Accession

PRJCA010101

Title

Populus pangenome

Relevance

Evolution

Data types

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

Organisms

Populus simonii
Populus euphratica
Populus koreana
Populus lasiocarpa
Populus szechuanica
Populus alba var. pyramidalis
Populus yunnanensis
Populus pseudoglauca
Populus adenopoda
Populus wuana
Populus davidiana
Populus qiongdaoensis
Populus rotundifolia

Description

We de novo assembled multiple genomes of genus Populus and complemented with additional Bisulfite-seq, ATAC-seq and RNA-seq data to reveal pan-genome, genomic and epigenomic evolution of Populus.

Sample scope

Multispecies

Release date

2024-01-02

Grants

Agency	program	Grant ID	Grant title
National Natural Science Foundation of China (NSFC)		31971567

Submitter

Tingting Shi (903337872@qq.com)

Organization

Sichuan University

Submission date

2022-06-16

Project Data

Resource name	Description
BioSample (92) show	-
SAMC861371	Resequencing of Populus alba var. pyramidalis_03
SAMC861370	Resequencing of Populus alba var. pyramidalis_02
SAMC861369	Resequencing of Populus alba var. pyramidalis_01
SAMC861359	ATAC-seq of Populus alba var. pyramidalis
SAMC861358	ATAC-seq of Populus euphratica
SAMC861357	Bisulfite-seq of Populus qiongdaoensis
SAMC810786	Genome assembly of Populus pseudoglauca
SAMC810785	Genome assembly of Populus wuana
SAMC810784	Genome assembly of Populus yunnanensis
SAMC810783	Genome assembly of Populus szechuanica
SAMC810782	Genome assembly of Populus simonii
SAMC810781	Genome assembly of Populus rotundifolia
SAMC810780	Genome assembly of Populus lasiocarpa
SAMC810779	Genome assembly of Populus davidiana
SAMC810778	Genome assembly of Populus adenopoda
SAMC802589	Resequencing of Populus pseudoglauca_03
SAMC802588	Resequencing of Populus pseudoglauca_02
SAMC802587	Resequencing of Populus pseudoglauca_01
SAMC802586	Resequencing of Populus wuana_02
SAMC802585	Resequencing of Populus wuana_01
SAMC802584	ATAC-seq of Populus pseudoglauca
SAMC802583	ATAC-seq of Populus wuana
SAMC802582	ATAC-seq of Populus yunnanensis
SAMC802581	ATAC-seq of Populus szechuanica
SAMC802580	ATAC-seq of Populus simonii
SAMC802579	ATAC-seq of Populus rotundifolia
SAMC802578	ATAC-seq of Populus koreana
SAMC802577	ATAC-seq of Populus lasiocarpa
SAMC802576	ATAC-seq of Populus davidiana
SAMC802575	ATAC-seq of Populus adenopoda
SAMC802574	Bisulfite-seq of Populus pseudoglauca
SAMC802573	Bisulfite-seq of Populus wuana
SAMC802572	Bisulfite-seq of Populus yunnanensis
SAMC802571	Bisulfite-seq of Populus szechuanica
SAMC802570	Bisulfite-seq of Populus simonii
SAMC802569	Bisulfite-seq of Populus rotundifolia
SAMC802568	Bisulfite-seq of Populus koreana
SAMC802567	Bisulfite-seq of Populus lasiocarpa
SAMC802566	Bisulfite-seq of Populus davidiana
SAMC802565	Bisulfite-seq of Populus adenopoda
SAMC802564	RNA-seq of Populus pseudoglauca:seed
SAMC802563	RNA-seq of Populus pseudoglauca:stem
SAMC802562	RNA-seq of Populus pseudoglauca:leaf
SAMC802561	RNA-seq of Populus wuana:seed
SAMC802560	RNA-seq of Populus wuana:stem
SAMC802559	RNA-seq of Populus wuana:leaf
SAMC802558	RNA-seq of Populus yunnanensis:root
SAMC802557	RNA-seq of Populus yunnanensis:stem
SAMC802556	RNA-seq of Populus yunnanensis:leaf
SAMC802555	RNA-seq of Populus szechuanica:seed
SAMC802554	RNA-seq of Populus szechuanica:root
SAMC802553	RNA-seq of Populus szechuanica:stem
SAMC802552	RNA-seq of Populus szechuanica:leaf
SAMC802551	RNA-seq of Populus simonii:bud
SAMC802550	RNA-seq of Populus simonii:stem
SAMC802549	RNA-seq of Populus simonii:leaf
SAMC802548	RNA-seq of Populus rotundifolia:root
SAMC802547	RNA-seq of Populus rotundifolia:stem
SAMC802546	RNA-seq of Populus rotundifolia:leaf
SAMC802545	RNA-seq of Populus lasiocarpa:stem
SAMC802544	RNA-seq of Populus lasiocarpa:leaf
SAMC802543	RNA-seq of Populus davidiana:root
SAMC802542	RNA-seq of Populus davidiana:stem
SAMC802541	RNA-seq of Populus davidiana:leaf
SAMC802540	RNA-seq of Populus adenopoda:leaf
SAMC802539	Hic reads of Populus pseudoglauca
SAMC802538	Hic reads of Populus wuana
SAMC802537	Hic reads of Populus yunnanensis
SAMC802536	Hic reads of Populus szechuanica
SAMC802535	Hic reads of Populus simonii
SAMC802534	Hic reads of Populus rotundifolia
SAMC802533	Hic reads of Populus lasiocarpa
SAMC802532	Hic reads of Populus davidiana
SAMC802531	Hic reads of Populus adenopoda
SAMC802530	Nanopore reads of Populus pseudoglauca
SAMC802529	Nanopore reads of Populus wuana
SAMC802528	Nanopore reads of Populus yunnanensis
SAMC802527	Nanopore reads of Populus szechuanica
SAMC802526	Nanopore reads of Populus simonii
SAMC802525	Nanopore reads of Populus rotundifolia
SAMC802524	Nanopore reads of Populus lasiocarpa
SAMC802523	Nanopore reads of Populus davidiana
SAMC802522	Nanopore reads of Populus adenopoda
SAMC802521	Illumina reads of Populus pseudoglauca
SAMC802520	Illumina reads of Populus wuana
SAMC802519	Illumina reads of Populus yunnanensis
SAMC802518	Illumina reads of Populus szechuanica
SAMC802517	Illumina reads of Populus simonii
SAMC802516	Illumina reads of Populus rotundifolia
SAMC802515	Illumina reads of Populus lasiocarpa
SAMC802514	Illumina reads of Populus davidiana
SAMC802513	Illumina reads of Populus adenopoda
GSA (1)	-
CRA007378	Raw reads of Populus pangenome