Molecular and evolutionary processes generating variation in gene expression

MS Hill, P Vande Zande, PJ Wittkopp - Nature Reviews Genetics, 2021 - nature.com
Heritable variation in gene expression is common within and between species. This
variation arises from mutations that alter the form or function of molecular gene regulatory …

The evolution of gene expression in cis and trans

SA Signor, SV Nuzhdin - Trends in Genetics, 2018 - cell.com
There is abundant variation in gene expression between individuals, populations, and
species. The evolution of gene regulation and expression within and between species is …

Data quality aware analysis of differential expression in RNA-seq with NOISeq R/Bioc package

S Tarazona, P Furió-Tarí, D Turrà, AD Pietro… - Nucleic acids …, 2015 - academic.oup.com
As the use of RNA-seq has popularized, there is an increasing consciousness of the
importance of experimental design, bias removal, accurate quantification and control of false …

[HTML][HTML] Karyotype stability and unbiased fractionation in the paleo-allotetraploid Cucurbita genomes

H Sun, S Wu, G Zhang, C Jiao, S Guo, Y Ren, J Zhang… - Molecular plant, 2017 - cell.com
The Cucurbita genus contains several economically important species in the Cucurbitaceae
family. Here, we report high-quality genome sequences of C. maxima and C. moschata and …

Gene regulation and speciation

KL Mack, MW Nachman - Trends in Genetics, 2017 - cell.com
Understanding the genetic architecture of speciation is a major goal in evolutionary biology.
Hybrid dysfunction is thought to arise most commonly through negative interactions between …

Tempo and mode of regulatory evolution in Drosophila

JD Coolon, CJ McManus, KR Stevenson… - Genome …, 2014 - genome.cshlp.org
Genetic changes affecting gene expression contribute to phenotypic divergence; thus,
understanding how regulatory networks controlling gene expression change over time is …

Unraveling cis and trans regulatory evolution during cotton domestication

Y Bao, G Hu, CE Grover, J Conover, D Yuan… - Nature …, 2019 - nature.com
Cis and trans regulatory divergence underlies phenotypic and evolutionary diversification.
Relatively little is understood about the complexity of regulatory evolution accompanying …

The Role of cis Regulatory Evolution in Maize Domestication

ZH Lemmon, R Bukowski, Q Sun, JF Doebley - PLoS genetics, 2014 - journals.plos.org
Gene expression differences between divergent lineages caused by modification of cis
regulatory elements are thought to be important in evolution. We assayed genome-wide cis …

Comparative transcriptome sequencing of tolerant rice introgression line and its parents in response to drought stress

L Huang, F Zhang, F Zhang, W Wang, Y Zhou, B Fu… - BMC genomics, 2014 - Springer
Abstract Background Rice (Oryza sativa. L) is more sensitive to drought stress than other
cereals, and large genotypic variation in drought tolerance (DT) exists within the cultivated …

Gene regulation and speciation in house mice

KL Mack, P Campbell, MW Nachman - Genome research, 2016 - genome.cshlp.org
One approach to understanding the process of speciation is to characterize the genetic
architecture of post-zygotic isolation. As gene regulation requires interactions between loci …