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Items: 35

1.

The Volcano Rabbit in the Phylogenetic Network of Lagomorphs.

Sparwel M, Doronina L, Churakov G, Stegemann A, Brosius J, Robinson TJ, Schmitz J.

Genome Biol Evol. 2019 Jan 1;11(1):11-16. doi: 10.1093/gbe/evy257.

2.

Speciation network in Laurasiatheria: retrophylogenomic signals.

Doronina L, Churakov G, Kuritzin A, Shi J, Baertsch R, Clawson H, Schmitz J.

Genome Res. 2017 Jun;27(6):997-1003. doi: 10.1101/gr.210948.116. Epub 2017 Mar 15.

3.

The Beaver's Phylogenetic Lineage Illuminated by Retroposon Reads.

Doronina L, Matzke A, Churakov G, Stoll M, Huge A, Schmitz J.

Sci Rep. 2017 Mar 3;7:43562. doi: 10.1038/srep43562.

4.

Genome sequence of the basal haplorrhine primate Tarsius syrichta reveals unusual insertions.

Schmitz J, Noll A, Raabe CA, Churakov G, Voss R, Kiefmann M, Rozhdestvensky T, Brosius J, Baertsch R, Clawson H, Roos C, Zimin A, Minx P, Montague MJ, Wilson RK, Warren WC.

Nat Commun. 2016 Oct 6;7:12997. doi: 10.1038/ncomms12997.

5.

Genomic analysis reveals hidden biodiversity within colugos, the sister group to primates.

Mason VC, Li G, Minx P, Schmitz J, Churakov G, Doronina L, Melin AD, Dominy NJ, Lim NT, Springer MS, Wilson RK, Warren WC, Helgen KM, Murphy WJ.

Sci Adv. 2016 Aug 10;2(8):e1600633. doi: 10.1126/sciadv.1600633. eCollection 2016 Aug.

6.

Incomplete Lineage Sorting and Hybridization Statistics for Large-Scale Retroposon Insertion Data.

Kuritzin A, Kischka T, Schmitz J, Churakov G.

PLoS Comput Biol. 2016 Mar 11;12(3):e1004812. doi: 10.1371/journal.pcbi.1004812. eCollection 2016 Mar.

7.

The genome of the vervet (Chlorocebus aethiops sabaeus).

Warren WC, Jasinska AJ, García-Pérez R, Svardal H, Tomlinson C, Rocchi M, Archidiacono N, Capozzi O, Minx P, Montague MJ, Kyung K, Hillier LW, Kremitzki M, Graves T, Chiang C, Hughes J, Tran N, Huang Y, Ramensky V, Choi OW, Jung YJ, Schmitt CA, Juretic N, Wasserscheid J, Turner TR, Wiseman RW, Tuscher JJ, Karl JA, Schmitz JE, Zahn R, O'Connor DH, Redmond E, Nisbett A, Jacquelin B, Müller-Trutwin MC, Brenchley JM, Dione M, Antonio M, Schroth GP, Kaplan JR, Jorgensen MJ, Thomas GW, Hahn MW, Raney BJ, Aken B, Nag R, Schmitz J, Churakov G, Noll A, Stanyon R, Webb D, Thibaud-Nissen F, Nordborg M, Marques-Bonet T, Dewar K, Weinstock GM, Wilson RK, Freimer NB.

Genome Res. 2015 Dec;25(12):1921-33. doi: 10.1101/gr.192922.115. Epub 2015 Sep 16.

8.

Exploring Massive Incomplete Lineage Sorting in Arctoids (Laurasiatheria, Carnivora).

Doronina L, Churakov G, Shi J, Brosius J, Baertsch R, Clawson H, Schmitz J.

Mol Biol Evol. 2015 Dec;32(12):3194-204. doi: 10.1093/molbev/msv188. Epub 2015 Sep 3.

PMID:
26337548
9.

Corrigendum: Retrophylogenomics Place Tarsiers on the Evolutionary Branch of Anthropoids.

Hartig G, Churakov G, Warren WC, Brosius J, Makałowski W, Schmitz J.

Sci Rep. 2015 Jul 28;5:12590. doi: 10.1038/srep12590. No abstract available.

10.

Ancient traces of tailless retropseudogenes in therian genomes.

Noll A, Raabe CA, Churakov G, Brosius J, Schmitz J.

Genome Biol Evol. 2015 Feb 26;7(3):889-900. doi: 10.1093/gbe/evv040.

11.

Multiple lineages of ancient CR1 retroposons shaped the early genome evolution of amniotes.

Suh A, Churakov G, Ramakodi MP, Platt RN 2nd, Jurka J, Kojima KK, Caballero J, Smit AF, Vliet KA, Hoffmann FG, Brosius J, Green RE, Braun EL, Ray DA, Schmitz J.

Genome Biol Evol. 2014 Dec 11;7(1):205-17. doi: 10.1093/gbe/evu256.

12.

GPAC-genome presence/absence compiler: a web application to comparatively visualize multiple genome-level changes.

Noll A, Grundmann N, Churakov G, Brosius J, Makałowski W, Schmitz J.

Mol Biol Evol. 2015 Jan;32(1):275-86. doi: 10.1093/molbev/msu276. Epub 2014 Sep 25.

PMID:
25261406
13.

Retrophylogenomics place tarsiers on the evolutionary branch of anthropoids.

Hartig G, Churakov G, Warren WC, Brosius J, Makałowski W, Schmitz J.

Sci Rep. 2013;3:1756. doi: 10.1038/srep01756. Erratum in: Sci Rep. 2015;5:12590.

14.

Ancestry of the Australian termitivorous numbat.

Zemann A, Churakov G, Donnellan S, Grützner F, Zhao F, Brosius J, Schmitz J.

Mol Biol Evol. 2013 May;30(5):1041-5. doi: 10.1093/molbev/mst032. Epub 2013 Feb 21.

PMID:
23429857
15.

Retroposon insertion patterns of neoavian birds: strong evidence for an extensive incomplete lineage sorting era.

Matzke A, Churakov G, Berkes P, Arms EM, Kelsey D, Brosius J, Kriegs JO, Schmitz J.

Mol Biol Evol. 2012 Jun;29(6):1497-501. doi: 10.1093/molbev/msr319. Epub 2012 Jan 3.

PMID:
22319163
16.

Mesozoic retroposons reveal parrots as the closest living relatives of passerine birds.

Suh A, Paus M, Kiefmann M, Churakov G, Franke FA, Brosius J, Kriegs JO, Schmitz J.

Nat Commun. 2011 Aug 23;2:443. doi: 10.1038/ncomms1448.

17.

A novel web-based TinT application and the chronology of the Primate Alu retroposon activity.

Churakov G, Grundmann N, Kuritzin A, Brosius J, Makałowski W, Schmitz J.

BMC Evol Biol. 2010 Dec 2;10:376. doi: 10.1186/1471-2148-10-376.

18.

Tracking marsupial evolution using archaic genomic retroposon insertions.

Nilsson MA, Churakov G, Sommer M, Tran NV, Zemann A, Brosius J, Schmitz J.

PLoS Biol. 2010 Jul 27;8(7):e1000436. doi: 10.1371/journal.pbio.1000436.

19.

Retroposon insertions provide insights into deep lagomorph evolution.

Kriegs JO, Zemann A, Churakov G, Matzke A, Ohme M, Zischler H, Brosius J, Kryger U, Schmitz J.

Mol Biol Evol. 2010 Dec;27(12):2678-81. doi: 10.1093/molbev/msq162. Epub 2010 Jun 28.

PMID:
20584773
20.

Rodent evolution: back to the root.

Churakov G, Sadasivuni MK, Rosenbloom KR, Huchon D, Brosius J, Schmitz J.

Mol Biol Evol. 2010 Jun;27(6):1315-26. doi: 10.1093/molbev/msq019. Epub 2010 Jan 25.

PMID:
20100942
21.

[The pattern of major urinary proteins (MUPS) expression during postnatal ontogenesis of a laboratory mouse depends on genotype and sex].

Novikov SN, Churakov GA, Filimonenko AA, Ermakova II, Fedorova EM, Burkot IA.

Ontogenez. 2009 Jul-Aug;40(4):261-9. Russian.

PMID:
19705757
22.

Mosaic retroposon insertion patterns in placental mammals.

Churakov G, Kriegs JO, Baertsch R, Zemann A, Brosius J, Schmitz J.

Genome Res. 2009 May;19(5):868-75. doi: 10.1101/gr.090647.108. Epub 2009 Mar 4.

23.

Genome analysis of the platypus reveals unique signatures of evolution.

Warren WC, Hillier LW, Marshall Graves JA, Birney E, Ponting CP, Grützner F, Belov K, Miller W, Clarke L, Chinwalla AT, Yang SP, Heger A, Locke DP, Miethke P, Waters PD, Veyrunes F, Fulton L, Fulton B, Graves T, Wallis J, Puente XS, López-Otín C, Ordóñez GR, Eichler EE, Chen L, Cheng Z, Deakin JE, Alsop A, Thompson K, Kirby P, Papenfuss AT, Wakefield MJ, Olender T, Lancet D, Huttley GA, Smit AF, Pask A, Temple-Smith P, Batzer MA, Walker JA, Konkel MK, Harris RS, Whittington CM, Wong ES, Gemmell NJ, Buschiazzo E, Vargas Jentzsch IM, Merkel A, Schmitz J, Zemann A, Churakov G, Kriegs JO, Brosius J, Murchison EP, Sachidanandam R, Smith C, Hannon GJ, Tsend-Ayush E, McMillan D, Attenborough R, Rens W, Ferguson-Smith M, Lefèvre CM, Sharp JA, Nicholas KR, Ray DA, Kube M, Reinhardt R, Pringle TH, Taylor J, Jones RC, Nixon B, Dacheux JL, Niwa H, Sekita Y, Huang X, Stark A, Kheradpour P, Kellis M, Flicek P, Chen Y, Webber C, Hardison R, Nelson J, Hallsworth-Pepin K, Delehaunty K, Markovic C, Minx P, Feng Y, Kremitzki C, Mitreva M, Glasscock J, Wylie T, Wohldmann P, Thiru P, Nhan MN, Pohl CS, Smith SM, Hou S, Nefedov M, de Jong PJ, Renfree MB, Mardis ER, Wilson RK.

Nature. 2008 May 8;453(7192):175-83. doi: 10.1038/nature06936. Erratum in: Nature. 2008 Sep 11;455(7210):256. Nefedov, Mikhail [added]; de Jong, Pieter J [added].

24.

Retroposed SNOfall--a mammalian-wide comparison of platypus snoRNAs.

Schmitz J, Zemann A, Churakov G, Kuhl H, Grützner F, Reinhardt R, Brosius J.

Genome Res. 2008 Jun;18(6):1005-10. doi: 10.1101/gr.7177908. Epub 2008 May 7.

25.

Waves of genomic hitchhikers shed light on the evolution of gamebirds (Aves: Galliformes).

Kriegs JO, Matzke A, Churakov G, Kuritzin A, Mayr G, Brosius J, Schmitz J.

BMC Evol Biol. 2007 Oct 9;7:190.

26.

Retroposed elements and their flanking regions resolve the evolutionary history of xenarthran mammals (armadillos, anteaters, and sloths).

Möller-Krull M, Delsuc F, Churakov G, Marker C, Superina M, Brosius J, Douzery EJ, Schmitz J.

Mol Biol Evol. 2007 Nov;24(11):2573-82. Epub 2007 Sep 19.

27.

Evolutionary history of 7SL RNA-derived SINEs in Supraprimates.

Kriegs JO, Churakov G, Jurka J, Brosius J, Schmitz J.

Trends Genet. 2007 Apr;23(4):158-61. Epub 2007 Feb 20. Review.

PMID:
17307271
28.

Retroposed elements as archives for the evolutionary history of placental mammals.

Kriegs JO, Churakov G, Kiefmann M, Jordan U, Brosius J, Schmitz J.

PLoS Biol. 2006 Apr;4(4):e91. Epub 2006 Mar 14.

29.

A novel abundant family of retroposed elements (DAS-SINEs) in the nine-banded armadillo (Dasypus novemcinctus).

Churakov G, Smit AF, Brosius J, Schmitz J.

Mol Biol Evol. 2005 Apr;22(4):886-93. Epub 2004 Dec 22.

PMID:
15616140
30.

A novel class of mammalian-specific tailless retropseudogenes.

Schmitz J, Churakov G, Zischler H, Brosius J.

Genome Res. 2004 Oct;14(10A):1911-5. Epub 2004 Sep 13.

31.

RNomics in Escherichia coli detects new sRNA species and indicates parallel transcriptional output in bacteria.

Vogel J, Bartels V, Tang TH, Churakov G, Slagter-Jäger JG, Hüttenhofer A, Wagner EG.

Nucleic Acids Res. 2003 Nov 15;31(22):6435-43.

32.

Specific anosmia to isovaleric acid in laboratory C57BL/6 mice: recessive inheritance.

Novikov SN, Troitskaya VT, Gladysheva OS, Churakov GA.

Dokl Biol Sci. 2002 Nov-Dec;387:505-7. No abstract available.

PMID:
12577624
33.
34.
35.

[Seasonal variability of the intrauterine position of the fetus in laboratory mice as a potential microevolution vector].

Novikov SN, Churakov GA.

Dokl Akad Nauk. 1999 Oct;368(5):717-20. Russian. No abstract available.

PMID:
10613274

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