Long-read based assembly and synteny analysis of a reference Drosophila subobscura genome reveals signatures of structural evolution driven by inversions recombination-suppression effects
出版年份 2019 全文链接
标题
Long-read based assembly and synteny analysis of a reference Drosophila subobscura genome reveals signatures of structural evolution driven by inversions recombination-suppression effects
作者
关键词
Genome structure evolution, Inversion originating mechanisms, Inversion fixation and polymorphism, Spatiotemporally fluctuating selection, Adaptation, Global change
出版物
BMC GENOMICS
Volume 20, Issue 1, Pages -
出版商
Springer Nature
发表日期
2019-03-18
DOI
10.1186/s12864-019-5590-8
参考文献
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注意：仅列出部分参考文献，下载原文获取全部文献信息。- The high-quality genome sequence of the oceanic island endemic species Drosophila guanche reveals signals of adaptive evolution in genes related to flight and genome stability
- (2018) Eva Puerma et al. Genome Biology and Evolution
- Chromosomal inversions promote genomic islands of concerted evolution of Hsp70 genes in the Drosophila subobscura species subgroup
- (2018) Marta Puig Giribets et al. MOLECULAR ECOLOGY
- UniProt: the universal protein knowledgebase
- (2018) The UniProt Consortium NUCLEIC ACIDS RESEARCH
- Local adaptation and the evolution of inversions on sex chromosomes and autosomes
- (2018) Tim Connallon et al. PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES
- Computational Sequence Analysis of Inversion Breakpoint Regions in the Cactophilic Drosophila mojavensis Lineage
- (2018) Alejandra Delprat et al. JOURNAL OF HEREDITY
- HINGE: long-read assembly achieves optimal repeat resolution
- (2017) Govinda M. Kamath et al. GENOME RESEARCH
- Canu: scalable and accurate long-read assembly via adaptivek-mer weighting and repeat separation
- (2017) Sergey Koren et al. GENOME RESEARCH
- Optogenetic Activation of thefruitless-Labeled Circuitry inDrosophila subobscuraMales Induces Mating Motor Acts
- (2017) Ryoya Tanaka et al. JOURNAL OF NEUROSCIENCE
- TimeTree: A Resource for Timelines, Timetrees, and Divergence Times
- (2017) Sudhir Kumar et al. MOLECULAR BIOLOGY AND EVOLUTION
- MECAT: fast mapping, error correction, and de novo assembly for single-molecule sequencing reads
- (2017) Chuan-Le Xiao et al. NATURE METHODS
- Inversion evolutionary rates might limit the experimental identification of inversion breakpoints in non-model species
- (2017) Eva Puerma et al. Scientific Reports
- Fast and Accurate Estimates of Divergence Times from Big Data
- (2016) Beatriz Mello et al. MOLECULAR BIOLOGY AND EVOLUTION
- MEGA7: Molecular Evolutionary Genetics Analysis Version 7.0 for Bigger Datasets
- (2016) Sudhir Kumar et al. MOLECULAR BIOLOGY AND EVOLUTION
- Phased diploid genome assembly with single-molecule real-time sequencing
- (2016) Chen-Shan Chin et al. NATURE METHODS
- FlyBase at 25: looking to the future
- (2016) L. Sian Gramates et al. NUCLEIC ACIDS RESEARCH
- Expansion of the Gene Ontology knowledgebase and resources
- (2016) NUCLEIC ACIDS RESEARCH
- InterPro in 2017—beyond protein family and domain annotations
- (2016) Robert D. Finn et al. NUCLEIC ACIDS RESEARCH
- Multiple and diverse structural changes affect the breakpoint regions of polymorphic inversions across the Drosophila genus
- (2016) Eva Puerma et al. Scientific Reports
- The large X-effect on secondary sexual characters and the genetics of variation in sex comb tooth number inDrosophila subobscura
- (2016) Briana E. Mittleman et al. Ecology and Evolution
- BUSCO: assessing genome assembly and annotation completeness with single-copy orthologs
- (2015) Felipe A. Simão et al. BIOINFORMATICS
- A molecular perspective on a complex polymorphic inversion system with cytological evidence of multiply reused breakpoints
- (2015) D J Orengo et al. HEREDITY
- Individual inversions or their combinations: which is the main selective target in a natural population ofDrosophila subobscura?
- (2015) G. Zivanovic et al. JOURNAL OF EVOLUTIONARY BIOLOGY
- Within-population genetic effects of mtDNA on metabolic rate inDrosophila subobscura
- (2015) Z. Kurbalija Novičić et al. JOURNAL OF EVOLUTIONARY BIOLOGY
- Inferring the demographic history ofDrosophila subobscurafrom nucleotide variation at regions not affected by chromosomal inversions
- (2015) Roser Pratdesaba et al. MOLECULAR ECOLOGY
- The Pfam protein families database: towards a more sustainable future
- (2015) Robert D. Finn et al. NUCLEIC ACIDS RESEARCH
- Repbase Update, a database of repetitive elements in eukaryotic genomes
- (2015) Weidong Bao et al. Mobile DNA
- PacBio Sequencing and Its Applications
- (2015) Anthony Rhoads et al. GENOMICS PROTEOMICS & BIOINFORMATICS
- InterProScan 5: genome-scale protein function classification
- (2014) P. Jones et al. BIOINFORMATICS
- SSPACE-LongRead: scaffolding bacterial draft genomes using long read sequence information
- (2014) Marten Boetzer et al. BMC BIOINFORMATICS
- Characterization of the complete mitochondrial genome of flower-breeding Drosophila incompta (Diptera, Drosophilidae)
- (2014) F. C. De Ré et al. GENETICA
- How much can history constrain adaptive evolution? A real-time evolutionary approach of inversion polymorphisms inDrosophila subobscura
- (2014) I. Fragata et al. JOURNAL OF EVOLUTIONARY BIOLOGY
- Genome-wide evolutionary response to a heat wave in Drosophila
- (2013) F. Rodriguez-Trelles et al. Biology Letters
- True polyandry and pseudopolyandry: why does a monandrous fly remate?
- (2013) David N Fisher et al. BMC EVOLUTIONARY BIOLOGY
- INTROGRESSION IN THEDROSOPHILA SUBOBSCURA-D. MADEIRENSISSISTER SPECIES: EVIDENCE OF GENE FLOW IN NUCLEAR GENES DESPITE MITOCHONDRIAL DIFFERENTIATION
- (2013) Danielle K. Herrig et al. EVOLUTION
- Estimating Gene Gain and Loss Rates in the Presence of Error in Genome Assembly and Annotation Using CAFE 3
- (2013) Mira V. Han et al. MOLECULAR BIOLOGY AND EVOLUTION
- MAFFT Multiple Sequence Alignment Software Version 7: Improvements in Performance and Usability
- (2013) K. Katoh et al. MOLECULAR BIOLOGY AND EVOLUTION
- Phylogenetic analysis and a time tree for a large drosophilid data set (Diptera: Drosophilidae)
- (2013) Claudia A. M. Russo et al. ZOOLOGICAL JOURNAL OF THE LINNEAN SOCIETY
- Estimating Divergence Dates and Substitution Rates in the Drosophila Phylogeny
- (2012) Darren J. Obbard et al. MOLECULAR BIOLOGY AND EVOLUTION
- MITOS: Improved de novo metazoan mitochondrial genome annotation
- (2012) Matthias Bernt et al. MOLECULAR PHYLOGENETICS AND EVOLUTION
- Mind the Gap: Upgrading Genomes with Pacific Biosciences RS Long-Read Sequencing Technology
- (2012) Adam C. English et al. PLoS One
- A fast, lock-free approach for efficient parallel counting of occurrences of k-mers
- (2011) Guillaume Marçais et al. BIOINFORMATICS
- MAKER2: an annotation pipeline and genome-database management tool for second-generation genome projects
- (2011) Carson Holt et al. BMC BIOINFORMATICS
- Mitochondrial DNA effects on fitness in Drosophila subobscura
- (2011) J S Christie et al. HEREDITY
- SyMAP v3.4: a turnkey synteny system with application to plant genomes
- (2011) Carol Soderlund et al. NUCLEIC ACIDS RESEARCH
- REVIGO Summarizes and Visualizes Long Lists of Gene Ontology Terms
- (2011) Fran Supek et al. PLoS One
- Bacterial Communities of Diverse Drosophila Species: Ecological Context of a Host–Microbe Model System
- (2011) James Angus Chandler et al. PLoS Genetics
- FISH mapping of microsatellite loci from Drosophila subobscura and its comparison to related species
- (2010) Josiane Santos et al. CHROMOSOME RESEARCH
- Climate change and chromosomal inversions in Drosophila subobscura
- (2010) EL Rezende et al. CLIMATE RESEARCH
- Satellite DNA and speciation: A species specific satellite DNA of Drosophila guanchel
- (2010) L. Bachmann et al. JOURNAL OF ZOOLOGICAL SYSTEMATICS AND EVOLUTIONARY RESEARCH
- Drosophilidae of Madeira, with the description of Drosophila madeirensis-n. sp
- (2010) M. Monclús JOURNAL OF ZOOLOGICAL SYSTEMATICS AND EVOLUTIONARY RESEARCH
- Evaluation of Five Methods for Total DNA Extraction from Western Corn Rootworm Beetles
- (2010) Hong Chen et al. PLoS One
- How and Why Chromosome Inversions Evolve
- (2010) Mark Kirkpatrick PLOS BIOLOGY
- The chromosomal polymorphism of Drosophila subobscura: a microevolutionary weapon to monitor global change
- (2009) J Balanyà et al. HEREDITY
- Measuring evolutionary responses to global warming: cautionary lessons fromDrosophila
- (2009) FRANCISCO RODRÃGUEZ-TRELLES et al. Insect Conservation and Diversity
- SNAP: a web-based tool for identification and annotation of proxy SNPs using HapMap
- (2008) A. D. Johnson et al. BIOINFORMATICS
- WHAT USE IS AN INFERTILE SPERM? A COMPARATIVE STUDY OF SPERM-HETEROMORPHIC DROSOPHILA
- (2008) Luke Holman et al. EVOLUTION
- Chromosomal Rearrangement Inferred From Comparisons of 12 Drosophila Genomes
- (2008) A. Bhutkar et al. GENETICS
- Genome size diversity in the family Drosophilidae
- (2008) T R Gregory et al. HEREDITY
- The long-term ecology of the lost forests of La Laguna, Tenerife (Canary Islands)
- (2008) Lea de Nascimento et al. JOURNAL OF BIOGEOGRAPHY
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