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NANOGP1, a tandem duplicate of NANOG, exhibits partial functional conservation in human naïve pluripotent stem cells

ABSTRACT: NANOGP1, a tandem duplicate of NANOG, exhibits partial functional conservation in human naïve pluripotent stem cells

PROVIDER: PRJNA842743 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR19421418.fastq.gz	Fastqsanger.gz
	SRR19421419.fastq.gz	Fastqsanger.gz
	SRR19421420.fastq.gz	Fastqsanger.gz
	SRR19421421.fastq.gz	Fastqsanger.gz
	SRR19421422.fastq.gz	Fastqsanger.gz

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NANOGP1, a tandem duplicate of NANOG, exhibits partial functional conservation in human naïve pluripotent stem cells

Project description:Gene duplication events are important drivers of evolution by providing genetic material for new gene functions. They also create opportunities for diverse developmental strategies to emerge between species. To study the contribution of duplicated genes to human early development, we examined the evolution and function of NANOGP1, a tandem duplicate of the key transcription factor NANOG. We found that NANOGP1 and NANOG have overlapping but distinct expression profiles, with high NANOGP1 expression restricted to early epiblast cells and naïve-state pluripotent stem cells. Sequence analysis and epitope-tagging of the endogenous locus revealed that NANOGP1 is protein-coding with an intact homeobox domain. NANOGP1 has been retained only in great apes, whereas Old World monkeys have disabled the gene in different ways including point mutations in the homeodomain. NANOGP1 is a strong inducer of naïve pluripotency, however, unlike NANOG, it is not required to maintain the undifferentiated status of human naïve pluripotent cells. By retaining expression, sequence and partial functional conservation with its ancestral copy, NANOGP1 exemplifies how gene duplication and subfunctionalisation can contribute to transcription factor activity in human pluripotency and development.

2023-01-13 | GSE204934 | GEO

NANOGP1, a tandem duplicate of NANOG, exhibits partial functional conservation in human naive pluripotent stem cells.

Project description:Gene duplication events can drive evolution by providing genetic material for new gene functions, and they create opportunities for diverse developmental strategies to emerge between species. To study the contribution of duplicated genes to human early development, we examined the evolution and function of NANOGP1, a tandem duplicate of the transcription factor NANOG. We found that NANOGP1 and NANOG have overlapping but distinct expression profiles, with high NANOGP1 expression restricted to early epiblast cells and naïve-state pluripotent stem cells. Sequence analysis and epitope-tagging revealed that NANOGP1 is protein coding with an intact homeobox domain. The duplication that created NANOGP1 occurred earlier in primate evolution than previously thought and has been retained only in great apes, whereas Old World monkeys have disabled the gene in different ways, including homeodomain point mutations. NANOGP1 is a strong inducer of naïve pluripotency; however, unlike NANOG, it is not required to maintain the undifferentiated status of human naïve pluripotent cells. By retaining expression, sequence and partial functional conservation with its ancestral copy, NANOGP1 exemplifies how gene duplication and subfunctionalisation can contribute to transcription factor activity in human pluripotency and development.

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Nanog

Project description:Rattus norvegicus Nanog, Nanog homeobox [Source:RGD Symbol;Acc:1303178], is expressed in 2 baseline experiment(s);

| ENSRNOG00000008368 | ExpressionAtlas

NANOG

Project description:Homo sapiens NANOG, Nanog homeobox [Source:HGNC Symbol;Acc:HGNC:20857], is expressed in 19 baseline experiment(s);

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NANOG

Project description:Homo sapiens NANOG, Nanog homeobox [Source:HGNC Symbol;Acc:HGNC:20857], is differentially expressed in 35 experiment(s);

| ENSG00000111704 | ExpressionAtlas

Nanog

Project description:Mus musculus Nanog, Nanog homeobox [Source:MGI Symbol;Acc:MGI:1919200], is differentially expressed in 16 experiment(s);

| ENSMUSG00000012396 | ExpressionAtlas

Nanog

Project description:Mus musculus Nanog, Nanog homeobox [Source:MGI Symbol;Acc:MGI:1919200], is expressed in 12 baseline experiment(s);

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NANOG

Project description:Sus scrofa NANOG, Nanog homeobox [Source:NCBI gene (formerly Entrezgene);Acc:100170132], is expressed in 1 baseline experiment(s);

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nanog

Project description:Danio rerio nanog, nanog homeobox [Source:ZFIN;Acc:ZDB-GENE-030131-5486], is differentially expressed in 1 experiment(s);

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nanog

Project description:Danio rerio nanog, nanog homeobox [Source:ZFIN;Acc:ZDB-GENE-030131-5486], is expressed in 1 baseline experiment(s);

| ENSDARG00000075113 | ExpressionAtlas