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Items: 38

1.

ICBdocker: a Docker image for proteome annotation and visualization.

Bordin N, Devos DP.

Bioinformatics. 2018 Jun 19. doi: 10.1093/bioinformatics/bty493. [Epub ahead of print]

PMID:
29931249
2.

PVCbase: an integrated web resource for the PVC bacterial proteomes.

Bordin N, González-Sánchez JC, Devos DP.

Database (Oxford). 2018 Jan 1;2018. doi: 10.1093/database/bay042.

3.

Introduction to papers from the third meeting on the Planctomycetes-Verrucomicrobia-Chlamydiae bacteria: new model organisms in the omics era.

Lage OM, Devos DP.

Antonie Van Leeuwenhoek. 2018 Jun;111(6):783-784. doi: 10.1007/s10482-018-1089-6. Epub 2018 Apr 25. No abstract available.

PMID:
29696455
4.

4Cin: A computational pipeline for 3D genome modeling and virtual Hi-C analyses from 4C data.

Irastorza-Azcarate I, Acemel RD, Tena JJ, Maeso I, Gómez-Skarmeta JL, Devos DP.

PLoS Comput Biol. 2018 Mar 9;14(3):e1006030. doi: 10.1371/journal.pcbi.1006030. eCollection 2018 Mar.

5.

Correction: The Compartmentalized Bacteria of the Planctomycetes-Verrucomicrobia-Chlamydiae Superphylum Have Membrane Coat-Like Proteins.

Santarella-Mellwig R, Franke J, Jaedicke A, Gorjánácz M, Bauer U, Budd A, Mattaj IW, Devos DP.

PLoS Biol. 2018 Feb 14;16(2):e1002620. doi: 10.1371/journal.pbio.1002620. eCollection 2018 Feb.

6.

The Paradigms They Are a-Changin': past, present and future of PVC bacteria research.

Rivas-Marín E, Devos DP.

Antonie Van Leeuwenhoek. 2018 Jun;111(6):785-799. doi: 10.1007/s10482-017-0962-z. Epub 2017 Oct 20. Review.

7.

Editorial: Planctomycetes-Verrucomicrobia-Chlamydiae Bacterial Superphylum: New Model Organisms for Evolutionary Cell Biology.

van Niftrik L, Devos DP.

Front Microbiol. 2017 Aug 2;8:1458. doi: 10.3389/fmicb.2017.01458. eCollection 2017. No abstract available.

8.

Regulatory landscape fusion in rhabdomyosarcoma through interactions between the PAX3 promoter and FOXO1 regulatory elements.

Vicente-García C, Villarejo-Balcells B, Irastorza-Azcárate I, Naranjo S, Acemel RD, Tena JJ, Rigby PWJ, Devos DP, Gómez-Skarmeta JL, Carvajal JJ.

Genome Biol. 2017 Jun 14;18(1):106. doi: 10.1186/s13059-017-1225-z.

9.

Determining the bacterial cell biology of Planctomycetes.

Boedeker C, Schüler M, Reintjes G, Jeske O, van Teeseling MC, Jogler M, Rast P, Borchert D, Devos DP, Kucklick M, Schaffer M, Kolter R, van Niftrik L, Engelmann S, Amann R, Rohde M, Engelhardt H, Jogler C.

Nat Commun. 2017 Apr 10;8:14853. doi: 10.1038/ncomms14853.

10.

The In Vivo Architecture of the Exocyst Provides Structural Basis for Exocytosis.

Picco A, Irastorza-Azcarate I, Specht T, Böke D, Pazos I, Rivier-Cordey AS, Devos DP, Kaksonen M, Gallego O.

Cell. 2017 Jan 26;168(3):400-412.e18. doi: 10.1016/j.cell.2017.01.004.

11.

Evolutionary Cell Biology of Division Mode in the Bacterial Planctomycetes-Verrucomicrobia- Chlamydiae Superphylum.

Rivas-Marín E, Canosa I, Devos DP.

Front Microbiol. 2016 Dec 6;7:1964. doi: 10.3389/fmicb.2016.01964. eCollection 2016. Review.

12.

The changing view of eukaryogenesis - fossils, cells, lineages and how they all come together.

Dacks JB, Field MC, Buick R, Eme L, Gribaldo S, Roger AJ, Brochier-Armanet C, Devos DP.

J Cell Sci. 2016 Oct 15;129(20):3695-3703. Epub 2016 Sep 26. Review.

13.

Development of Genetic Tools for the Manipulation of the Planctomycetes.

Rivas-Marín E, Canosa I, Santero E, Devos DP.

Front Microbiol. 2016 Jun 16;7:914. doi: 10.3389/fmicb.2016.00914. eCollection 2016.

14.

A single three-dimensional chromatin compartment in amphioxus indicates a stepwise evolution of vertebrate Hox bimodal regulation.

Acemel RD, Tena JJ, Irastorza-Azcarate I, Marlétaz F, Gómez-Marín C, de la Calle-Mustienes E, Bertrand S, Diaz SG, Aldea D, Aury JM, Mangenot S, Holland PW, Devos DP, Maeso I, Escrivá H, Gómez-Skarmeta JL.

Nat Genet. 2016 Mar;48(3):336-41. doi: 10.1038/ng.3497. Epub 2016 Feb 1.

PMID:
26829752
15.

Efficient and automated large-scale detection of structural relationships in proteins with a flexible aligner.

Gutiérrez FI, Rodriguez-Valenzuela F, Ibarra IL, Devos DP, Melo F.

BMC Bioinformatics. 2016 Jan 5;17:20. doi: 10.1186/s12859-015-0866-8.

16.

A multi-functional tubulovesicular network as the ancestral eukaryotic endomembrane system.

González-Sánchez JC, Costa R, Devos DP.

Biology (Basel). 2015 Mar 24;4(2):264-81. doi: 10.3390/biology4020264. Review.

17.

Ten simple rules for organizing an unconference.

Budd A, Dinkel H, Corpas M, Fuller JC, Rubinat L, Devos DP, Khoueiry PH, Förstner KU, Georgatos F, Rowland F, Sharan M, Binder JX, Grace T, Traphagen K, Gristwood A, Wood NT.

PLoS Comput Biol. 2015 Jan 29;11(1):e1003905. doi: 10.1371/journal.pcbi.1003905. eCollection 2015 Jan. No abstract available.

18.

Mind the PVCs.

Devos DP, Ward NL.

Environ Microbiol. 2014 May;16(5):1217-21. doi: 10.1111/1462-2920.12349. No abstract available.

19.

The nucleoporin MEL-28 promotes RanGTP-dependent γ-tubulin recruitment and microtubule nucleation in mitotic spindle formation.

Yokoyama H, Koch B, Walczak R, Ciray-Duygu F, González-Sánchez JC, Devos DP, Mattaj IW, Gruss OJ.

Nat Commun. 2014;5:3270. doi: 10.1038/ncomms4270.

PMID:
24509916
20.

Evolution of the nucleus.

Devos DP, Gräf R, Field MC.

Curr Opin Cell Biol. 2014 Jun;28:8-15. doi: 10.1016/j.ceb.2014.01.004. Epub 2014 Feb 6. Review.

21.

Subtle changes in motif positioning cause tissue-specific effects on robustness of an enhancer's activity.

Erceg J, Saunders TE, Girardot C, Devos DP, Hufnagel L, Furlong EE.

PLoS Genet. 2014 Jan;10(1):e1004060. doi: 10.1371/journal.pgen.1004060. Epub 2014 Jan 2.

22.

Re-interpretation of the evidence for the PVC cell plan supports a Gram-negative origin.

Devos DP.

Antonie Van Leeuwenhoek. 2014 Feb;105(2):271-4. doi: 10.1007/s10482-013-0087-y. Epub 2013 Dec 1.

PMID:
24292377
23.

PVC bacteria: variation of, but not exception to, the Gram-negative cell plan.

Devos DP.

Trends Microbiol. 2014 Jan;22(1):14-20. doi: 10.1016/j.tim.2013.10.008. Epub 2013 Nov 26.

PMID:
24286661
24.

A bacterial tubulovesicular network.

Acehan D, Santarella-Mellwig R, Devos DP.

J Cell Sci. 2014 Jan 15;127(Pt 2):277-80. doi: 10.1242/jcs.137596. Epub 2013 Nov 20.

25.

The 1st EMBO workshop on PVC bacteria-Planctomycetes-Verrucomicrobia-Chlamydiae superphylum: exceptions to the bacterial definition?

Devos DP, Jogler C, Fuerst JA.

Antonie Van Leeuwenhoek. 2013 Oct;104(4):443-9. doi: 10.1007/s10482-013-0026-y. Epub 2013 Sep 20.

26.

Gemmata obscuriglobus.

Devos DP.

Curr Biol. 2013 Sep 9;23(17):R705-7. doi: 10.1016/j.cub.2013.07.013. No abstract available.

27.

Three-dimensional reconstruction of bacteria with a complex endomembrane system.

Santarella-Mellwig R, Pruggnaller S, Roos N, Mattaj IW, Devos DP.

PLoS Biol. 2013;11(5):e1001565. doi: 10.1371/journal.pbio.1001565. Epub 2013 May 21.

28.
29.

Regarding the presence of membrane coat proteins in bacteria: confusion? What confusion?

Devos DP.

Bioessays. 2012 Jan;34(1):38-9. doi: 10.1002/bies.201100147. Epub 2011 Oct 28. No abstract available.

PMID:
22183969
30.

Analysis of the yeast nucleoporin Nup188 reveals a conserved S-like structure with similarity to karyopherins.

Flemming D, Devos DP, Schwarz J, Amlacher S, Lutzmann M, Hurt E.

J Struct Biol. 2012 Jan;177(1):99-105. doi: 10.1016/j.jsb.2011.11.008. Epub 2011 Nov 22.

PMID:
22138091
31.

Transitional forms between the three domains of life and evolutionary implications.

Reynaud EG, Devos DP.

Proc Biol Sci. 2011 Nov 22;278(1723):3321-8. doi: 10.1098/rspb.2011.1581. Epub 2011 Sep 14.

32.

Insight into structure and assembly of the nuclear pore complex by utilizing the genome of a eukaryotic thermophile.

Amlacher S, Sarges P, Flemming D, van Noort V, Kunze R, Devos DP, Arumugam M, Bork P, Hurt E.

Cell. 2011 Jul 22;146(2):277-89. doi: 10.1016/j.cell.2011.06.039.

33.

The three-dimensional molecular structure of the desmosomal plaque.

Al-Amoudi A, Castaño-Diez D, Devos DP, Russell RB, Johnson GT, Frangakis AS.

Proc Natl Acad Sci U S A. 2011 Apr 19;108(16):6480-5. doi: 10.1073/pnas.1019469108. Epub 2011 Apr 4.

34.

A conserved coatomer-related complex containing Sec13 and Seh1 dynamically associates with the vacuole in Saccharomyces cerevisiae.

Dokudovskaya S, Waharte F, Schlessinger A, Pieper U, Devos DP, Cristea IM, Williams R, Salamero J, Chait BT, Sali A, Field MC, Rout MP, Dargemont C.

Mol Cell Proteomics. 2011 Jun;10(6):M110.006478. doi: 10.1074/mcp.M110.006478. Epub 2011 Mar 31.

35.

Evolution. Intermediate steps.

Devos DP, Reynaud EG.

Science. 2010 Nov 26;330(6008):1187-8. doi: 10.1126/science.1196720. No abstract available.

PMID:
21109658
36.

Conformational flexibility of RNA polymerase III during transcriptional elongation.

Fernández-Tornero C, Böttcher B, Rashid UJ, Steuerwald U, Flörchinger B, Devos DP, Lindner D, Müller CW.

EMBO J. 2010 Nov 17;29(22):3762-72. doi: 10.1038/emboj.2010.266. Epub 2010 Oct 22.

37.

Endocytosis-like protein uptake in the bacterium Gemmata obscuriglobus.

Lonhienne TG, Sagulenko E, Webb RI, Lee KC, Franke J, Devos DP, Nouwens A, Carroll BJ, Fuerst JA.

Proc Natl Acad Sci U S A. 2010 Jul 20;107(29):12883-8. doi: 10.1073/pnas.1001085107. Epub 2010 Jun 21.

38.

The compartmentalized bacteria of the planctomycetes-verrucomicrobia-chlamydiae superphylum have membrane coat-like proteins.

Santarella-Mellwig R, Franke J, Jaedicke A, Gorjanacz M, Bauer U, Budd A, Mattaj IW, Devos DP.

PLoS Biol. 2010 Jan 19;8(1):e1000281. doi: 10.1371/journal.pbio.1000281. Erratum in: PLoS Biol. 2018 Feb 14;16(2):e1002620.

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