Sequencing of mitochondrial genomes of nine Aspergillus and Penicillium species identifies mobile introns and accessory genes as main sources of genome size variability

[1]  A. Tavare Scientists are to investigate “three parent IVF” for preventing mitochondrial diseases , 2012, BMJ : British Medical Journal.

[2]  H. Osiewacz,et al.  Cellular homeostasis in fungi: impact on the aging process. , 2012, Sub-cellular biochemistry.

[3]  Peer Bork,et al.  Insight into Structure and Assembly of the Nuclear Pore Complex by Utilizing the Genome of a Eukaryotic Thermophile , 2011, Cell.

[4]  N. Larsson,et al.  Mitochondrial DNA mutations in disease and aging , 2011, The Journal of cell biology.

[5]  B. Posteraro,et al.  Contribution of CgPDR1-Regulated Genes in Enhanced Virulence of Azole-Resistant Candida glabrata , 2011, PloS one.

[6]  B. Stoddard,et al.  Homing endonucleases: from microbial genetic invaders to reagents for targeted DNA modification. , 2011, Structure.

[7]  G. Goldman,et al.  Involvement of an Alternative Oxidase in Oxidative Stress and Mycelium-to-Yeast Differentiation in Paracoccidioides brasiliensis , 2010, Eukaryotic Cell.

[8]  C. Basse Mitochondrial inheritance in fungi. , 2010, Current opinion in microbiology.

[9]  H. Osiewacz,et al.  Mitochondrial pathways governing stress resistance, life, and death in the fungal aging model Podospora anserina , 2010, Annals of the New York Academy of Sciences.

[10]  R. Hoekstra,et al.  Mitochondrial recombination increases with age in Podospora anserina , 2010, Mechanisms of Ageing and Development.

[11]  Cecilia Saccone,et al.  Towards barcode markers in Fungi: an intron map of Ascomycota mitochondria , 2009, BMC Bioinformatics.

[12]  Sergey Koren,et al.  Aggressive assembly of pyrosequencing reads with mates , 2008, Bioinform..

[13]  Andriy Kovalchuk,et al.  Genome sequencing and analysis of the filamentous fungus Penicillium chrysogenum , 2008, Nature Biotechnology.

[14]  A. Lambowitz,et al.  Identification and evolution of fungal mitochondrial tyrosyl-tRNA synthetases with group I intron splicing activity , 2008, Proceedings of the National Academy of Sciences.

[15]  C. Vágvölgyi,et al.  Comparative analysis of the complete mitochondrial genomes of Aspergillus niger mtDNA type 1a and Aspergillus tubingensis mtDNA type 2b. , 2008, FEMS microbiology letters.

[16]  Jaideep P. Sundaram,et al.  Genomic Islands in the Pathogenic Filamentous Fungus Aspergillus fumigatus , 2008, PLoS genetics.

[17]  S. Peterson Phylogenetic analysis of Aspergillus species using DNA sequences from four loci , 2008, Mycologia.

[18]  R. Maheshwari,et al.  Senescence in fungi: the view from Neurospora. , 2008, FEMS microbiology letters.

[19]  B. McDonald,et al.  Intraspecific comparison and annotation of two complete mitochondrial genome sequences from the plant pathogenic fungus Mycosphaerella graminicola. , 2007, Fungal genetics and biology : FG & B.

[20]  J. Galagan,et al.  Aspergillus nidulans Genome and a Comparative Analysis of Genome Evolution in Aspergillus , 2007 .

[21]  Gustavo H. Goldman,et al.  The aspergilli: genomics, medical aspects, biotechnology, and research methods. , 2007 .

[22]  James K. Hane,et al.  Dothideomycete–Plant Interactions Illuminated by Genome Sequencing and EST Analysis of the Wheat Pathogen Stagonospora nodorum[W][OA] , 2007, The Plant Cell Online.

[23]  R. Hoekstra,et al.  Integration of a pAL2-1 homologous mitochondrial plasmid associated with life span extension in Podospora anserina. , 2007, Fungal genetics and biology : FG & B.

[24]  D. Hoffmeister,et al.  Natural products of filamentous fungi: enzymes, genes, and their regulation. , 2007, Natural product reports.

[25]  J. A. Roubos,et al.  Genome sequencing and analysis of the versatile cell factory Aspergillus niger CBS 513.88 , 2007, Nature Biotechnology.

[26]  C. Vágvölgyi,et al.  Interpretation of mtDNA RFLP variability among Aspergillus tubingensis isolates , 2007, Antonie van Leeuwenhoek.

[27]  Eileen Kraemer,et al.  SynView: a GBrowse-compatible approach to visualizing comparative genome data , 2006, Bioinform..

[28]  N. Brown,et al.  Invasive fungal infections: a review of epidemiology and management options. , 2006, Journal of medical microbiology.

[29]  de Winde,et al.  University of Groningen Genome sequencing and analysis of the versatile cell factory Aspergillus niger CBS 513.88 Pel, , 2006 .

[30]  William H. Majoros,et al.  Genomic sequence of the pathogenic and allergenic filamentous fungus Aspergillus fumigatus , 2005, Nature.

[31]  K. Isono,et al.  Genome sequencing and analysis of Aspergillus oryzae , 2005, Nature.

[32]  Christina A. Cuomo,et al.  Sequencing of Aspergillus nidulans and comparative analysis with A. fumigatus and A. oryzae , 2005, Nature.

[33]  Thomas Ludwig,et al.  RAxML-III: a fast program for maximum likelihood-based inference of large phylogenetic trees , 2005, Bioinform..

[34]  M. P. Cummings PHYLIP (Phylogeny Inference Package) , 2004 .

[35]  Robert C. Edgar,et al.  MUSCLE: multiple sequence alignment with high accuracy and high throughput. , 2004, Nucleic acids research.

[36]  A. Griffiths,et al.  A new senescence-inducing mitochondrial linear plasmid in field-isolated Neurospora crassa strains from India , 1991, Current Genetics.

[37]  Kenneth L. McNally,et al.  The complete DNA sequence of the mitochondrial genome of Podospora anserina , 1990, Current Genetics.

[38]  Samson S. Y. Wong,et al.  The mitochondrial genome of the thermal dimorphic fungus Penicillium marneffei is more closely related to those of molds than yeasts , 2003, FEBS letters.

[39]  C. Stoeckert,et al.  OrthoMCL: identification of ortholog groups for eukaryotic genomes. , 2003, Genome research.

[40]  A. Gácser,et al.  Interpretation of intraspecific variability in mtDNAs of Aspergillus niger strains and rearrangement of their mtDNAs following mitochondrial transmissions. , 2003, FEMS microbiology letters.

[41]  S. Salzberg,et al.  Fast algorithms for large-scale genome alignment and comparison. , 2002, Nucleic acids research.

[42]  Á. Juhász,et al.  Role of mobile introns in mitochondrial genome diversity of fungi (a mini review). , 2002, Acta microbiologica et immunologica Hungarica.

[43]  D. Sanglard,et al.  Role of ATP-Binding-Cassette Transporter Genes in High-Frequency Acquisition of Resistance to Azole Antifungals in Candida glabrata , 2001, Antimicrobial Agents and Chemotherapy.

[44]  Kim Rutherford,et al.  Artemis: sequence visualization and annotation , 2000, Bioinform..

[45]  Wei Qian,et al.  Selection of conserved blocks from multiple alignments for their use in phylogenetic analysis. , 2000, Molecular biology and evolution.

[46]  A. Burt,et al.  Recurrent invasion and extinction of a selfish gene. , 1999, Proceedings of the National Academy of Sciences of the United States of America.

[47]  B. Purnelle,et al.  The complete sequence of the mitochondrial genome of Saccharomyces cerevisiae , 1998, FEBS letters.

[48]  R J Roberts,et al.  Homing endonucleases: keeping the house in order. , 1997, Nucleic acids research.

[49]  R. Waring,et al.  Self-splicing activity of the mitochondrial group-I introns from Aspergillus nidulans and related introns from other species , 1997, Current Genetics.

[50]  B. Barrell,et al.  Life with 6000 Genes , 1996, Science.

[51]  A. Griffiths,et al.  Natural plasmids of filamentous fungi. , 1995, Microbiological reviews.

[52]  J. D. Parsons,et al.  Miropeats: graphical DNA sequence comparisons , 1995, Comput. Appl. Biosci..

[53]  J. Sugiyama,et al.  Is Penicillium monophyletic? An evaluation of phylogeny in the family Trichocomaceae from 18S, 5.8S and ITS ribosomal DNA sequence data. , 1995 .

[54]  A. Cherniack,et al.  The mitochondrial tyrosyl-tRNA synthetase of Podospora anserina is a bifunctional enzyme active in protein synthesis and RNA splicing , 1992, Molecular and cellular biology.

[55]  A. Lambowitz,et al.  Structural analysis of the Neurospora mitochondrial large rRNA intron and construction of a mini-intron that shows protein-dependent splicing. , 1991, The Journal of biological chemistry.

[56]  E. Westhof,et al.  Modelling of the three-dimensional architecture of group I catalytic introns based on comparative sequence analysis. , 1990, Journal of molecular biology.

[57]  E. Myers,et al.  Basic local alignment search tool. , 1990, Journal of molecular biology.

[58]  R. Collins,et al.  A group II intron in the Neurospora mitochondrial coI gene: nucleotide sequence and implications for splicing and molecular evolution. , 1989, Nucleic acids research.

[59]  C. Jacq,et al.  Site-specific DNA endonuclease and RNA maturase activities of two homologous intron-encoded proteins from yeast mitochondria , 1989, Cell.

[60]  R. Saldanha,et al.  A latent intron-encoded maturase is also an endonuclease needed for intron mobility , 1989, Cell.

[61]  John I. Pitt,et al.  Advances in Penicillium and Aspergillus Systematics , 1986, NATO ASI Series.

[62]  A. Lambowitz,et al.  Mitochondrial ribosome assembly in Neurospora. Structural analysis of mature and partially assembled ribosomal subunits by equilibrium centrifugation in CsCl gradients , 1982, The Journal of cell biology.

[63]  A. Lambowitz,et al.  Mitochondrial ribosome assembly in Neurospora crassa. Purification of the mitochondrially synthesized ribosomal protein, S-5. , 1981, The Journal of biological chemistry.

[64]  A. Lambowitz,et al.  Mitochondrial ribosome assembly in Neurospora crassa. Chloramphenicol inhibits the maturation of small ribosomal subunits. , 1977, Journal of molecular biology.