Genome Assembly and Annotation

Type	Format	Species	Genome Assembly	Release Date	Files
Yun Kang 10（2020）
Genome assembly	fasta	Camellia sinensis var. assamica	YK10	2021/10/1	chashu.final.fa.tar.gz
Annotation	gff3	Camellia sinensis var. assamica	YK10	2021/10/1	geneset.gff.tar.gz
Annotation CDS	fasta	Camellia sinensis var. assamica	YK10	2021/10/1	cds_v3.fasta.tar.gz
Annotation protein	fasta	Camellia sinensis var. assamica	YK10	2021/10/1	protein_v3.fasta.tar.gz
Annotation miRNA	fasta	Camellia sinensis var. assamica	YK10	2021/10/1	mRNA_v3.fasta
Long Jin 43
Genome assembly	fasta	Camellia sinensis var. sinensis	LJ43	2015/6/26	GWHACFB00000000.genome.fasta.gz
Annotation	fasta	Camellia sinensis var. sinensis	LJ43	2015/6/26	GWHACFB00000000.gff.gz
Annotation CDS	gff3	Camellia sinensis var. sinensis	LJ43	2015/6/26	GWHACFB00000000.CDS.fasta.gz
Annotation protein	faa	Camellia sinensis var. sinensis	LJ43	2015/6/26	GWHACFB00000000.Protein.faa.gz
Annotation miRNA	fasta	Camellia sinensis var. sinensis	LJ43	2015/6/26	GWHACFB00000000.RNA.fasta.gz
Shuchazao
Genome assembly	fasta	Camellia sinensis var. sinensis	CSS（GS2002008）	2018/4/20	CSS_ChrLev_20200506_Genome.fas.gz
Annotation	fasta	Camellia sinensis var. sinensis	CSS（GS2002008）	2018/4/20	CSS_ChrLev_20200506.gff3.gz
Annotation CDS	gff3	Camellia sinensis var. sinensis	CSS（GS2002008）	5/2/2017	CSS_ChrLev_20200506_CDS.fas.gz
Annotation protein	faa	Camellia sinensis var. sinensis	CSS（GS2002008）	5/2/2017	CSS_ChrLev_20200506_PEP.fas.gz
Annotation function	fasta	Camellia sinensis var. sinensis	CSS（GS2002008）	5/2/2017	CSS_ChrLev_20200506_Function.txt.gz
Yun Kang 10（2017）
Genome assembly	fasta	Camellia sinensis var. assamica	CSA	5/2/2017	Teatree_Assembly.fas
Annotation	fasta	Camellia sinensis var. assamica	CSA	5/2/2017	Teatree.gff3
Annotation CDS	gff3	Camellia sinensis var. assamica	CSA	5/2/2017	Teatree_CDS.fas
Annotation protein	faa	Camellia sinensis var. assamica	CSA	5/2/2017	Teatree_Protein.fas
Annotation miRNA	fasta	Camellia sinensis var. assamica	CSA	5/2/2017	Teatree_Intron.fas
DASZ
Genome assembly	fasta	Camellia sinensis	DASZ	2022/7/29	DASZ.genome.fa.gz
Annotation	gff3	Camellia sinensis	DASZ	2022/7/29	DASZ.gene.gff.gz
Annotation CDS	fasta	Camellia sinensis	DASZ	2022/7/29	DASZ.gene.cds.fa.gz
Annotation protein	fasta	Camellia sinensis	DASZ	2022/7/29	DASZ.gene.pep.fa.gz
TGY
Genome assembly	fasta	Camellia sinensis var. sinensis	TGY	2021/2/18	GWHASIV00000000.genome.fasta.gz
Annotation	gff3	Camellia sinensis var. sinensis	TGY	2021/2/18	GWHASIV00000000.gff.gz
Annotation CDS	fasta	Camellia sinensis var. sinensis	TGY	2021/2/18	GWHASIV00000000.CDS.fasta.gz
Annotation protein	faa	Camellia sinensis var. sinensis	TGY	2021/2/18	GWHASIV00000000.Protein.faa.gz
Annotation miRNA	fna	Camellia sinensis var. sinensis	TGY	2021/2/18	GWHASIV00000000.RNA.fasta.gz
HD diploid genome
Genome assembly	fasta	Camellia sinensis	HD	2021/3/25	GWHAZTZ00000000.genome.fasta.gz
Annotation	gff3	Camellia sinensis	HD	2021/3/25	GWHAZTZ00000000.gff.gz
Annotation CDS	fasta	Camellia sinensis	HD	2021/3/25	GWHAZTZ00000000.CDS.fasta.gz
Annotation protein	faa	Camellia sinensis	HD	2021/3/25	GWHAZTZ00000000.Protein.faa.gz
Annotation miRNA		Camellia sinensis	HD	2021/3/25	GWHAZTZ00000000.RNA.fasta.gz
HD haplotype genome
Genome assembly	fasta	Camellia sinensis	HD	2021/9/28	GWHBAUV00000000.genome.fasta.gz
Annotation	gff3	Camellia sinensis	HD	2021/9/28	GWHBAUV00000000.gff.gz
Annotation CDS	fasta	Camellia sinensis	HD	2021/9/28	GWHBAUV00000000.CDS.fasta.gz
Annotation protein	fasta	Camellia sinensis	HD	2021/9/28	GWHBAUV00000000.Protein.faa.gz
Annotation miRNA		Camellia sinensis	HD	2021/9/28	GWHBAUV00000000.RNA.fasta.gz
CHH
Genome assembly	fasta	Camellia chekiangoleosa	CCH	2021/12/2	GWHBGBN00000000.genome.fasta.gz
Biyun
Genome assembly	fasta	Camellia sinensis var. sinensis	Biyun	27/4/2020	GWHAMJR00000000.genome.fasta.gz
Annotation	gff3	Camellia sinensis var. sinensis	Biyun	27/4/2020	GWHAMJR00000000.gff.gz
Annotation protein	fasta	Camellia sinensis var. sinensis	Biyun	27/4/2020	GWHAMJR00000000.Protein.faa.gz
Annotation miRNA	fasta	Camellia sinensis var. sinensis	Biyun	27/4/2020	GWHAMJR00000000.RNA.fasta.gz
DuyunMaojian
Genome assembly	fasta	Camellia sinensis var. sinensis	DuyunMaojian	23/9/2022	GCA_025760945.1
Gene prediction and Annotation	zip	Camellia sinensis var. sinensis	DuyunMaojian	23/9/2022	19972808.zip
CON
Genome assembly	fasta	Camellia oleifera	CON	10/1/2022	CON_genome_assembly_v1.0_final.zip
Annotation	gff3	Camellia oleifera	CON	10/1/2022	CON_genome_v1.0_all.genes.gff.zip
Annotation protein	fasta	Camellia oleifera	CON	10/1/2022	CON_genome_v1.0_all.proteins.zip
CH
Genome assembly(NCBI link)	fasta	Camellia oleifera	CH	20/3/2022	GCA_025200525.1(NCBI link)
Annotation (NCBI link)	gff3	Camellia oleifera	CH	20/3/2022	GCA_025200525.1(NCBI link)
Biyun
Genome assembly	fasta	Camellia sinensis var. sinensis	Biyun	27/4/2020	GWHAMJR00000000.genome.fasta.gz
Annotation	gff3	Camellia sinensis var. sinensis	Biyun	27/4/2020	GWHAMJR00000000.gff.gz
Annotation protein	fasta	Camellia sinensis var. sinensis	Biyun	27/4/2020	GWHAMJR00000000.Protein.faa.gz
Annotation miRNA	fasta	Camellia sinensis var. sinensis	Biyun	27/4/2020	GWHAMJR00000000.RNA.fasta.gz
DuyunMaojian
Genome assembly	fasta	Camellia sinensis var. sinensis	DuyunMaojian	23/9/2022	GCA_025760945.1
Gene prediction and Annotation	zip	Camellia sinensis var. sinensis	DuyunMaojian	23/9/2022	19972808.zip
CON
Genome assembly	fasta	Camellia oleifera	CON	10/1/2022	CON_genome_assembly_v1.0_final.zip
Annotation	gff3	Camellia oleifera	CON	10/1/2022	CON_genome_v1.0_all.genes.gff.zip
Annotation protein	fasta	Camellia oleifera	CON	10/1/2022	CON_genome_v1.0_all.proteins.zip
CH
Genome assembly(NCBI link)	fasta	Camellia oleifera	CH	20/3/2022	GCA_025200525.1(NCBI link)
Annotation (NCBI link)	gff3	Camellia oleifera	CH	20/3/2022	GCA_025200525.1(NCBI link)

Transcriptome sequencing data Download FPKM file Download list

Resequencing raw data Download list

1KGT Raw data Download list

VCF files

Metagenome Raw Data Download list

Pan-genome

Reference

author	titie	jouranl	year	pmid
Genome Assembly and Annotation
Xia, E. H.;Zhang, H. B.; Sheng, J.; et al.	The Tea Tree Genome Provides Insights into Tea Flavor and Independent Evolution of Caffeine Biosynthesis	Mol Plant	2017	doi:10.1016/j.molp.2017.04.002
Wang, Xinchao; Feng, Hu; Chang, Yuxiao; et al.	Population sequencing enhances understanding of tea plant evolution	Nature Communications	2020	doi:10.1038/s41467-020-18228-8
Wei, C. L.; Yang, H.; Wang, S. B.; et al.	Draft genome sequence of Camellia sinensis var. sinensis provides insights into the evolution of the tea genome and tea quality	PNAS	2018	doi:10.1073/pnas.1719622115
Weiyi Zhang et al.	Genome assembly of wild tea tree DASZ reveals pedigree and selection history of tea varieties	Nat Commun	2020	doi.org/10.1038/s41467-020-17498-6
Xingtan Zhang et al.	Haplotype-resolved genome assembly provides insights into evolutionary history of the tea plant Camellia sinensis	Nat Genet	2021	doi.org/10.1038/s41588-021-00895-y
Pengjie Wang et al.	Genetic basis of high aroma and stress tolerance in the oolong tea cultivar genome	Horticulture Research	2021	doi.org/10.1038/s41438-021-00542-x
Tengfei Shen et al.	The reference genome of Camellia chekiangoleosa provides insights into Camellia evolution and tea oil biosynthesis	Horticulture Research	2022	doi.org/10.1093/hr/uhab083
Resequencing Raw Data
Xia et al.	The Reference Genome of Tea Plant and Resequencing of 81 Diverse Accessions Provide Insights into Its Genome Evolution and Adaptation	Mol. Plant	2020	doi.org/10.1016/j.molp.2020.04.010
Wang, Xinchao; Feng, Hu; Chang, Yuxiao; et al.	Population sequencing enhances understanding of tea plant evolution	Nature Communications	2020	doi:10.1038/s41467-020-18228-8
Transcriptome Sequencing Data
Wang, XC., Zhao, QY., Ma, CL. et al.	Global transcriptome profiles of Camellia sinensis during cold acclimation.	BMC Genomics	2013	doi.org/10.1186/1471-2164-14-415
Li, CF., Zhu, Y., Yu, Y. et al.	Global transcriptome and gene regulation network for secondary metabolite biosynthesis of tea plant (Camellia sinensis).	BMC Genomics	2015	doi.org/10.1186/s12864-015-1773-0
Xia, E.-H., Zhang, H.-B., Sheng, J.,et al.	The tea tree genome provides insights into tea flavor and independent evolution of caffeine biosynthesis.	Mol. Plant	2017	doi:10.1016/j.molp.2017.04.002
Jiang, X., Zhao, H., Guo, F. et al.	Transcriptomic analysis reveals mechanism of light-sensitive albinism in tea plant Camellia sinensis ‘Huangjinju’.	BMC Plant Biol	2020	doi.org/10.1186/s12870-020-02425-0
Chen, JD., Zheng, C., Ma, JQ. et al.	The chromosome-scale genome reveals the evolution and diversification after the recent tetraploidization event in tea plant.	Hortic Res	2020	doi.org/10.1038/s41438-020-0288-2