Transposable Elements versus the Fungal Genome: Impact on Whole-Genome Architecture and Transcriptional Profiles
出版年份 2016 全文链接
标题
Transposable Elements versus the Fungal Genome: Impact on Whole-Genome Architecture and Transcriptional Profiles
作者
关键词
Transposable elements, Fungal genomics, Genomic libraries, Fungal genetics, Gene expression, Basidiomycetes, Plant genomics, DNA methylation
出版物
PLoS Genetics
Volume 12, Issue 6, Pages e1006108
出版商
Public Library of Science (PLoS)
发表日期
2016-06-14
DOI
10.1371/journal.pgen.1006108
参考文献
相关参考文献
注意:仅列出部分参考文献,下载原文获取全部文献信息。- A Helitron transposon reconstructed from bats reveals a novel mechanism of genome shuffling in eukaryotes
- (2016) Ivana Grabundzija et al. Nature Communications
- Whole genome comparative analysis of transposable elements provides new insight into mechanisms of their inactivation in fungal genomes
- (2015) Joëlle Amselem et al. BMC GENOMICS
- Convergent losses of decay mechanisms and rapid turnover of symbiosis genes in mycorrhizal mutualists
- (2015) Annegret Kohler et al. NATURE GENETICS
- Genome-wide profiling of DNA methylation provides insights into epigenetic regulation of fungal development in a plant pathogenic fungus, Magnaporthe oryzae
- (2015) Junhyun Jeon et al. Scientific Reports
- Endogenous Small RNA Mediates Meiotic Silencing of a Novel DNA Transposon
- (2015) Yizhou Wang et al. G3-Genes Genomes Genetics
- The landscape of transposable elements in the finished genome of the fungal wheat pathogen Mycosphaerella graminicola
- (2015) Braham Dhillon et al. BMC GENOMICS
- HTSeq--a Python framework to work with high-throughput sequencing data
- (2014) S. Anders et al. BIOINFORMATICS
- RAxML version 8: a tool for phylogenetic analysis and post-analysis of large phylogenies
- (2014) Alexandros Stamatakis BIOINFORMATICS
- Highly expressed captured genes and cross-kingdom domains present in Helitrons create novel diversity in Pleurotus ostreatus and other fungi
- (2014) Raúl Castanera et al. BMC GENOMICS
- Transposable element-assisted evolution and adaptation to host plant within the Leptosphaeria maculans-Leptosphaeria biglobosa species complex of fungal pathogens
- (2014) Jonathan Grandaubert et al. BMC GENOMICS
- Spy: A New Group of Eukaryotic DNA Transposons without Target Site Duplications
- (2014) Min-Jin Han et al. Genome Biology and Evolution
- Transposable Element Dynamics among Asymbiotic and Ectomycorrhizal Amanita Fungi
- (2014) Jaqueline Hess et al. Genome Biology and Evolution
- Populus trichocarpa and Populus deltoides Exhibit Different Metabolomic Responses to Colonization by the Symbiotic Fungus Laccaria bicolor
- (2014) Timothy J. Tschaplinski et al. MOLECULAR PLANT-MICROBE INTERACTIONS
- Illumina TruSeq Synthetic Long-Reads Empower De Novo Assembly and Resolve Complex, Highly-Repetitive Transposable Elements
- (2014) Rajiv C. McCoy et al. PLoS One
- Extensive sampling of basidiomycete genomes demonstrates inadequacy of the white-rot/brown-rot paradigm for wood decay fungi
- (2014) Robert Riley et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
- Domesticated retroviral GAG gene in Drosophila: New functions for an old gene
- (2014) L.N. Nefedova et al. VIROLOGY
- Genome-wide transcriptional profiling of Botrytis cinerea genes targeting plant cell walls during infections of different hosts
- (2014) Barbara Blanco-Ulate et al. Frontiers in Plant Science
- “One code to find them all”: a perl tool to conveniently parse RepeatMasker output files
- (2014) Marc Bailly-Bechet et al. Mobile DNA
- MycoCosm portal: gearing up for 1000 fungal genomes
- (2013) Igor V. Grigoriev et al. NUCLEIC ACIDS RESEARCH
- DIRS and Ngaro Retrotransposons in Fungi
- (2013) Anna Muszewska et al. PLoS One
- Transposon Variants and Their Effects on Gene Expression in Arabidopsis
- (2013) Xi Wang et al. PLoS Genetics
- Transcriptome analyses during fruiting body formation in Fusarium graminearum and Fusarium verticillioides reflect species life history and ecology
- (2012) Usha Rani Sikhakolli et al. FUNGAL GENETICS AND BIOLOGY
- Patterns of Repeat-Induced Point Mutation in Transposable Elements of Basidiomycete Fungi
- (2012) Felix Horns et al. Genome Biology and Evolution
- A second-generation assembly of the Drosophila simulans genome provides new insights into patterns of lineage-specific divergence
- (2012) T. T. Hu et al. GENOME RESEARCH
- SINE Retrotransposons Cause Epigenetic Reprogramming of Adjacent Gene Promoters
- (2012) M. R. H. Estecio et al. MOLECULAR CANCER RESEARCH
- Characterization of Transposable Elements in the Ectomycorrhizal Fungus Laccaria bicolor
- (2012) Jessy Labbé et al. PLoS One
- The Paleozoic Origin of Enzymatic Lignin Decomposition Reconstructed from 31 Fungal Genomes
- (2012) D. Floudas et al. SCIENCE
- Transposable element small RNAs as regulators of gene expression
- (2012) Andrea D. McCue et al. TRENDS IN GENETICS
- RSEM: accurate transcript quantification from RNA-Seq data with or without a reference genome
- (2011) Bo Li et al. BMC BIOINFORMATICS
- Gene Capture by Helitron Transposons Reshuffles the Transcriptome of Maize
- (2011) A. M. Barbaglia et al. GENETICS
- FungiDB: an integrated functional genomics database for fungi
- (2011) J. E. Stajich et al. NUCLEIC ACIDS RESEARCH
- Frequent Gene Movement and Pseudogene Evolution Is Common to the Large and Complex Genomes of Wheat, Barley, and Their Relatives
- (2011) Thomas Wicker et al. PLANT CELL
- Considering Transposable Element Diversification in De Novo Annotation Approaches
- (2011) Timothée Flutre et al. PLoS One
- LTR Retrotransposons in Fungi
- (2011) Anna Muszewska et al. PLoS One
- Obligate biotrophy features unraveled by the genomic analysis of rust fungi
- (2011) S. Duplessis et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
- BEDTools: a flexible suite of utilities for comparing genomic features
- (2010) Aaron R. Quinlan et al. BIOINFORMATICS
- Search and clustering orders of magnitude faster than BLAST
- (2010) Robert C. Edgar BIOINFORMATICS
- Genomic evidence of repeat-induced point mutation (RIP) in filamentous ascomycetes
- (2010) A. John Clutterbuck FUNGAL GENETICS AND BIOLOGY
- Transposable elements in the mammalian germline: a comfortable niche or a deadly trap?
- (2010) N Zamudio et al. HEREDITY
- Périgord black truffle genome uncovers evolutionary origins and mechanisms of symbiosis
- (2010) Francis Martin et al. NATURE
- Comparative genomics reveals mobile pathogenicity chromosomes in Fusarium
- (2010) Li-Jun Ma et al. NATURE
- Limitations of next-generation genome sequence assembly
- (2010) Can Alkan et al. NATURE METHODS
- Genome-Wide Evolutionary Analysis of Eukaryotic DNA Methylation
- (2010) A. Zemach et al. SCIENCE
- Promiscuous DNA: horizontal transfer of transposable elements and why it matters for eukaryotic evolution
- (2010) Sarah Schaack et al. TRENDS IN ECOLOGY & EVOLUTION
- Control of Transcription by Cell Size
- (2010) Chia-Yung Wu et al. PLOS BIOLOGY
- trimAl: a tool for automated alignment trimming in large-scale phylogenetic analyses
- (2009) S. Capella-Gutierrez et al. BIOINFORMATICS
- TopHat: discovering splice junctions with RNA-Seq
- (2009) Cole Trapnell et al. BIOINFORMATICS
- The Sequence Alignment/Map format and SAMtools
- (2009) H. Li et al. BIOINFORMATICS
- Epigenetic silencing of transposable elements: A trade-off between reduced transposition and deleterious effects on neighboring gene expression
- (2009) J. D. Hollister et al. GENOME RESEARCH
- Identifying repeats and transposable elements in sequenced genomes: how to find your way through the dense forest of programs
- (2009) E Lerat HEREDITY
- FastTree: Computing Large Minimum Evolution Trees with Profiles instead of a Distance Matrix
- (2009) M. N. Price et al. MOLECULAR BIOLOGY AND EVOLUTION
- The B73 Maize Genome: Complexity, Diversity, and Dynamics
- (2009) P. S. Schnable et al. SCIENCE
- Ultrafast and memory-efficient alignment of short DNA sequences to the human genome
- (2009) Ben Langmead et al. GENOME BIOLOGY
- LTRharvest, an efficient and flexible software for de novo detection of LTR retrotransposons
- (2008) David Ellinghaus et al. BMC BIOINFORMATICS
- Horizontal gene transfer in eukaryotic evolution
- (2008) Patrick J. Keeling et al. NATURE REVIEWS GENETICS
- Transposable elements and the evolution of regulatory networks
- (2008) Cédric Feschotte NATURE REVIEWS GENETICS
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