Back

Enhancer status in the primitive endoderm supports unrestricted lineage plasticity in regulative development

Linneberg-Agerholm, M.; Sell, A. C.; Redo-Riveiro, A.; Proks, M.; Knudsen, T. E.; Perera, M.; Brickman, J. M.

2023-05-20 developmental biology
10.1101/2023.05.20.540779 bioRxiv
Show abstract

Mammalian blastocyst formation involves the specification of trophectoderm followed by the differentiation of the inner cell mass into either epiblast or primitive endoderm. During this time, the embryo maintains a window of plasticity and can redirect its cellular fate when challenged experimentally. In this context, we found that the primitive endoderm alone was sufficient to regenerate a complete blastocyst and continue normal postimplantation development to term. We identify an in vitro population similar to the early primitive endoderm in vivo, that exhibits the same embryonic and extra-embryonic potency, forming three dimensional embryoid structures. Commitment in early primitive endoderm is suppressed by JAK/STAT signalling, collaborating with OCT4 to safeguard enhancer status enabling multi-lineage differentiation. Our observations support the notion that transcription factor persistence underlies plasticity in regulative development and highlights the importance of primitive endoderm in perturbed development.

Matching journals

The top 4 journals account for 50% of the predicted probability mass.

1
Nature Communications
○ 5641 papers in training set
Top 3%
30.4%
Similar papers in this journal
2
Developmental Cell
○ 196 papers in training set
Top 0.1%
12.4%
Similar papers in this journal
3
Cell Stem Cell
○ 62 papers in training set
Top 0.2%
6.6%
Similar papers in this journal
4
Cell Reports
○ 1498 papers in training set
Top 6%
6.1%
Similar papers in this journal
50% of probability mass above
5
Nature Cell Biology
○ 118 papers in training set
Top 0.4%
6.1%
Similar papers in this journal
6
Stem Cell Reports
○ 130 papers in training set
Top 0.6%
4.3%
7
eLife
● 5828 papers in training set
Top 31%
3.9%
8
Development
● 497 papers in training set
Top 2%
3.1%
9
Science Advances
● 1243 papers in training set
Top 12%
3.1%
10
Nature
○ 645 papers in training set
Top 6%
2.1%
11
Nature Genetics
○ 286 papers in training set
Top 3%
1.9%
12
The EMBO Journal
○ 309 papers in training set
Top 3%
1.9%
13
Cell
○ 431 papers in training set
Top 6%
1.7%
14
Nature Structural & Molecular Biology
236 papers in training set
Top 2%
1.4%
15
Science
● 477 papers in training set
Top 6%
1.3%
16
Proceedings of the National Academy of Sciences
● 2444 papers in training set
Top 33%
1.3%
17
iScience
○ 1154 papers in training set
Top 28%
1.1%
18
Communications Biology
○ 993 papers in training set
Top 32%
0.8%
19
PLOS Biology
● 486 papers in training set
Top 12%
0.8%
20
Cell Research
○ 51 papers in training set
Top 1%
0.8%
21
Cell Genomics
○ 172 papers in training set
Top 5%
0.6%

"Similar papers" are the closest papers from that journal in the model's embedding space. They show what the match is built on, but the ranking comes mostly from a classifier over the whole training set, not from these examples alone.