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The transcriptomic landscape of divergent sporophyte development in two mosses.

ABSTRACT: Transcript dynamics was studied throughout sporophyte development of two mosses, Physcomitrella patens and Funaria hygrometrica.

PROVIDER: PRJEB36328 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	ERR3958970.fastq.gz	Fastqsanger.gz
	ERR3958980.fastq.gz	Fastqsanger.gz
	ERR3959000_1.fastq.gz	Fastqsanger.gz
	ERR3959000_2.fastq.gz	Fastqsanger.gz
	ERR3958971.fastq.gz	Fastqsanger.gz

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Transcription profiling by high throughput sequencing of Funaria hygrometrica sporophyte and gametophyte tissue

Project description:Funaria hygrometrica sporophyte/gametophyte gene expression

2011-10-01 | E-MTAB-284 | biostudies-arrayexpress

Funaria hygrometrica sporophyte/gametophyte gene expression

Project description:Funaria hygrometrica sporophyte/gametophyte gene expression

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A Physcomitrella protein acts in spermatogenesis and sporophyte abortion

Project description:Functional targeting of PpPINC gene in Physcomitrella, researching it's role during gametangia and sporophyte development.

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Genome-wide transcriptomic analysis of the sporophyte of the moss Physcomitrella patens

2013-07-29 | GSE32928 | GEO

Genome-wide transcriptomic analysis of the sporophyte of the moss Physcomitrella patens

Project description:Bryophytes are the most basal of the extant land plants. A major feature of these plants is the biphasic alteration of generations between a dominant haploid gametophyte and a minor diploid sporophyte phase. To analyse the differences in the transcriptome of the early gametophyte (protonema) and early and mid-sporophyte phases of the moss Physcomitrella patens, microarray gene expression profiles were performed using dissected sporophyte tissue. Through further analysis the early and mid-sporophyte phases were compared. RNA isolated from the Gametophytic protonemal tissue was hybridised to six microarrays. Each microarray was hybridised with RNA from a separate biological replicate. Three of these microarrays were co-hybridised with RNA isolated from early sporophytes. With the third gametophyte biological replicate and early sporophyte replicate a dye swap was carried out. The remaining three microarrays hybridised with RNA from the gametophytes were co-hybridised with RNA from mid-sporophytic tissue. A dye swap was carried out on the sixth gametophyte replicate and third mid-sporophyte replicate.To meet the quality requirements for the microarray experiment, at least 400 sporophytes were used per extraction. Three or four RNA extracts were then pooled for further precipitation to maximise purity and concentration. Up to 1600 sporophytes were harvested to prepare sufficient RNA for each microarray replicate. In bioinformatic analysis the channels were split into individual channels and the early and mid-sporophyte were compared.

2013-07-29 | E-GEOD-32928 | biostudies-arrayexpress

Funaria hygrometrica

Project description:Funaria hygrometrica overview

| PRJNA775695 | ENA

mosses

Project description:Targeted NGS sequencing of organellar genes from 139 mosses

| PRJNA399169 | ENA

A Physcomitrella protein acts in spermatogenesis and sporophyte abortion

Project description:A Physcomitrella protein acts in spermatogenesis and sporophyte abortion

| PRJNA844298 | ENA

Transcriptional Landscapes of Divergent Sporophyte Development in Two Mosses, <i>Physcomitrium (Physcomitrella) patens</i> and <i>Funaria hygrometrica</i>.

Project description:Understanding the molecular basis of morphological shifts is a fundamental question of evolutionary biology. New morphologies may arise through the birth/death of genes (gene gain/loss) or by reutilizing existing gene sets. Yet, the relative contribution of these two processes to radical morphological shifts is still poorly understood. Here, we use the model system of two mosses, Funaria hygrometrica and Physcomitrium (Physcomitrella) patens, to investigate the molecular mechanisms underlying contrasting sporophyte architectures. We used comparative analysis of time-series expression data for four stages of sporophyte development in both species to address this question in detail. We found that large-scale differences in sporophytic architecture are mainly governed by orthologous (i.e., shared) genes frequently experiencing temporal gene expression shifts between the two species. While the absolute number of species-specific genes expressed during sporophyte development is somewhat smaller, we observed a significant increase of their proportion in preferentially sporophyte expressed genes, suggesting a fundamental role in the sporophyte phase. However, further functional studies are necessary to determine their contribution to diverging sporophyte morphologies. Our results add to the growing set of studies suggesting that radical changes in morphology may rely on the heterochronic expression of conserved regulators.

| S-EPMC7299128 | biostudies-literature

Transcription profiling of Physcomitrella patens Reute strain

Project description:Transcription profiling of Physcomitrella patens Reute strain gametophore, mature sporophyte and spore stage. These samples are part of an large-scale expression data set for the model moss Physcomitrella patens.

2014-04-15 | E-MTAB-916 | biostudies-arrayexpress

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