Publications by authors named "Frank Kauff"

28Publications

T-BAS: Tree-Based Alignment Selector toolkit for phylogenetic-based placement, alignment downloads and metadata visualization: an example with the Pezizomycotina tree of life.

Authors:
Ignazio Carbone James B White Jolanta Miadlikowska A Elizabeth Arnold Mark A Miller Frank Kauff Jana M U'Ren Georgiana May François Lutzoni

Bioinformatics 2017 04;33(8):1160-1168

Department of Biology, Duke University, Durham, NC 27708, USA.

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April 2017

Bendamustine plus rituximab versus fludarabine plus rituximab for patients with relapsed indolent and mantle-cell lymphomas: a multicentre, randomised, open-label, non-inferiority phase 3 trial.

Authors:
Mathias Rummel Ulrich Kaiser Christina Balser Martina Stauch Wolfram Brugger Manfred Welslau Norbert Niederle Christoph Losem Hans-Peter Boeck Eckhart Weidmann Ulrich von Gruenhagen Lothar Mueller Michael Sandherr Lars Hahn Julia Vereshchagina Frank Kauff Wolfgang Blau Axel Hinke Juergen Barth

Lancet Oncol 2016 Jan 5;17(1):57-66. Epub 2015 Dec 5.

Department of Haematology and Oncology, Justus-Liebig Universität, Giessen, Germany.

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January 2016

A multigene phylogenetic synthesis for the class Lecanoromycetes (Ascomycota): 1307 fungi representing 1139 infrageneric taxa, 317 genera and 66 families.

Authors:
Jolanta Miadlikowska Frank Kauff Filip Högnabba Jeffrey C Oliver Katalin Molnár Emily Fraker Ester Gaya Josef Hafellner Valérie Hofstetter Cécile Gueidan Mónica A G Otálora Brendan Hodkinson Martin Kukwa Robert Lücking Curtis Björk Harrie J M Sipman Ana Rosa Burgaz Arne Thell Alfredo Passo Leena Myllys Trevor Goward Samantha Fernández-Brime Geir Hestmark James Lendemer H Thorsten Lumbsch Michaela Schmull Conrad L Schoch Emmanuël Sérusiaux David R Maddison A Elizabeth Arnold François Lutzoni Soili Stenroos

Mol Phylogenet Evol 2014 Oct 18;79:132-68. Epub 2014 Apr 18.

Botanical Museum, Finnish Museum of Natural History, FI-00014 University of Helsinki, Finland.

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October 2014

A phylogenomics approach for selecting robust sets of phylogenetic markers.

Authors:
Salvador Capella-Gutierrez Frank Kauff Toni Gabaldón

Nucleic Acids Res 2014 Apr 29;42(7):e54. Epub 2014 Jan 29.

Bioinformatics and Genomics Programme. Centre for Genomic Regulation (CRG) and UPF. Doctor Aiguader, 88. 08003 Barcelona, Spain, Universitat Pompeu Fabra (UPF). 08003 Barcelona, Spain, University of Kaiserslautern, Molecular Phylogenetics, Postfach 3049, 67653 Kaiserslautern, Germany and Institució Catalana de Recerca i Estudis Avançats (ICREA), Pg. Lluís Companys 23, 08010 Barcelona, Spain.

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April 2014

Placing environmental next-generation sequencing amplicons from microbial eukaryotes into a phylogenetic context.

Authors:
Micah Dunthorn Johannes Otto Simon A Berger Alexandros Stamatakis Frédéric Mahé Sarah Romac Colomban de Vargas Stéphane Audic Alexandra Stock Frank Kauff Thorsten Stoeck

Mol Biol Evol 2014 Apr 27;31(4):993-1009. Epub 2014 Jan 27.

Department of Ecology, University of Kaiserslautern, Kaiserslautern, Germany.

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April 2014

Understanding phenotypical character evolution in parmelioid lichenized fungi (Parmeliaceae, Ascomycota).

Authors:
Pradeep K Divakar Frank Kauff Ana Crespo Steven D Leavitt H Thorsten Lumbsch

PLoS One 2013 29;8(11):e83115. Epub 2013 Nov 29.

Departamento de Biología Vegetal II, Facultad de Farmacia, Universidad Complutense de Madrid, Madrid, Spain.

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August 2014

Genotypic and phenotypic diversity of cyanobacteria in biological soil crusts of the Succulent Karoo and Nama Karoo of southern Africa.

Authors:
Stephanie Dojani Frank Kauff Bettina Weber Burkhard Büdel

Microb Ecol 2014 Feb 20;67(2):286-301. Epub 2013 Oct 20.

Department of Biology, Plant Ecology and Systematics, University of Kaiserslautern, Erwin-Schrödinger Str. 13, 67663, Kaiserslautern, Germany,

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February 2014

Protein import and oxidative folding in the mitochondrial intermembrane space of intact mammalian cells.

Authors:
Manuel Fischer Sebastian Horn Anouar Belkacemi Kerstin Kojer Carmelina Petrungaro Markus Habich Muna Ali Victoria Küttner Melanie Bien Frank Kauff Jörn Dengjel Johannes M Herrmann Jan Riemer

Mol Biol Cell 2013 Jul 15;24(14):2160-70. Epub 2013 May 15.

Cellular Biochemistry, University of Kaiserslautern, 67663 Kaiserslautern, Germany.

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July 2013

Partial suppression of Oxa1 mutants by mitochondria-targeted signal recognition particle provides insights into the evolution of the cotranslational insertion systems.

Authors:
Soledad Funes Heike Westerburg Fabiola Jaimes-Miranda Michael W Woellhaf Jose L Aguilar-Lopez Linda Janßen Nathalie Bonnefoy Frank Kauff Johannes M Herrmann

FEBS J 2013 Feb 2;280(3):904-15. Epub 2013 Jan 2.

Departamento de Genética Molecular, Instituto de Fisiología Celular, Ciudad Universitaria, Universidad Nacional Autónoma de México, Distrito Federal, Mexico.

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February 2013

Gray mold populations in german strawberry fields are resistant to multiple fungicides and dominated by a novel clade closely related to Botrytis cinerea.

Authors:
Michaela Leroch Cecilia Plesken Roland W S Weber Frank Kauff Gabriel Scalliet Matthias Hahn

Appl Environ Microbiol 2013 Jan 19;79(1):159-67. Epub 2012 Oct 19.

Department of Biology, University of Kaiserslautern, Kaiserslautern, Germany.

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January 2013

Frequent circumarctic and rare transequatorial dispersals in the lichenised agaric genus Lichenomphalia (Hygrophoraceae, Basidiomycota).

Authors:
József Geml Frank Kauff Christian Brochmann François Lutzoni Gary A Laursen Scott A Redhead D Lee Taylor

Fungal Biol 2012 Mar 30;116(3):388-400. Epub 2011 Dec 30.

National Herbarium of the Netherlands, Netherlands Centre for Biodiversity Naturalis, Leiden University, Einsteinweg 2, 2300 RA Leiden, The Netherlands.

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March 2012

Molecular Diversity of Fungi from Marine Oxygen-Deficient Environments (ODEs).

Authors:
Cathrine Sumathi Jebaraj Dominik Forster Frank Kauff Thorsten Stoeck

Prog Mol Subcell Biol 2012 ;53:189-208

National Institute of Oceanography, Council of Scientific and Industrial Research, Dona Paula, 403 004, Goa, India,

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April 2016

Phylogenetic affiliations of members of the heterogeneous lichen-forming fungi of the genus Lecidea sensu Zahlbruckner (Lecanoromycetes, Ascomycota).

Authors:
Michaela Schmull Jolanta Miadlikowska Monika Pelzer Elfie Stocker-Wörgötter Valerie Hofstetter Emily Fraker Brendan P Hodkinson Valerie Reeb Martin Kukwa H Thorsten Lumbsch Frank Kauff François Lutzoni

Mycologia 2011 Sep-Oct;103(5):983-1003. Epub 2011 Jun 3.

Department of Systematic Botany, Georg August University Göttingen, Göttingen, Germany.

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January 2012

Evolution of YidC/Oxa1/Alb3 insertases: three independent gene duplications followed by functional specialization in bacteria, mitochondria and chloroplasts.

Authors:
Soledad Funes Frank Kauff Eli O van der Sluis Martin Ott Johannes M Herrmann

Biol Chem 2011 Jan;392(1-2):13-9

Departamento de Genética Molecular, Instituto de Fisiología Celular, Circuito Exterior s/n, Ciudad Universitaria, Universidad Nacional Autónoma de México, Mexico D.F. 04510, Mexico.

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January 2011

Single origin and subsequent diversification of central Andean endemic Umbilicaria species.

Authors:
Geir Hestmark Jolanta Miadlikowska Frank Kauff Emily Fraker Katalin Molnar François Lutzoni

Mycologia 2011 Jan-Feb;103(1):45-56. Epub 2010 Sep 19.

Department of Biology, University of Oslo, Oslo, Norway.

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April 2011

A phylogenetic estimation of trophic transition networks for ascomycetous fungi: are lichens cradles of symbiotrophic fungal diversification?

Authors:
A Elizabeth Arnold Jolanta Miadlikowska K Lindsay Higgins Snehal D Sarvate Paul Gugger Amanda Way Valérie Hofstetter Frank Kauff François Lutzoni

Syst Biol 2009 Jun 11;58(3):283-97. Epub 2009 Jul 11.

Department of Biology, Duke University, Durham, NC 27708, USA.

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June 2009

Systematic analysis of the twin cx(9)c protein family.

Authors:
Sebastian Longen Melanie Bien Karl Bihlmaier Christine Kloeppel Frank Kauff Miriam Hammermeister Benedikt Westermann Johannes M Herrmann Jan Riemer

J Mol Biol 2009 Oct 21;393(2):356-68. Epub 2009 Aug 21.

University of Kaiserslautern, Germany.

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October 2009

Independent gene duplications of the YidC/Oxa/Alb3 family enabled a specialized cotranslational function.

Authors:
Soledad Funes Adnan Hasona Heike Bauerschmitt Caroline Grubbauer Frank Kauff Ryan Collins Paula J Crowley Sara R Palmer L Jeannine Brady Johannes M Herrmann

Proc Natl Acad Sci U S A 2009 Apr 6;106(16):6656-61. Epub 2009 Apr 6.

Gene Center, Department of Chemistry and Biochemistry, University of Munich, Feodor-Lynen Strasse 25, 81377 Munich, Germany.

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April 2009

The Ascomycota tree of life: a phylum-wide phylogeny clarifies the origin and evolution of fundamental reproductive and ecological traits.

Authors:
Conrad L Schoch Gi-Ho Sung Francesc López-Giráldez Jeffrey P Townsend Jolanta Miadlikowska Valérie Hofstetter Barbara Robbertse P Brandon Matheny Frank Kauff Zheng Wang Cécile Gueidan Rachael M Andrie Kristin Trippe Linda M Ciufetti Anja Wynns Emily Fraker Brendan P Hodkinson Gregory Bonito Johannes Z Groenewald Mahdi Arzanlou G Sybren de Hoog Pedro W Crous David Hewitt Donald H Pfister Kristin Peterson Marieka Gryzenhout Michael J Wingfield André Aptroot Sung-Oui Suh Meredith Blackwell David M Hillis Gareth W Griffith Lisa A Castlebury Amy Y Rossman H Thorsten Lumbsch Robert Lücking Burkhard Büdel Alexandra Rauhut Paul Diederich Damien Ertz David M Geiser Kentaro Hosaka Patrik Inderbitzin Jan Kohlmeyer Brigitte Volkmann-Kohlmeyer Lizel Mostert Kerry O'Donnell Harrie Sipman Jack D Rogers Robert A Shoemaker Junta Sugiyama Richard C Summerbell Wendy Untereiner Peter R Johnston Soili Stenroos Alga Zuccaro Paul S Dyer Peter D Crittenden Mariette S Cole Karen Hansen James M Trappe Rebecca Yahr François Lutzoni Joseph W Spatafora

Syst Biol 2009 Apr 4;58(2):224-39. Epub 2009 Jun 4.

Department of Botany and Plant Pathology, Oregon State University, Corvallis, OR 97331, USA.

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April 2009

Biopython: freely available Python tools for computational molecular biology and bioinformatics.

Authors:
Peter J A Cock Tiago Antao Jeffrey T Chang Brad A Chapman Cymon J Cox Andrew Dalke Iddo Friedberg Thomas Hamelryck Frank Kauff Bartek Wilczynski Michiel J L de Hoon

Bioinformatics 2009 Jun 20;25(11):1422-3. Epub 2009 Mar 20.

Plant Pathology, SCRI, Invergowrie, Dundee, UK.

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June 2009

Thiol oxidation in bacteria, mitochondria and chloroplasts: common principles but three unrelated machineries?

Authors:
Johannes M Herrmann Frank Kauff H Ekkehard Neuhaus

Biochim Biophys Acta 2009 Jan 15;1793(1):71-7. Epub 2008 May 15.

Cell Biology, University of Kaiserslautern, 67663 Kaiserslautern, Germany.

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January 2009

WASABI: an automated sequence processing system for multigene phylogenies.

Authors:
Frank Kauff Cymon J Cox François Lutzoni

Syst Biol 2007 Jun;56(3):523-31

Department of Biology, Duke University, Durham, NC 27708, USA.

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June 2007

New insights into classification and evolution of the Lecanoromycetes (Pezizomycotina, Ascomycota) from phylogenetic analyses of three ribosomal RNA- and two protein-coding genes.

Authors:
Jolanta Miadlikowska Frank Kauff Valérie Hofstetter Emily Fraker Martin Grube Josef Hafellner Valérie Reeb Brendan P Hodkinson Martin Kukwa Robert Lücking Geir Hestmark Monica Garcia Otalora Alexandra Rauhut Burkhard Büdel Christoph Scheidegger Einar Timdal Soili Stenroos Irwin Brodo Gary B Perlmutter Damien Ertz Paul Diederich James C Lendemer Philip May Conrad L Schoch A Elizabeth Arnold Cécile Gueidan Erin Tripp Rebecca Yahr Connie Robertson François Lutzoni

Mycologia 2006 Nov-Dec;98(6):1088-103

Department of Biology, Duke University, Durham, North Carolina 27708-0338, USA.

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October 2007

Eurotiomycetes: Eurotiomycetidae and Chaetothyriomycetidae.

Authors:
David M Geiser Cécile Gueidan Jolanta Miadlikowska François Lutzoni Frank Kauff Valérie Hofstetter Emily Fraker Conrad L Schoch Leif Tibell Wendy A Untereiner André Aptroot

Mycologia 2006 Nov-Dec;98(6):1053-64

Department of Plant Pathology, Pennsylvania State University, University Park 16802, USA.

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October 2007

Phylogenetic comparison of protein-coding versus ribosomal RNA-coding sequence data: a case study of the Lecanoromycetes (Ascomycota).

Authors:
Valérie Hofstetter Jolanta Miadlikowska Frank Kauff François Lutzoni

Mol Phylogenet Evol 2007 Jul 25;44(1):412-26. Epub 2006 Oct 25.

Department of Biology, Duke University, Durham, NC 27708-0338, USA.

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July 2007

Reconstructing the early evolution of Fungi using a six-gene phylogeny.

Authors:
Timothy Y James Frank Kauff Conrad L Schoch P Brandon Matheny Valérie Hofstetter Cymon J Cox Gail Celio Cécile Gueidan Emily Fraker Jolanta Miadlikowska H Thorsten Lumbsch Alexandra Rauhut Valérie Reeb A Elizabeth Arnold Anja Amtoft Jason E Stajich Kentaro Hosaka Gi-Ho Sung Desiree Johnson Ben O'Rourke Michael Crockett Manfred Binder Judd M Curtis Jason C Slot Zheng Wang Andrew W Wilson Arthur Schüssler Joyce E Longcore Kerry O'Donnell Sharon Mozley-Standridge David Porter Peter M Letcher Martha J Powell John W Taylor Merlin M White Gareth W Griffith David R Davies Richard A Humber Joseph B Morton Junta Sugiyama Amy Y Rossman Jack D Rogers Don H Pfister David Hewitt Karen Hansen Sarah Hambleton Robert A Shoemaker Jan Kohlmeyer Brigitte Volkmann-Kohlmeyer Robert A Spotts Maryna Serdani Pedro W Crous Karen W Hughes Kenji Matsuura Ewald Langer Gitta Langer Wendy A Untereiner Robert Lücking Burkhard Büdel David M Geiser André Aptroot Paul Diederich Imke Schmitt Matthias Schultz Rebecca Yahr David S Hibbett François Lutzoni David J McLaughlin Joseph W Spatafora Rytas Vilgalys

Nature 2006 Oct;443(7113):818-22

Department of Biology, Duke University, Durham, North Carolina 27708-0338, USA.

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October 2006

Assembling the fungal tree of life: progress, classification, and evolution of subcellular traits.

Authors:
François Lutzoni Frank Kauff Cymon J Cox David McLaughlin Gail Celio Bryn Dentinger Mahajabeen Padamsee David Hibbett Timothy Y James Elisabeth Baloch Martin Grube Valérie Reeb Valérie Hofstetter Conrad Schoch A Elizabeth Arnold Jolanta Miadlikowska Joseph Spatafora Desiree Johnson Sarah Hambleton Michael Crockett Robert Shoemaker Gi-Ho Sung Robert Lücking Thorsten Lumbsch Kerry O'Donnell Manfred Binder Paul Diederich Damien Ertz Cécile Gueidan Karen Hansen Richard C Harris Kentaro Hosaka Young-Woon Lim Brandon Matheny Hiromi Nishida Don Pfister Jack Rogers Amy Rossman Imke Schmitt Harrie Sipman Jeffrey Stone Junta Sugiyama Rebecca Yahr Rytas Vilgalys

Am J Bot 2004 Oct;91(10):1446-80

Department of Biology, Duke University, Durham, North Carolina 27708-0338 USA;

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October 2004

Phylogeny of the Gyalectales and Ostropales (Ascomycota, Fungi): among and within order relationships based on nuclear ribosomal RNA small and large subunits.

Authors:
Frank Kauff François Lutzoni

Mol Phylogenet Evol 2002 Oct;25(1):138-56

Abteilung Allgemeine Botanik, Fachbereich Biologie, Universität Kaiserslautern, Postfach 3049, 67653 Kaiserslautern, Germany.

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October 2002