Spatial single-cell sequencing of meiosis I arrested oocytes indicates acquisition of maternal transcripts from the soma

Trimmer, Kenneth A.; Zhao, Peisen; Seemann, Jacob; Chen, Shin-Yu; Mondal, Sudip; Ben‐Yakar, Adela; Arur, Swathi

doi:10.1016/j.celrep.2023.112544

Cited by 7 publications

(3 citation statements)

References 69 publications

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“…It has been reported that ule -3/5 might play a role in driving the ageing of the reproductive system, though the origin of their expression is not clearly discernable ( Zimmerman et al, 2015 ). A more recent study utilizing FISH to track the origins of these transcripts suggests a mechanism by which the transcripts are produced in spermathecae and carried over into the proximal oocytes( Trimmer et al, 2023 ). Using the expression of ule-3/5 as a reference, we discerned a set of 25 genes displaying the similar expression pattern ( Supplementary Table S6 ) by invoking an stringent criteria: Log 2 FC < −7 in the F1 vs P0 comparison; and Log 2 FC > 4 in the F2 vs F1 comparison; and average Median Normalized Expression in F1 > 1000).…”

Section: Resultsmentioning

confidence: 99%

“…The first consisting of genes that have relatively stable transcription in the proximal oocytes before complete disappearance in zygotes, and a second group consisting of genes that are drastically upregulated in only the F1 oocyte. This second group of genes includes those whose transcripts have recently been found to be produced in the spermathecae but transported into F1 oocytes ( Trimmer et al, 2023 ). We thus provide a list of genes that might undergo this process.…”

Section: Discussionmentioning

confidence: 99%

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Transcriptomic Analysis of the Spatiotemporal Axis of Oogenesis and Fertilization inC. elegans

Su,

Shea,

DeStephanis

et al. 2024

Preprint

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The oocyte germline of theC. eleganshermaphrodite presents a unique model to study the formation of oocytes. However, the size of the model animal and difficulties in retrieval of specific stages of the germline have obviated closer systematic studies of this process throughout the years. Here, we present a transcriptomic level analysis into the oogenesis ofC. eleganshermaphrodites. We dissected a hermaphrodite gonad into seven sections corresponding to the mitotic distal region, the pachytene, the diplotene, the early diakinesis region and the 3 most proximal oocytes, and deeply sequenced the transcriptome of each of them along with that of the fertilized egg using a single-cell RNA-seq protocol. We identified specific gene expression events as well as gene splicing events in finer detail along the oocyte germline and provided novel insights into underlying mechanisms of the oogenesis process. Furthermore, through careful review of relevant research literature coupled with patterns observed in our analysis, we attempt to delineate transcripts that may serve functions in the interaction between the germline and cells of the somatic gonad. These results expand our knowledge of the transcriptomic space of theC. elegansgermline and lay a foundation on which future studies of the germline can be based upon.

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Section: Resultsmentioning

confidence: 99%

Section: Discussionmentioning

confidence: 99%

Transcriptomic Analysis of the Spatiotemporal Axis of Oogenesis and Fertilization inC. elegans

Su,

Shea,

DeStephanis

et al. 2024

Preprint

View full text Add to dashboard Cite

show abstract

“…A second hypothesis that still needs investigation is that transcriptional quiescence after the GVBD stage is not total [ 49 , 50 ]. This theory is contrasted by a third hypothesis, only proven in C. elegans , assuming that oocytes after GVBD cannot synthetize mRNA but can accumulate transcripts from surrounding somatic cells, supposedly via extracellular vesicles [ 51 ].…”

Section: Discussionmentioning

confidence: 99%

Overview of Gene Expression Dynamics during Human Oogenesis/Folliculogenesis

Ducreux,

Ferreux,

Patrat

et al. 2023

IJMS

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The oocyte transcriptome follows a tightly controlled dynamic that leads the oocyte to grow and mature. This succession of distinct transcriptional states determines embryonic development prior to embryonic genome activation. However, these oocyte maternal mRNA regulatory events have yet to be decoded in humans. We reanalyzed human single-oocyte RNA-seq datasets previously published in the literature to decrypt the transcriptomic reshuffles ensuring that the oocyte is fully competent. We applied trajectory analysis (pseudotime) and a meta-analysis and uncovered the fundamental transcriptomic requirements of the oocyte at any moment of oogenesis until reaching the metaphase II stage (MII). We identified a bunch of genes showing significant variation in expression from primordial-to-antral follicle oocyte development and characterized their temporal regulation and their biological relevance. We also revealed the selective regulation of specific transcripts during the germinal vesicle-to-MII transition. Transcripts associated with energy production and mitochondrial functions were extensively downregulated, while those associated with cytoplasmic translation, histone modification, meiotic processes, and RNA processes were conserved. From the genes identified in this study, some appeared as sensitive to environmental factors such as maternal age, polycystic ovary syndrome, cryoconservation, and in vitro maturation. In the future, the atlas of transcriptomic changes described in this study will enable more precise identification of the transcripts responsible for follicular growth and oocyte maturation failures.

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Detecting gene expression in Caenorhabditis elegans

Calarco,

Taylor,

Miller

2024

Genetics

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Reliable methods for detecting and analyzing gene expression are necessary tools for understanding development and investigating biological responses to genetic and environmental perturbation. With its fully sequenced genome, invariant cell lineage, transparent body, wiring diagram, detailed anatomy, and wide array of genetic tools, Caenorhabditis elegans is an exceptionally useful model organism for linking gene expression to cellular phenotypes. The development of new techniques in recent years has greatly expanded our ability to detect gene expression at high resolution. Here, we provide an overview of gene expression methods for C. elegans, including techniques for detecting transcripts and proteins in situ, bulk RNA sequencing of whole worms and specific tissues and cells, single-cell RNA sequencing, and high-throughput proteomics. We discuss important considerations for choosing among these techniques and provide an overview of publicly available online resources for gene expression data.

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Spatial single-cell sequencing of meiosis I arrested oocytes indicates acquisition of maternal transcripts from the soma

Cited by 7 publications

References 69 publications

Transcriptomic Analysis of the Spatiotemporal Axis of Oogenesis and Fertilization inC. elegans

Transcriptomic Analysis of the Spatiotemporal Axis of Oogenesis and Fertilization inC. elegans

Overview of Gene Expression Dynamics during Human Oogenesis/Folliculogenesis

Detecting gene expression in Caenorhabditis elegans

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