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2020


Stevens K, Swadling JB, Hocher A, Bang C, Gribaldo S, Schmitz RA, Warnecke T

Histone variants and the evolution of combinatorial chromatin complexity

bioRxiv doi.org/10.1101/2020.04.13.037952

first published on bioRxiv


Kusmartsev V, Drozdz M, Schuster-Böckler B, Warnecke T

Cytosine methylation affects the mutability of neighbouring nucleotides in germline and soma

Genetics 214:809-23

first published on bioRxiv


Redhai S, Pilgrim C, Gaspar P, van Giesen L, Riabinina O, Grenier T, Milona A, Lopes A, Chanana B, Swadling JB, Wang Y-F, Dahalan F, Yuan M, Wilsch-Brauninger M, Lin W-H, Dennison N, Capriotti P, Lawniczak MKN, Baines RA, Warnecke T, Windbichler N, Leulier F, Bellono N, Miguel-Aliaga I

An intestinal zinc sensor regulates food intake and developmental growth

Nature 580:263-8


2019


Rojec M, Hocher A, Stevens KM, Merkenschlager M, Warnecke T

Chromatinization of Escherichia coli with archaeal histones

eLife 8:e49038

first published on bioRxiv


Hocher A, Rojec M, Swadling JB, Esin A, Warnecke T

The DNA-binding protein HTa from Thermoplasma acidophilum is an archaeal histone analog

eLife

first published on bioRxiv


2018


Esin A, Ellis T, Warnecke T

Horizontal gene flow into Geobacillus is constrained by the chromosomal organization of growth and sporulation

bioRxiv


Rudan M, Bou Dib P, Musa M, Kanunnikau M, Sobočanec S, Rueda D, Warnecke T*, Kriško A*

Normal mitochondrial function in Saccharomyces cerevisiae has become dependent on inefficient splicing

eLife 7:e35330


*co-senior/corresponding author


Esin A, Bergendahl LT, Savolainen V, Marsh JA, Warnecke T

The genetic basis and evolution of red blood cell sickling in deer

Nature Ecology and Evolution 2:367-376

first published on bioRxiv

  • highlighted in Science

    2017


    Repar J, Warnecke T

    Non-random inversion landscapes in prokaryotic genomes are shaped by heterogeneous selection pressures

    Molecular Biology and Evolution 34(8):1902-1911

    first published on bioRxiv


    Repar J, Warnecke T

    Mobile introns shape the genetic diversity of their host genes

    Genetics 205(4):1641-1648

    first published on bioRxiv


    Repar J, Supek F, Klanjscek T, Warnecke T, Zahradka K, Zahradka D

    Elevated rate of genome rearrangements in radio-resistant bacteria

    Genetics 205(4):1677-1689


    2016


    Borgel J, Tyl M, Schiller K, Pusztai Z, Dooley CM, Deng W, Wooding C, White RJ, Warnecke T, Leonhardt H, Busch-Nentwich EM, Bartke T

    KDM2A integrates DNA and histone modification signals through a CXXC/PHD module and direct interaction with HP1.

    Nucleic Acids Research 45(3):1114-1129


    2015


    Brbic M, Warnecke T, Krisko A, Supek F

    Global shifts in genome and proteome composition are very tightly coupled.

    Genome Biology and Evolution 7(6):1519–1532.


    Rudan M, Schneider D, Warnecke T*, Krisko A*

    RNA chaperones buffer deleterious mutations in E. coli.

    eLife 4:e04745.


    *co-senior/corresponding author


    2014


    Supek F, Lehner B, Hajkova P, Warnecke T

    Hydroxymethylated cytosines are associated with elevated C to G transversion rates.

    PLoS Genetics 10:e1004585.


    2013


    Warnecke T, Becker EA, Facciotti MT, Nislow C, Lehner B

    Conserved substitution patterns around nucleosome footprints in eukaryotes and archaea derive from frequent nucleosome repositioning through evolution.

    PLoS Computational Biology 9:e1003373


    Woods S, Coghlan A, Rivers D, Warnecke T, Jeffries SJ, Kwon T, Rogers A, Hurst LD, Ahringer J

    Duplication and retention biases of essential and non-essential genes revealed by systematic knockdown analyses.

    PLoS Genetics 9:e1003330


    2012


    Warnecke T, Supek F, Lehner B

    Nucleoid-associated proteins affect mutation dynamics in E. coli in a growth phase-specific manner.

    PLoS Computational Biology 8:e1002846


    Warnecke T

    Loss of the DnaK-DnaJ-GrpE chaperone system among the Aquificales.

    Molecular Biology and Evolution 29:3485-3495


    2011


    Warnecke T, Hurst LD

    Error prevention and mitigation as forces in the evolution of genes and genomes.

    Nature Reviews Genetics 12:875-881


    Warnecke T, Rocha EPC

    Function-specific accelerations in rates of sequence evolution suggest predictable epistatic responses to reduced effective population size.

    Molecular Biology and Evolution 28:2339-2349


    2010


    Warnecke T, Hurst LD

    GroEL dependency affects codon usage—support for a critical role of misfolding in gene evolution.

    Molecular Systems Biology 6:340


    Warnecke T, Huang Y, Przytycka TM, Hurst LD

    Unique cost dynamics elucidate the role of frameshifting errors in promoting translational robustness.

    Genome Biology and Evolution 2:636-645


    2009


    Warnecke T, Wang GZ, Lercher MJ, Hurst LD

    Does negative auto-regulation increase gene duplicability?

    BMC Evolutionary Biology 9:193


    Warnecke T, Weber CC, Hurst LD

    Why there is more to protein evolution than protein function: splicing, nucleosomes and dual-coding sequence.

    Biochemical Society Transactions 37:756-761


    2008


    Warnecke T, Batada NN, Hurst LD

    The impact of the nucleosome code on protein-coding sequence evolution in yeast.

    PLoS Genetics 4:e1000250


    Warnecke T, Parmley JL, Hurst LD

    Finding exonic islands in a sea of non-coding sequence: splicing related constraints on protein composition and evolution are common in intron-rich genomes.

    Genome Biology 9:R29


    2007


    Warnecke T, Hurst LD

    Evidence for a trade-off between translational efficiency and splicing regulation in determining synonymous codon usage in Drosophila melanogaster.

    Molecular Biology and Evolution 24:2755-2762



    • Publications