Castanea mollissima

Summary

Reference Genome

JBrowse

Feature Search

Gene Expression Profiles

Transcriptome

Analysis Details

Biological Samples

Mapping Population

Predicted SSRS (genomic)

Libraries

Physical and Genetic Map

Gene Ontology Browser

KEGG Browser

Summary

Resource Type	Organism
Abbreviation	C. mollissima
Genus	Castanea
Species	mollissima
Common Name	Chinese Chestnut
Organism Image
Cross Reference	NCBITaxon:60419
Description	Order: Fagales Family: Fagaceae Chromosome Number: 2n=24 Genome Size: 800 Mbp Links: The American Chestnut Foundation Transcriptome Assemblies Archived Version: Chinese Chestnut Transcriptome Version 081508 Originally from Fagaceae Genomics Web, named CCall Unigene V2 454 and Sanger sequencing assembled in 48,335 transcripts (Aug 2008)

Reference Genome

Name	Program	Date Constructed
Castanea mollissima - Reference Genome v1.1	Maker	Oct 16th, 2014
Castanea mollissima v3.4 and 4.3 - Reference Genome	N/A	Apr 17th, 2019

JBrowse

The Chinese chestnut Jbrowse instance that corresponds to the v3.2 reference genome assembly can be found below.

Go to JBrowse v3.2

The Chinese chestnut Jbrowse instance that corresponds to the v1.1 reference genome assembly can be found below.

Additional tracks:

Chinese chestnut variants and read alignments
American chestnut variants and read alignments

Go to JBrowse

Feature Search

You can search this organism’s features in the database by entering search terms in the box. You can search by feature name or annotation.

Transcriptome

Name	Program	Date Constructed
[Archived] Castanea dentata - Transcriptome Assembly v081508 (CCall_v2)	SeqManPro FGW	Aug 15th, 2008

Analysis Details

Provides detailed information on the programs used to assemble and annotate the data.

Name	Program	Date Constructed
Castanea mollissima - peptides InterProScan	interproscan	Sep 26th, 2018
Castanea mollissima - mRNA BLASTX against SwissProt	blastx	Oct 16th, 2014
Castanea mollissima - proteins against SwissProt	blastp	Oct 16th, 2014
Castanea mollissima - proteins against TrEMBL	blastp	Oct 16th, 2014
Castanea mollissima - Reference Genome v1.1	Maker	Oct 16th, 2014
Castanea mollissima v3.4 and 4.3 - Reference Genome	N/A	Apr 17th, 2019
Castanea mollissima v3.2 - mRNA BLASTX against Swissprot	blastx	Apr 18th, 2019
Castanea mollissima v3.2 - mRNA BLASTX against TrEMBL	blastx	Apr 18th, 2019
Castanea mollissima v3.2 - peptides InterProScan	interproscan	Apr 18th, 2019
Castanea mollissima v3.2 - peptides KEGG	kegg (Ghost Koala)	Apr 18th, 2019
[Archived] Castanea dentata - Transcriptome Assembly v081508 (CCall_v2)	SeqManPro FGW	Aug 15th, 2008

Biological Samples

Name	Tissue	Treatment	Description
Chinese chestnut canker	Not set	Not set	ESTS derived from combined tissues of tree GR119, Nanking genotype. Combined tissues included stems (secondary phloem and primary periderm) wounded plus inoculated with blight fungus culture.
Chinese chestnut healthy stem 1	Not set	Not set	ESTS derived from combined tissues of tree BX316 rootstock, Vanuxem clone. Combined tissues from healthy stem include bark, vascular cambium and wood attached to each other.
Chinese chestnut healthy stem 2	Not set	Not set	ESTS derived from combined tissues of trees GR119 and BX316. Combined tissues from healthy stem include bark, vascular cambium and wood attached to each other.
Chinese Chestnut 'Vanuxem'	leaf	Not set	Chinese chestnut tree 'Vanuxem' at Meadowview Research Farms (The American Chestnut Foundation)
Chinese chestnut whole plant 1	Not set	Not set	ESTS derived from combined tissues of trees GR119 and BX316. Combined tissues from whole plant include bark, vascular cambium and wood attached to each other, immature and blooming catkins, leaves, twigs and buds.
Chinese chestnut whole plant 2	Not set	Not set	ESTS derived from combined tissues of tree BX316. Clone is unknown; rootstock and scion are different genotypes. Combined tissues from whole plant include bark, vascular cambium and wood attached to each other, immature and blooming catkins, leaves, twigs and buds. ...
LIBEST_024643	flowers	Not set	CMFME A Leaf fraction 678. Collected by Fred Hebard on 6/5/2007. Flowers collected, ground in RNAlater and shipped in the same. Tissue sent to Bill Powell. Size subtracted. Sequencing performed by David Henry at Clemson University Genomics Institute.
LIBEST_024644	flowers	Not set	CMFME B Leaf fraction 9. Collected by Fred Hebard on 6/5/2007. Flowers collected, ground in RNAlater and shipped in the same. Tissue sent to Bill Powell. Size subtracted. Sequencing performed by David Henry at Clemson University Genomics Institute.
LIBEST_024645	flowers	Not set	CMFME C Leaf fraction 10. Collected by Fred Hebard on 6/5/2007. Flowers collected, ground in RNAlater and shipped in the same. Tissue sent to Bill Powell. Size subtracted. Sequencing performed by David Henry at Clemson University Genomics Institute.
LIBEST_024646	leaves	Not set