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De novo emergence, existence, and demise of a protein-coding gene in murids

ABSTRACT: This SuperSeries is composed of the SubSeries listed below.

ORGANISM(S): Mus musculus Cricetulus griseus

PROVIDER: GSE213820 | GEO | 2022/10/30

REPOSITORIES: GEO

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De novo emergence, existence, and demise of a protein-coding gene in murids.

Project description:BackgroundGenes, principal units of genetic information, vary in complexity and evolutionary history. Less-complex genes (e.g., long non-coding RNA (lncRNA) expressing genes) readily emerge de novo from non-genic sequences and have high evolutionary turnover. Genesis of a gene may be facilitated by adoption of functional genic sequences from retrotransposon insertions. However, protein-coding sequences in extant genomes rarely lack any connection to an ancestral protein-coding sequence.ResultsWe describe remarkable evolution of the murine gene D6Ertd527e and its orthologs in the rodent Muroidea superfamily. The D6Ertd527e emerged in a common ancestor of mice and hamsters most likely as a lncRNA-expressing gene. A major contributing factor was a long terminal repeat (LTR) retrotransposon insertion carrying an oocyte-specific promoter and a 5' terminal exon of the gene. The gene survived as an oocyte-specific lncRNA in several extant rodents while in some others the gene or its expression were lost. In the ancestral lineage of Mus musculus, the gene acquired protein-coding capacity where the bulk of the coding sequence formed through CAG (AGC) trinucleotide repeat expansion and duplications. These events generated a cytoplasmic serine-rich maternal protein. Knock-out of D6Ertd527e in mice has a small but detectable effect on fertility and the maternal transcriptome.ConclusionsWhile this evolving gene is not showing a clear function in laboratory mice, its documented evolutionary history in Muroidea during the last ~ 40 million years provides a textbook example of how a several common mutation events can support de novo gene formation, evolution of protein-coding capacity, as well as gene's demise.

| S-EPMC9733328 | biostudies-literature

De novo emergence, existence, and demise of a protein-coding gene in murids [mouse]

Project description:Genes, principal units of genetic information, vary in complexity and evolutionary history. Less-complex genes (e.g. long non-coding RNA (lncRNA) expressing genes), readily emerge de novo from non-genic sequences and have high evolutionary turnover. Genesis of a gene is facilitated by adoption of functional genic sequences from retrotransposon insertions. However, protein-coding sequences in extant genomes rarely lack any connection to an ancestral protein-coding sequence. Here, we describe remarkable evolution of the murine gene D6Ertd527e and its orthologs in the rodent Muroidea superfamily. The D6Ertd527e emerged in a common ancestor of mice and hamsters as an lncRNA-expressing gene. A major contributing factor was a long terminal repeat (LTR) retrotransposon insertion carrying an oocyte-specific promoter and one of the first exons of the gene. The gene survived as an oocyte-specific lncRNA in several extant rodents while in some others the gene or its expression was lost. In the ancestral lineage of Mus musculus, the gene acquired protein-coding capacity where the bulk of the coding sequence formed through CAG (AGC) trinucleotide repeat expansion and duplications. These events gave rise to a cytoplasmic serine-rich maternal protein, which has no discernable role. Knock-out of D6Ertd527e in mice affects neither fertility nor the maternal transcriptome. While this evolving gene is not showing a notable function in laboratory mice, its documented evolutionary history in Muroidea during the last ~40 million years provides a textbook example of how a several common mutation events can support de novo gene formation, evolution of protein-coding capacity, as well as gene’s demise.

2022-10-31 | GSE213819 | GEO

De novo emergence, existence, and demise of a protein-coding gene in murids [chinese hamster]

2022-10-31 | GSE213818 | GEO

De novo emergence, existence, and demise of a protein-coding gene in murids

Project description:De novo emergence, existence, and demise of a protein-coding gene in murids

| PRJNA882482 | ENA

De novo emergence, existence, and demise of a protein-coding gene in murids [mouse]

Project description:De novo emergence, existence, and demise of a protein-coding gene in murids [mouse]

| PRJNA882485 | ENA

De novo emergence, existence, and demise of a protein-coding gene in murids [chinese hamster]

Project description:De novo emergence, existence, and demise of a protein-coding gene in murids [chinese hamster]

| PRJNA882483 | ENA

De novo copy number variations in cloned dogs

Project description:This SuperSeries is composed of the SubSeries listed below. Refer to individual Series

2013-12-17 | E-GEOD-49357 | biostudies-arrayexpress

Role of de novo DNA methyltransferases in hematopoietic stem cells

Project description:This SuperSeries is composed of the SubSeries listed below. Refer to individual Series

2014-08-19 | E-GEOD-50793 | biostudies-arrayexpress

De novo mutations in the genome organizer CTCF cause Intellectual Disability

Project description:This SuperSeries is composed of the SubSeries listed below. Refer to individual Series

2013-06-01 | E-GEOD-46833 | biostudies-arrayexpress

De Novo Purine Synthesis Mediates Circadian Control of Cell Cycle in Zebrafish

Project description:This SuperSeries is composed of the SubSeries listed below. Refer to individual Series

2013-10-01 | E-GEOD-51279 | biostudies-arrayexpress

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