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Items: 24

1.

A chromosome-level assembly of the Atlantic herring genome-detection of a supergene and other signals of selection.

Pettersson ME, Rochus CM, Han F, Chen J, Hill J, Wallerman O, Fan G, Hong X, Xu Q, Zhang H, Liu S, Liu X, Haggerty L, Hunt T, Martin FJ, Flicek P, Bunikis I, Folkvord A, Andersson L.

Genome Res. 2019 Nov;29(11):1919-1928. doi: 10.1101/gr.253435.119. Epub 2019 Oct 24.

2.

Confident phylogenetic identification of uncultured prokaryotes through long read amplicon sequencing of the 16S-ITS-23S rRNA operon.

Martijn J, Lind AE, Schön ME, Spiertz I, Juzokaite L, Bunikis I, Pettersson OV, Ettema TJG.

Environ Microbiol. 2019 Jul;21(7):2485-2498. doi: 10.1111/1462-2920.14636. Epub 2019 May 7.

3.

A hybrid de novo genome assembly of the honeybee, Apis mellifera, with chromosome-length scaffolds.

Wallberg A, Bunikis I, Pettersson OV, Mosbech MB, Childers AK, Evans JD, Mikheyev AS, Robertson HM, Robinson GE, Webster MT.

BMC Genomics. 2019 Apr 8;20(1):275. doi: 10.1186/s12864-019-5642-0.

4.

Regulatory changes in pterin and carotenoid genes underlie balanced color polymorphisms in the wall lizard.

Andrade P, Pinho C, Pérez I de Lanuza G, Afonso S, Brejcha J, Rubin CJ, Wallerman O, Pereira P, Sabatino SJ, Bellati A, Pellitteri-Rosa D, Bosakova Z, Bunikis I, Carretero MA, Feiner N, Marsik P, Paupério F, Salvi D, Soler L, While GM, Uller T, Font E, Andersson L, Carneiro M.

Proc Natl Acad Sci U S A. 2019 Mar 19;116(12):5633-5642. doi: 10.1073/pnas.1820320116. Epub 2019 Feb 28.

5.

Chromosomal inversions associated with environmental adaptation in honeybees.

Christmas MJ, Wallberg A, Bunikis I, Olsson A, Wallerman O, Webster MT.

Mol Ecol. 2019 Mar;28(6):1358-1374. doi: 10.1111/mec.14944. Epub 2018 Dec 21.

PMID:
30431193
6.

De Novo Assembly of Two Swedish Genomes Reveals Missing Segments from the Human GRCh38 Reference and Improves Variant Calling of Population-Scale Sequencing Data.

Ameur A, Che H, Martin M, Bunikis I, Dahlberg J, Höijer I, Häggqvist S, Vezzi F, Nordlund J, Olason P, Feuk L, Gyllensten U.

Genes (Basel). 2018 Oct 9;9(10). pii: E486. doi: 10.3390/genes9100486.

7.

Combination of short-read, long-read, and optical mapping assemblies reveals large-scale tandem repeat arrays with population genetic implications.

Weissensteiner MH, Pang AWC, Bunikis I, Höijer I, Vinnere-Petterson O, Suh A, Wolf JBW.

Genome Res. 2017 May;27(5):697-708. doi: 10.1101/gr.215095.116. Epub 2017 Mar 30.

8.

De novo assembly of Dekkera bruxellensis: a multi technology approach using short and long-read sequencing and optical mapping.

Olsen RA, Bunikis I, Tiukova I, Holmberg K, Lötstedt B, Pettersson OV, Passoth V, Käller M, Vezzi F.

Gigascience. 2015 Nov 26;4:56. doi: 10.1186/s13742-015-0094-1. eCollection 2015.

9.

Complete genome sequence of Borrelia afzelii K78 and comparative genome analysis.

Schüler W, Bunikis I, Weber-Lehman J, Comstedt P, Kutschan-Bunikis S, Stanek G, Huber J, Meinke A, Bergström S, Lundberg U.

PLoS One. 2015 Mar 23;10(3):e0120548. doi: 10.1371/journal.pone.0120548. eCollection 2015.

10.

CanvasDB: a local database infrastructure for analysis of targeted- and whole genome re-sequencing projects.

Ameur A, Bunikis I, Enroth S, Gyllensten U.

Database (Oxford). 2014 Oct 3;2014. pii: bau098. doi: 10.1093/database/bau098. Print 2014.

11.

Comprehensive profiling of the vaginal microbiome in HIV positive women using massive parallel semiconductor sequencing.

Ameur A, Meiring TL, Bunikis I, Häggqvist S, Lindau C, Lindberg JH, Gustavsson I, Mbulawa ZZ, Williamson AL, Gyllensten U.

Sci Rep. 2014 Mar 18;4:4398. doi: 10.1038/srep04398.

12.

Whole genome sequencing of the black grouse (Tetrao tetrix): reference guided assembly suggests faster-Z and MHC evolution.

Wang B, Ekblom R, Bunikis I, Siitari H, Höglund J.

BMC Genomics. 2014 Mar 6;15:180. doi: 10.1186/1471-2164-15-180.

13.

Transcriptome of the alternative ethanol production strain Dekkera bruxellensis CBS 11270 in sugar limited, low oxygen cultivation.

Tiukova IA, Petterson ME, Tellgren-Roth C, Bunikis I, Eberhard T, Pettersson OV, Passoth V.

PLoS One. 2013;8(3):e58455. doi: 10.1371/journal.pone.0058455. Epub 2013 Mar 13.

14.

Data-driven unbiased curation of the TP53 tumor suppressor gene mutation database and validation by ultradeep sequencing of human tumors.

Edlund K, Larsson O, Ameur A, Bunikis I, Gyllensten U, Leroy B, Sundström M, Micke P, Botling J, Soussi T.

Proc Natl Acad Sci U S A. 2012 Jun 12;109(24):9551-6. doi: 10.1073/pnas.1200019109. Epub 2012 May 24.

15.

DipA, a pore-forming protein in the outer membrane of Lyme disease spirochetes exhibits specificity for the permeation of dicarboxylates.

Thein M, Bonde M, Bunikis I, Denker K, Sickmann A, Bergström S, Benz R.

PLoS One. 2012;7(5):e36523. doi: 10.1371/journal.pone.0036523. Epub 2012 May 10.

16.

Specificity and role of the Borrelia burgdorferi CtpA protease in outer membrane protein processing.

Kumru OS, Bunikis I, Sorokina I, Bergström S, Zückert WR.

J Bacteriol. 2011 Oct;193(20):5759-65. doi: 10.1128/JB.05622-11. Epub 2011 Aug 19.

17.

Multiplex PCR as a tool for validating plasmid content of Borrelia burgdorferi.

Bunikis I, Kutschan-Bunikis S, Bonde M, Bergström S.

J Microbiol Methods. 2011 Aug;86(2):243-7. doi: 10.1016/j.mimet.2011.05.004. Epub 2011 May 12.

PMID:
21605603
18.

P66 porins are present in both Lyme disease and relapsing fever spirochetes: a comparison of the biophysical properties of P66 porins from six Borrelia species.

Bárcena-Uribarri I, Thein M, Sacher A, Bunikis I, Bonde M, Bergström S, Benz R.

Biochim Biophys Acta. 2010 Jun;1798(6):1197-203. doi: 10.1016/j.bbamem.2010.02.011. Epub 2010 Feb 25.

19.

Oms38 is the first identified pore-forming protein in the outer membrane of relapsing fever spirochetes.

Thein M, Bunikis I, Denker K, Larsson C, Cutler S, Drancourt M, Schwan TG, Mentele R, Lottspeich F, Bergström S, Benz R.

J Bacteriol. 2008 Nov;190(21):7035-42. doi: 10.1128/JB.00818-08. Epub 2008 Aug 29.

20.

An RND-type efflux system in Borrelia burgdorferi is involved in virulence and resistance to antimicrobial compounds.

Bunikis I, Denker K, Ostberg Y, Andersen C, Benz R, Bergström S.

PLoS Pathog. 2008 Feb 29;4(2):e1000009. doi: 10.1371/journal.ppat.1000009.

21.

Tickborne relapsing fever diagnosis obscured by malaria, Togo.

Nordstrand A, Bunikis I, Larsson C, Tsogbe K, Schwan TG, Nilsson M, Bergström S.

Emerg Infect Dis. 2007 Jan;13(1):117-23.

22.

The etiological agent of Lyme disease, Borrelia burgdorferi, appears to contain only a few small RNA molecules.

Ostberg Y, Bunikis I, Bergström S, Johansson J.

J Bacteriol. 2004 Dec;186(24):8472-7.

23.

[The identification of Borrelia isolated in the Soviet Union and Czechoslovakia from Ixodes ricinus (L.) ticks].

Kriuchechnikov VN, Korenberg EI, Shcherbakov SV, Gorelova NB, Jurzicová Z, Halouzka I, Hubálek Z, Kovalevskiĭ IuV, Levin ML, Bunikis IA.

Zh Mikrobiol Epidemiol Immunobiol. 1990 Jun;(6):10-3. Russian.

PMID:
2145716
24.

[Legionellosis in meat-packing combines of the Lithuanian SSR].

Bunikis IA, Moteiunas LI, Tartakovskiĭ IS, Gotvianskaia TP, Barkhatova OI.

Gig Tr Prof Zabol. 1989;(12):14-6. Russian.

PMID:
2628216

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