PROJECT INFORMATION
GOLD Project ID
Gp0608123  
Project Name
Perilla frutescens var. frutescens PF040  
Other Names
  
Legacy GOLD ID
  
NCBI BioProject Name Perilla frutescens var. frutescens isolate:PF040
NCBI BioProject Accession PRJNA431002
NCBI Locus Tag
C2S51  
NCBI BioSample Accession SAMN08382014
PI
Added By JGI automated process on 2021-12-23
Last Modified By JGI automated process on 2021-12-27
Project Comments
  
Project Status
Permanent Draft  
Project Relevance
  
Sequencing Center Chinese Academy of Sciences, Shanghai Institute of Materia Medica
Collaborating Institute
  
Funding Agency
  
Project Description
Perilla frutescens var. frutescens PF040 genome sequencing  
Is JGI Project
No  
Project Information Visibility Public
PROJECT TYPE
Specimen Organism
Nucleic Acid DNA
Sequencing Strategy
Whole Genome Sequencing  
EXTERNAL PROJECT LINKS
JGI Data Utilization Status
  
JGI Award DOI
Genome Publications
  
Other Publications
  
Ignored Publications
  
Unassigned Publications Nature communications 12(1):5508 Incipient diploidization of the medicinal plant Perilla within 10,000 years.

SRA Experiment
 
SRA Experiment Id SRX4020249  (Link to NCBI )
Experiment Title Methylome sequencing of Perilla frutescens leaves
Exp Library Strategy WGS
Library Source GENOMIC
Library Selection RANDOM
Library Name Leaf methylation library
Library Layout PAIRED
Library Instrument HI_SEQ_X_TEN
 
SRA Experiment Id SRX4020258  (Link to NCBI )
Experiment Title de novo assembly of Perilla frutescens genome
Exp Library Strategy WGS
Library Source GENOMIC
Library Selection size fractionation
Library Name 500bp paired-end library 2
Library Layout PAIRED
Library Instrument ILLUMINA_HI_SEQ_4000
 
SRA Experiment Id SRX4020248  (Link to NCBI )
Experiment Title Methylome sequencing of Perilla frutescens flowers
Exp Library Strategy WGS
Library Source GENOMIC
Library Selection RANDOM
Library Name Flower methylation library
Library Layout PAIRED
Library Instrument HI_SEQ_X_TEN
 
SRA Experiment Id SRX4020259  (Link to NCBI )
Experiment Title de novo assembly of Perilla frutescens genome
Exp Library Strategy WGS
Library Source GENOMIC
Library Selection size fractionation
Library Name 5Kb mate-pair library 1
Library Layout PAIRED
Library Instrument ILLUMINA_HI_SEQ_4000
 
SRA Experiment Id SRX4020267  (Link to NCBI )
Experiment Title de novo assembly of Perilla frutescens genome
Exp Library Strategy WGS
Library Source GENOMIC
Library Selection size fractionation
Library Name 300bp paired-end library 2
Library Layout PAIRED
Library Instrument ILLUMINA_HI_SEQ_4000
 
SRA Experiment Id SRX4020256  (Link to NCBI )
Experiment Title de novo assembly of Perilla frutescens genome
Exp Library Strategy WGS
Library Source GENOMIC
Library Selection size fractionation
Library Name 10Kb mate-pair library
Library Layout PAIRED
Library Instrument ILLUMINA_HI_SEQ_4000
 
SRA Experiment Id SRX4020257  (Link to NCBI )
Experiment Title 10X Genomics Chromium library sequencing of Perilla frutescens
Exp Library Strategy WGS
Library Source GENOMIC
Library Selection RANDOM
Library Name 10X Genomics Chromium library 1
Library Layout PAIRED
Library Instrument HI_SEQ_X_TEN
 
SRA Experiment Id SRX8505577  (Link to NCBI )
Experiment Title PF40
Exp Library Strategy WGS
Library Source GENOMIC
Library Selection RANDOM
Library Name PF40_PacBio
Library Layout SINGLE
Library Instrument SEQUEL
 
SRA Experiment Id SRX4020254  (Link to NCBI )
Experiment Title de novo assembly of Perilla frutescens genome
Exp Library Strategy WGS
Library Source GENOMIC
Library Selection size fractionation
Library Name 2Kb mate-pair library
Library Layout PAIRED
Library Instrument ILLUMINA_HI_SEQ_4000
 
SRA Experiment Id SRX4020265  (Link to NCBI )
Experiment Title 10X Genomics Chromium library sequencing of Perilla frutescens
Exp Library Strategy WGS
Library Source GENOMIC
Library Selection RANDOM
Library Name 10X Genomics Chromium library 3
Library Layout PAIRED
Library Instrument HI_SEQ_X_TEN
 
SRA Experiment Id SRX4020266  (Link to NCBI )
Experiment Title 10X Genomics Chromium library sequencing of Perilla frutescens
Exp Library Strategy WGS
Library Source GENOMIC
Library Selection RANDOM
Library Name 10X Genomics Chromium library 5
Library Layout PAIRED
Library Instrument HI_SEQ_X_TEN
 
SRA Experiment Id SRX4020255  (Link to NCBI )
Experiment Title de novo assembly of Perilla frutescens genome
Exp Library Strategy WGS
Library Source GENOMIC
Library Selection size fractionation
Library Name 300bp paired-end library 1
Library Layout PAIRED
Library Instrument ILLUMINA_HI_SEQ_4000
 
SRA Experiment Id SRX4020263  (Link to NCBI )
Experiment Title de novo assembly of Perilla frutescens genome
Exp Library Strategy WGS
Library Source GENOMIC
Library Selection size fractionation
Library Name 20Kb mate-pair library
Library Layout PAIRED
Library Instrument ILLUMINA_HI_SEQ_4000
 
SRA Experiment Id SRX4020252  (Link to NCBI )
Experiment Title 10X Genomics Chromium library sequencing of Perilla frutescens
Exp Library Strategy WGS
Library Source GENOMIC
Library Selection RANDOM
Library Name 10X Genomics Chromium library 7
Library Layout PAIRED
Library Instrument HI_SEQ_X_TEN
 
SRA Experiment Id SRX4020264  (Link to NCBI )
Experiment Title 10X Genomics Chromium library sequencing of Perilla frutescens
Exp Library Strategy WGS
Library Source GENOMIC
Library Selection RANDOM
Library Name 10X Genomics Chromium library 4
Library Layout PAIRED
Library Instrument HI_SEQ_X_TEN
 
SRA Experiment Id SRX4020253  (Link to NCBI )
Experiment Title 10X Genomics Chromium library sequencing of Perilla frutescens
Exp Library Strategy WGS
Library Source GENOMIC
Library Selection RANDOM
Library Name 10X Genomics Chromium library 6
Library Layout PAIRED
Library Instrument HI_SEQ_X_TEN
 
SRA Experiment Id SRX4020250  (Link to NCBI )
Experiment Title 10X Genomics Chromium library sequencing of Perilla frutescens
Exp Library Strategy WGS
Library Source GENOMIC
Library Selection RANDOM
Library Name 10X Genomics Chromium library 8
Library Layout PAIRED
Library Instrument HI_SEQ_X_TEN
 
SRA Experiment Id SRX4020261  (Link to NCBI )
Experiment Title de novo assembly of Perilla frutescens genome
Exp Library Strategy WGS
Library Source GENOMIC
Library Selection size fractionation
Library Name 800bp paired-end library
Library Layout PAIRED
Library Instrument ILLUMINA_HI_SEQ_4000
 
SRA Experiment Id SRX4020251  (Link to NCBI )
Experiment Title de novo assembly of Perilla frutescens genome
Exp Library Strategy WGS
Library Source GENOMIC
Library Selection size fractionation
Library Name 500bp paired-end library 1
Library Layout PAIRED
Library Instrument ILLUMINA_HI_SEQ_4000
 
SRA Experiment Id SRX4020262  (Link to NCBI )
Experiment Title 10X Genomics Chromium library sequencing of Perilla frutescens
Exp Library Strategy WGS
Library Source GENOMIC
Library Selection RANDOM
Library Name 10X Genomics Chromium library 2
Library Layout PAIRED
Library Instrument HI_SEQ_X_TEN
 
SRA Experiment Id SRX4020260  (Link to NCBI )
Experiment Title de novo assembly of Perilla frutescens genome
Exp Library Strategy WGS
Library Source GENOMIC
Library Selection size fractionation
Library Name 5Kb mate-pair library 2
Library Layout PAIRED
Library Instrument ILLUMINA_HI_SEQ_4000
PROJECT COMPOSITION
Study Perilla frutescens var. frutescens PF040 genome sequencing
Organism Perilla frutescens var. frutescens PF040
Analysis Projects Perilla frutescens var. frutescens PF040
Number of Analysis Projects (AP) 1
Number of Derived Analyis Projects (DAP)
0  
SEQUENCING INFORMATION
Sequencing Status Draft
Sequencing Quality (MIGS-31) Level 2: High-Quality Draft
Finishing Goal
Contamination Screening Input
  
DNA Amplification Method
  
Single Cell Lysis Protocol
  
Single Cell Lysis Approach
  
Sequencing Comments
  
DNA Amplification Kit
  
Sequencing Technology (MIGS-29) PacBio Sequel
Library Method (MIGS-28)
  
Library Layout
  
Library Screening Method
  
Number Of Reads
  
Read Size
  
Vector
  
GC Percent
  
Chromosome Count
  
Plasmid Count
  
ORGANISM NAME
GOLD Organism ID Go0594178
Organism Name
Perilla frutescens var. frutescens PF040  
Other names (alias, synonyms, short names, common names)
  
Organism Domain
EUKARYAL  
Phylogeny
PLANTS-STREPTOPHYTA  
Genus
Perilla  
Genus Synonyms
  
Species
Perilla frutescens  
Subspecies
  
Species Synonyms
  
Strain
  
Strain Synonyms
  
Serovar/Cultivar
PF040  
Culture Collection ID
  
Type Strain
  
Exemplar DOI
  
Exemplar Name
  
Taxon DOI
  
Biosafety Level
  
Organism Comments
  
Cultured
Yes  
Culture Type
Isolate  
Organism Type
Natural  
Uncultured Type
  
Commercial Strain
  
Commercial Strain Comments
  
ORGANISM TAXONOMY
NCBI Taxonomy ID 151328
NCBI Superkingdom
Eukaryota  
NCBI Kingdom
Viridiplantae  
NCBI Phylum
Streptophyta  
NCBI Class
Magnoliopsida  
NCBI Order
Lamiales  
NCBI Family
Lamiaceae  
NCBI Genus
Perilla  
NCBI Species
Perilla frutescens  
ISOLATION CLASSIFICATION
Ecosystem
  
Ecosystem Category
  
Ecosystem Type
  
Ecosystem Subtype
  
Specific Ecosystem
  
ORGANISM EXTERNAL REFERENCES
Strain Info ID
Genbank 16S ID
GENERAL PROPERTIES
Oxygen Requirement
  
Cell Shape
  
Motility
  
Sporulation
  
Temperature Range
  
Salinity
  
pH
  
Cell Diameter
  
Cell Length
  
Color
  
Gram Staining
  
Biotic Relationships
  
Symbiotic Physical Interaction
  
Symbiotic Relationship
  
Symbiont Name
  
Symbiont Taxon ID
  
Cell Arrangements
  
Diseases
  
Known Habitats
  
Metabolisms
  
Phenotypes
  
Energy Sources
  

 

 

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