molluscan transcriptome.

Liu MM, Davey JW, Jackson DJ, Blaxter ML, Davison A.

Int J Dev Biol. 2014;58(6-8):501-11. doi: 10.1387/ijdb.140121ad.

37.

Ancient and novel small RNA pathways compensate for the loss of piRNAs in multiple independent nematode lineages.

Sarkies P, Selkirk ME, Jones JT, Blok V, Boothby T, Goldstein B, Hanelt B, Ardila-Garcia A, Fast NM, Schiffer PM, Kraus C, Taylor MJ, Koutsovoulos G, Blaxter ML, Miska EA.

PLoS Biol. 2015 Feb 10;13(2):e1002061. doi: 10.1371/journal.pbio.1002061. eCollection 2015 Feb.

38.

Extracellular Onchocerca-derived small RNAs in host nodules and blood.

Quintana JF, Makepeace BL, Babayan SA, Ivens A, Pfarr KM, Blaxter M, Debrah A, Wanji S, Ngangyung HF, Bah GS, Tanya VN, Taylor DW, Hoerauf A, Buck AH.

Parasit Vectors. 2015 Jan 27;8:58. doi: 10.1186/s13071-015-0656-1.

39.

Transcriptome analyses of Anguillicola crassus from native and novel hosts.

Heitlinger E, Taraschewski H, Weclawski U, Gharbi K, Blaxter M.

PeerJ. 2014 Nov 27;2:e684. doi: 10.7717/peerj.684. eCollection 2014.

40.

Exosomes secreted by nematode parasites transfer small RNAs to mammalian cells and modulate innate immunity.

Buck AH, Coakley G, Simbari F, McSorley HJ, Quintana JF, Le Bihan T, Kumar S, Abreu-Goodger C, Lear M, Harcus Y, Ceroni A, Babayan SA, Blaxter M, Ivens A, Maizels RM.

Nat Commun. 2014 Nov 25;5:5488. doi: 10.1038/ncomms6488. Erratum in: Nat Commun. 2015;6:8772.

41.

The evolution of tyrosine-recombinase elements in Nematoda.

Szitenberg A, Koutsovoulos G, Blaxter ML, Lunt DH.

PLoS One. 2014 Sep 8;9(9):e106630. doi: 10.1371/journal.pone.0106630. eCollection 2014.

42.

poRe: an R package for the visualization and analysis of nanopore sequencing data.

Watson M, Thomson M, Risse J, Talbot R, Santoyo-Lopez J, Gharbi K, Blaxter M.

Bioinformatics. 2015 Jan 1;31(1):114-5. doi: 10.1093/bioinformatics/btu590. Epub 2014 Aug 29.

43.

The evolution of parasitism in Nematoda.

Blaxter M, Koutsovoulos G.

Parasitology. 2015 Feb;142 Suppl 1:S26-39. doi: 10.1017/S0031182014000791. Epub 2014 Jun 25. Review.

44.

Comparative analysis of the secretome from a model filarial nematode (Litomosoides sigmodontis) reveals maximal diversity in gravid female parasites.

Armstrong SD, Babayan SA, Lhermitte-Vallarino N, Gray N, Xia D, Martin C, Kumar S, Taylor DW, Blaxter ML, Wastling JM, Makepeace BL.

Mol Cell Proteomics. 2014 Oct;13(10):2527-44. doi: 10.1074/mcp.M114.038539. Epub 2014 Jun 23.

45.

Palaeosymbiosis revealed by genomic fossils of Wolbachia in a strongyloidean nematode.

Koutsovoulos G, Makepeace B, Tanya VN, Blaxter M.

PLoS Genet. 2014 Jun 5;10(6):e1004397. doi: 10.1371/journal.pgen.1004397. eCollection 2014 Jun.

46.

The complex hybrid origins of the root knot nematodes revealed through comparative genomics.

Lunt DH, Kumar S, Koutsovoulos G, Blaxter ML.

PeerJ. 2014 May 6;2:e356. doi: 10.7717/peerj.356. eCollection 2014.

47.

Quality control of next-generation sequencing data without a reference.

Trivedi UH, Cézard T, Bridgett S, Montazam A, Nichols J, Blaxter M, Gharbi K.

Front Genet. 2014 May 6;5:111. doi: 10.3389/fgene.2014.00111. eCollection 2014.

48.

A critique of Rossberg et al.: Noise obscures the genetic signal of meiobiotal ecospecies in ecogenomic datasets.

Morgan MJ, Bass D, Bik H, Birky CW, Blaxter M, Crisp MD, Derycke S, Fitch D, Fontaneto D, Hardy CM, King AJ, Kiontke KC, Moens T, Pawlowski JW, Porazinska D, Tang CQ, Thomas WK, Yeates DK, Creer S.

Proc Biol Sci. 2014 Mar 26;281(1783):20133076. doi: 10.1098/rspb.2013.3076. Print 2014 May 22. No abstract available.

49.

Development: the maternal-zygotic transition revisited.

Blaxter M.

Curr Biol. 2014 Jan 20;24(2):R72-5. doi: 10.1016/j.cub.2013.11.051.

50.

The genome of Romanomermis culicivorax: revealing fundamental changes in the core developmental genetic toolkit in Nematoda.

Schiffer PH, Kroiher M, Kraus C, Koutsovoulos GD, Kumar S, Camps JI, Nsah NA, Stappert D, Morris K, Heger P, Altmüller J, Frommolt P, Nürnberg P, Thomas WK, Blaxter ML, Schierenberg E.

BMC Genomics. 2013 Dec 27;14:923. doi: 10.1186/1471-2164-14-923.

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