Journal ArticleDOI
Genome assembly, sex-biased gene expression and dosage compensation in the damselfly Ischnura elegans
Pallavi Chauhan,Janne Swaegers,Janne Swaegers,Rosa Ana Sánchez-Guillén,Erik I. Svensson,Maren Wellenreuther,Maren Wellenreuther,Bengt Hansson +7 more
TLDR
The evolution of sex chromosomes, and patterns of sex-biased gene expression and dosage compensation, are poorly known among early winged insects such as odonates as discussed by the authors, and the evolution of the X-chromosome and the patterns of dosage compensation and expression and expression patterns among these organisms were poorly known.About:
This article is published in Genomics.The article was published on 2021-07-01. It has received 13 citations till now. The article focuses on the topics: Dosage compensation & Doublesex.read more
Citations
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Journal ArticleDOI
Wolbachia-driven selective sweep in a range expanding insect species
Junchen Deng,Giacomo Assandri,Pallavi Chauhan,Ryo Futahashi,Andrea Galimberti,Bengt Hansson,Lesley T. Lancaster,Yuma Takahashi,Erik I. Svensson,Anne Duplouy +9 more
TL;DR: The findings provide an example of how endosymbiont infections ca shape spatial variation in their host evolutionary genetics during postglacial expansion and challenge population genetic studies that do not consider the prevalence of symbionts in many insects, which can impact geographic patterns of mitochondrial genetic diversity.
Journal ArticleDOI
Molecular mechanisms underlying metamorphosis in the most-ancestral winged insect
Genta Okude,Minoru Moriyama,Ryouka Kawahara-Miki,Shunsuke Yajima,Takema Fukatsu,Ryo Futahashi +5 more
TL;DR: In dragonflies, it is shown that transcription factors Kr-h1 and E93 are essential for regulating metamorphosis as in other insects, while broad, the master gene for pupation in holometabolous insects, regulates a number of both nymph-specific genes and adult- specific genes, providing insight into what evolutionary trajectory the key transcription factor broad has experienced before ending up with governing pupation and holometaboly.
Journal ArticleDOI
The genome sequence of the blue-tailed damselfly, Ischnura elegans (Vander Linden, 1820)
TL;DR: A genome assembly from an individual female Ischnura elegans (the blue-tailed damselfly) is presented, with the X sex chromosome assembled.
Journal ArticleDOI
Chromosome-level genome of the globe skimmer dragonfly (Pantala flavescens)
Hangwei Liu,Fangqing Jiang,Sen Wang,Hengchao Wang,Anqi Wang,Hanbo Zhao,Dong Xu,Boyuan Yang,Weifei Fan +8 more
TL;DR: The genome of P. flavescens provides more information on the biology and evolution of insects and will help for the use of this species in pest control.
Posted ContentDOI
Grasshopper genome reveals long-term conservation of the X chromosome and temporal variation in X chromosome evolution
TL;DR: The first chromosome-level genome assembly of the grasshopper, Locusta migratoria, shows evidence of a recent burst evolution for new X-linked genes in contrast to slow evolution of X-conserved genes, and reveals the X chromosome represents a hotspot for adaptive protein evolution related migration and the locust swarming phenotype.
References
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Journal ArticleDOI
Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2
TL;DR: This work presents DESeq2, a method for differential analysis of count data, using shrinkage estimation for dispersions and fold changes to improve stability and interpretability of estimates, which enables a more quantitative analysis focused on the strength rather than the mere presence of differential expression.
Journal ArticleDOI
Fast and accurate short read alignment with Burrows–Wheeler transform
Heng Li,Richard Durbin +1 more
TL;DR: Burrows-Wheeler Alignment tool (BWA) is implemented, a new read alignment package that is based on backward search with Burrows–Wheeler Transform (BWT), to efficiently align short sequencing reads against a large reference sequence such as the human genome, allowing mismatches and gaps.
Journal ArticleDOI
Fast gapped-read alignment with Bowtie 2
TL;DR: Bowtie 2 combines the strengths of the full-text minute index with the flexibility and speed of hardware-accelerated dynamic programming algorithms to achieve a combination of high speed, sensitivity and accuracy.
Journal ArticleDOI
BEDTools: a flexible suite of utilities for comparing genomic features
Aaron R. Quinlan,Ira M. Hall +1 more
TL;DR: A new software suite for the comparison, manipulation and annotation of genomic features in Browser Extensible Data (BED) and General Feature Format (GFF) format, which allows the user to compare large datasets (e.g. next-generation sequencing data) with both public and custom genome annotation tracks.
Journal ArticleDOI
RSEM: accurate transcript quantification from RNA-Seq data with or without a reference genome
Bo Li,Colin N. Dewey +1 more
TL;DR: It is shown that accurate gene-level abundance estimates are best obtained with large numbers of short single-end reads, and estimates of the relative frequencies of isoforms within single genes may be improved through the use of paired- end reads, depending on the number of possible splice forms for each gene.
Related Papers (5)
The X Chromosome of Hemipteran Insects: Conservation, Dosage Compensation and Sex-Biased Expression
Arka Pal,Beatriz Vicoso +1 more