Accession

PRJCA010163

Title

Plastic chromatin architecture of crop sac during pigeon breeding stage

Relevance

Agricultural

Data types

Whole genome sequencing
Transcriptome or Gene expression
Genome sequencing and assembly
Raw sequence reads
Genome sequencing

Organisms

Columba livia

Description

In this study, we de novo constructed a chromosome-level pigeon (Columba livia) genome. Such as this high-quality genomic information, we report the fine regulation of gene expression by multi-scale 3D genome reorganization, including compartmental rearrangement, TAD reconstructure and promoter-enhancer interaction rewiring, and illustrate the dynamic chromatin architectures and gene transcriptions are closely related to functional transition in pigeon crop during breeding stages.

Sample scope

Monoisolate

Release date

2023-02-10

Publication

PubMed ID	Article title	Journal name	DOI	Year
37289658	Spatio-temporal transcriptome dynamics coordinate rapid transition of core crop functions in 'lactating' pigeon	PLoS Genetics	10.1371/journal.pgen.1010746	2023

Grants

Agency	program	Grant ID	Grant title
National Natural Science Foundation of China (NSFC)	Natural Science Foundation of Sichuan province of China	2022NSFSC0068

Submitter

Xun Wang (xunwang@sicau.edu.cn)

Organization

sichuan agricultrural university

Submission date

2022-06-20

Project Data

Resource name	Description
BioSample (156) show	-
SAMC850672	RNA-seq of Columba livia: nurturing period 28th day male pigeon
SAMC850671	RNA-seq of Columba livia: nurturing period 28th day male pigeon
SAMC850670	RNA-seq of Columba livia: nurturing period 28th day male pigeon
SAMC850669	RNA-seq of Columba livia: nurturing period 28th day male pigeon
SAMC850668	RNA-seq of Columba livia: nurturing period 28th day male pigeon
SAMC850667	RNA-seq of Columba livia: nurturing period 28th day male pigeon
SAMC850666	RNA-seq of Columba livia: nurturing period 16th day male pigeon
SAMC850665	RNA-seq of Columba livia: nurturing period 16th day male pigeon
SAMC850664	RNA-seq of Columba livia: nurturing period 16th day male pigeon
SAMC850663	RNA-seq of Columba livia: nurturing period 16th day male pigeon
SAMC850662	RNA-seq of Columba livia: nurturing period 16th day male pigeon
SAMC850661	RNA-seq of Columba livia: nurturing period 16th day male pigeon
SAMC850660	RNA-seq of Columba livia: nurturing period 4th day male pigeon
SAMC850659	RNA-seq of Columba livia: nurturing period 4th day male pigeon
SAMC850658	RNA-seq of Columba livia: nurturing period 4th day male pigeon
SAMC850657	RNA-seq of Columba livia: nurturing period 4th day male pigeon
SAMC850656	RNA-seq of Columba livia: nurturing period 4th day male pigeon
SAMC850655	RNA-seq of Columba livia: nurturing period 4th day male pigeon
SAMC850654	RNA-seq of Columba livia: nurturing period 1st day male pigeon
SAMC850653	RNA-seq of Columba livia: nurturing period 1st day male pigeon
SAMC850652	RNA-seq of Columba livia: nurturing period 1st day male pigeon
SAMC850651	RNA-seq of Columba livia: nurturing period 1st day male pigeon
SAMC850650	RNA-seq of Columba livia: nurturing period 1st day male pigeon
SAMC850649	RNA-seq of Columba livia: nurturing period 1st day male pigeon
SAMC850648	RNA-seq of Columba livia: incubation period 16th day male pigeon
SAMC850647	RNA-seq of Columba livia: incubation period 16th day male pigeon
SAMC850646	RNA-seq of Columba livia: incubation period 16th day male pigeon
SAMC850645	RNA-seq of Columba livia: incubation period 16th day male pigeon
SAMC850644	RNA-seq of Columba livia: incubation period 16th day male pigeon
SAMC850643	RNA-seq of Columba livia: incubation period 16th day male pigeon
SAMC850642	RNA-seq of Columba livia: incubation period 13th day male pigeon
SAMC850641	RNA-seq of Columba livia: incubation period 13th day male pigeon
SAMC850640	RNA-seq of Columba livia: incubation period 13th day male pigeon
SAMC850639	RNA-seq of Columba livia: incubation period 13th day male pigeon
SAMC850638	RNA-seq of Columba livia: incubation period 13th day male pigeon
SAMC850637	RNA-seq of Columba livia: incubation period 13th day male pigeon
SAMC850636	RNA-seq of Columba livia: ceased period male pigeon
SAMC850635	RNA-seq of Columba livia: ceased period male pigeon
SAMC850634	RNA-seq of Columba livia: ceased period male pigeon
SAMC850633	RNA-seq of Columba livia: ceased period male pigeon
SAMC850632	RNA-seq of Columba livia: ceased period male pigeon
SAMC850631	RNA-seq of Columba livia: ceased period male pigeon
SAMC810522	RNA-seq of Columba livia: nurturing period 1st day pigeon
SAMC810521	RNA-seq of Columba livia: nurturing period 1st day pigeon
SAMC810520	RNA-seq of Columba livia: nurturing period 1st day pigeon
SAMC810519	RNA-seq of Columba livia: ceased period female pigeon
SAMC810518	RNA-seq of Columba livia: ceased period female pigeon
SAMC810517	RNA-seq of Columba livia: ceased period female pigeon
SAMC810446	chip seq of Columba livia: nurturing period 1st day pigeon
SAMC810445	chip seq of Columba livia: ceased period female pigeon
SAMC810444	Spatial Transcriptomics RNA-seq of Columba livia: nurturing period 1st day pigeon
SAMC810443	Spatial Transcriptomics RNA-seq of Columba livia: nurturing period 1st day pigeon
SAMC810442	Spatial Transcriptomics RNA-seq of Columba livia: incubation period 13th day pigeon
SAMC810441	Spatial Transcriptomics RNA-seq of Columba livia: ceased period female pigeon
SAMC810440	RNA-seq of Columba livia: nurturing period 28th day pigeon
SAMC810439	RNA-seq of Columba livia: nurturing period 28th day pigeon
SAMC810438	RNA-seq of Columba livia: nurturing period 28th day pigeon
SAMC810437	RNA-seq of Columba livia: nurturing period 28th day pigeon
SAMC810436	RNA-seq of Columba livia: nurturing period 28th day pigeon
SAMC810435	RNA-seq of Columba livia: nurturing period 28th day pigeon
SAMC810434	RNA-seq of Columba livia: nurturing period 25th day pigeon
SAMC810433	RNA-seq of Columba livia: nurturing period 25th day pigeon
SAMC810432	RNA-seq of Columba livia: nurturing period 25th day pigeon
SAMC810431	RNA-seq of Columba livia: nurturing period 25th day pigeon
SAMC810430	RNA-seq of Columba livia: nurturing period 25th day pigeon
SAMC810429	RNA-seq of Columba livia: nurturing period 25th day pigeon
SAMC810428	RNA-seq of Columba livia: nurturing period 22nd day pigeon
SAMC810427	RNA-seq of Columba livia: nurturing period 22nd day pigeon
SAMC810426	RNA-seq of Columba livia: nurturing period 22nd day pigeon
SAMC810425	RNA-seq of Columba livia: nurturing period 22nd day pigeon
SAMC810424	RNA-seq of Columba livia: nurturing period 22nd day pigeon
SAMC810423	RNA-seq of Columba livia: nurturing period 22nd day pigeon
SAMC810422	RNA-seq of Columba livia: nurturing period 19th day pigeon
SAMC810421	RNA-seq of Columba livia: nurturing period 19th day pigeon
SAMC810420	RNA-seq of Columba livia: nurturing period 19th day pigeon
SAMC810419	RNA-seq of Columba livia: nurturing period 19th day pigeon
SAMC810418	RNA-seq of Columba livia: nurturing period 19th day pigeon
SAMC810417	RNA-seq of Columba livia: nurturing period 19th day pigeon
SAMC810416	RNA-seq of Columba livia: nurturing period 16th day pigeon
SAMC810415	RNA-seq of Columba livia: nurturing period 16th day pigeon
SAMC810414	RNA-seq of Columba livia: nurturing period 16th day pigeon
SAMC810413	RNA-seq of Columba livia: nurturing period 16th day pigeon
SAMC810412	RNA-seq of Columba livia: nurturing period 16th day pigeon
SAMC810411	RNA-seq of Columba livia: nurturing period 16th day pigeon
SAMC810410	RNA-seq of Columba livia: nurturing period 13th day pigeon
SAMC810409	RNA-seq of Columba livia: nurturing period 13th day pigeon
SAMC810408	RNA-seq of Columba livia: nurturing period 13th day pigeon
SAMC810407	RNA-seq of Columba livia: nurturing period 13th day pigeon
SAMC810406	RNA-seq of Columba livia: nurturing period 13th day pigeon
SAMC810405	RNA-seq of Columba livia: nurturing period 13th day pigeon
SAMC810404	RNA-seq of Columba livia: nurturing period 10th day pigeon
SAMC810403	RNA-seq of Columba livia: nurturing period 10th day pigeon
SAMC810402	RNA-seq of Columba livia: nurturing period 10th day pigeon
SAMC810401	RNA-seq of Columba livia: nurturing period 10th day pigeon
SAMC810400	RNA-seq of Columba livia: nurturing period 10th day pigeon
SAMC810399	RNA-seq of Columba livia: nurturing period 10th day pigeon
SAMC810398	RNA-seq of Columba livia: nurturing period 7th day pigeon
SAMC810397	RNA-seq of Columba livia: nurturing period 7th day pigeon
SAMC810396	RNA-seq of Columba livia: nurturing period 7th day pigeon
SAMC810395	RNA-seq of Columba livia: nurturing period 7th day pigeon
SAMC810394	RNA-seq of Columba livia: nurturing period 7th day pigeon
SAMC810393	RNA-seq of Columba livia: nurturing period 7th day pigeon
SAMC810392	RNA-seq of Columba livia: nurturing period 4th day pigeon
SAMC810391	RNA-seq of Columba livia: nurturing period 4th day pigeon
SAMC810390	RNA-seq of Columba livia: nurturing period 4th day pigeon
SAMC810389	RNA-seq of Columba livia: nurturing period 4th day pigeon
SAMC810388	RNA-seq of Columba livia: nurturing period 4th day pigeon
SAMC810387	RNA-seq of Columba livia: nurturing period 4th day pigeon
SAMC810386	RNA-seq of Columba livia: nurturing period 1st day pigeon
SAMC810385	RNA-seq of Columba livia: nurturing period 1st day pigeon
SAMC810384	RNA-seq of Columba livia: nurturing period 1st day pigeon
SAMC810383	RNA-seq of Columba livia: nurturing period 1st day pigeon
SAMC810382	RNA-seq of Columba livia: nurturing period 1st day pigeon
SAMC810381	RNA-seq of Columba livia: nurturing period 1st day pigeon
SAMC810380	RNA-seq of Columba livia: incubation period 16th day pigeon
SAMC810379	RNA-seq of Columba livia: incubation period 16th day pigeon
SAMC810378	RNA-seq of Columba livia: incubation period 16th day pigeon
SAMC810377	RNA-seq of Columba livia: incubation period 16th day pigeon
SAMC810376	RNA-seq of Columba livia: incubation period 16th day pigeon
SAMC810375	RNA-seq of Columba livia: incubation period 16th day pigeon
SAMC810374	RNA-seq of Columba livia: incubation period 13th day pigeon
SAMC810373	RNA-seq of Columba livia: incubation period 13th day pigeon
SAMC810372	RNA-seq of Columba livia: incubation period 13th day pigeon
SAMC810371	RNA-seq of Columba livia: incubation period 13th day pigeon
SAMC810370	RNA-seq of Columba livia: incubation period 13th day pigeon
SAMC810369	RNA-seq of Columba livia: incubation period 13th day pigeon
SAMC810368	RNA-seq of Columba livia: incubation period 10th day pigeon
SAMC810367	RNA-seq of Columba livia: incubation period 10th day pigeon
SAMC810366	RNA-seq of Columba livia: incubation period 10th day pigeon
SAMC810365	RNA-seq of Columba livia: incubation period 10th day pigeon
SAMC810364	RNA-seq of Columba livia: incubation period 10th day pigeon
SAMC810363	RNA-seq of Columba livia: incubation period 10th day pigeon
SAMC810362	RNA-seq of Columba livia: incubation period 7th day pigeon
SAMC810361	RNA-seq of Columba livia: incubation period 7th day pigeon
SAMC810360	RNA-seq of Columba livia: incubation period 7th day pigeon
SAMC810359	RNA-seq of Columba livia: incubation period 7th day pigeon
SAMC810358	RNA-seq of Columba livia: incubation period 7th day pigeon
SAMC810357	RNA-seq of Columba livia: incubation period 7th day pigeon
SAMC810356	RNA-seq of Columba livia: incubation period 4th day pigeon
SAMC810355	RNA-seq of Columba livia: incubation period 4th day pigeon
SAMC810354	RNA-seq of Columba livia: incubation period 4th day pigeon
SAMC810353	RNA-seq of Columba livia: incubation period 4th day pigeon
SAMC810352	RNA-seq of Columba livia: incubation period 4th day pigeon
SAMC810351	RNA-seq of Columba livia: incubation period 4th day pigeon
SAMC810350	RNA-seq of Columba livia: incubation period 1st day female pigeon
SAMC810349	RNA-seq of Columba livia: incubation period 1st day female pigeon
SAMC810348	RNA-seq of Columba livia: incubation period 1st day female pigeon
SAMC810347	RNA-seq of Columba livia: incubation period 1st day female pigeon
SAMC810346	RNA-seq of Columba livia: incubation period 1st day female pigeon
SAMC810345	RNA-seq of Columba livia: incubation period 1st day female pigeon
SAMC810344	RNA-seq of Columba livia: ceased period female pigeon
SAMC810343	RNA-seq of Columba livia: ceased period female pigeon
SAMC810342	RNA-seq of Columba livia: ceased period female pigeon
SAMC810341	RNA-seq of Columba livia: ceased period female pigeon
SAMC810340	RNA-seq of Columba livia: ceased period female pigeon
SAMC810339	RNA-seq of Columba livia: ceased period female pigeon
GSA (3)	-
CRA007327	pigeon crop Hi-C data
CRA007321	pigeon crop transcriptome, ChIP-seq and spatial transcriptomics data
CRA007842	Male pigeon crop transcriptome data