Genes from scratch–the evolutionary fate of de novo genes

C Schlötterer - Trends in Genetics, 2015 - cell.com
Although considered an extremely unlikely event, many genes emerge from previously
noncoding genomic regions. This review covers the entire life cycle of such de novo genes …

Mitigating tradeoffs in plant breeding

SL Dwivedi, MP Reynolds, R Ortiz - Iscience, 2021 - cell.com
Tradeoffs among plant traits help maintain relative fitness under unpredictable conditions
and maximize reproductive success. However, modifying tradeoffs is a breeding challenge …

Genomes of 13 domesticated and wild rice relatives highlight genetic conservation, turnover and innovation across the genus Oryza

JC Stein, Y Yu, D Copetti, DJ Zwickl, L Zhang… - Nature …, 2018 - nature.com
The genus Oryza is a model system for the study of molecular evolution over time scales
ranging from a few thousand to 15 million years. Using 13 reference genomes spanning the …

A global ocean atlas of eukaryotic genes

Q Carradec, E Pelletier, C Da Silva, A Alberti… - Nature …, 2018 - nature.com
While our knowledge about the roles of microbes and viruses in the ocean has increased
tremendously due to recent advances in genomics and metagenomics, research on marine …

Many, but not all, lineage-specific genes can be explained by homology detection failure

CM Weisman, AW Murray, SR Eddy - PLoS biology, 2020 - journals.plos.org
Genes for which homologs can be detected only in a limited group of evolutionarily related
species, called “lineage-specific genes,” are pervasive: Essentially every lineage has them …

Uncovering de novo gene birth in yeast using deep transcriptomics

WR Blevins, J Ruiz-Orera, X Messeguer… - Nature …, 2021 - nature.com
De novo gene origination has been recently established as an important mechanism for the
formation of new genes. In organisms with a large genome, intergenic and intronic regions …

To dry perchance to live: Insights from the genome of the desiccation‐tolerant biocrust moss Syntrichia caninervis

AT Silva, B Gao, KM Fisher, BD Mishler… - The Plant …, 2021 - Wiley Online Library
With global climate change, water scarcity threatens whole agro/ecosystems. The desert
moss Syntrichia caninervis, an extremophile, offers novel insights into surviving desiccation …

[PDF][PDF] Distinct expression and methylation patterns for genes with different fates following a single whole-genome duplication in flowering plants

T Shi, RS Rahmani, PF Gugger, M Wang… - Molecular Biology …, 2020 - academic.oup.com
For most sequenced flowering plants, multiple whole-genome duplications (WGDs) are
found. Duplicated genes following WGD often have different fates that can quickly disappear …

Origins of De Novo Genes in Human and Chimpanzee

J Ruiz-Orera, J Hernandez-Rodriguez, C Chiva… - PLoS …, 2015 - journals.plos.org
The birth of new genes is an important motor of evolutionary innovation. Whereas many new
genes arise by gene duplication, others originate at genomic regions that did not contain …

QQS orphan gene regulates carbon and nitrogen partitioning across species via NF-YC interactions

L Li, W Zheng, Y Zhu, H Ye, B Tang… - Proceedings of the …, 2015 - National Acad Sciences
The allocation of carbon and nitrogen resources to the synthesis of plant proteins,
carbohydrates, and lipids is complex and under the control of many genes; much remains to …