Hostplant Databases

Silkworms feed on a variety of host plants like primary, secondary and tertiary. Overall, the host plants can be divided into domesticated and wild silkworm host plants. This section deals with the databases comprising the information of the host plants.


1. Databases of Mulberry

Database Name

Data type

Data content

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MorusDB

Genome, Transcriptome

Morus notabilis Genome data-110 760 scaffolds, 27 085 protein-coding genes, consisting of 124 550 exons, 81 rRNA genes, 560 tRNA genes, 311 snRNA genes, 233 microRNA genes; Repeats-324 736 repetitive sequences (53 725 Known transposable element, 271 011 others)

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MulSatDB

Microsatellites

217,312 microsatellites from whole genome and 961 microsatellites from EST sequences of Morus notabilis (SSR marker location, repeat kind, motif type and size)

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Other        

web-resources

Genome, Transcription Factor

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2. Databases of Castor

A host plant of Eri (Samia cynthia ricini) Ricinus communis (castor bean) is a primary host plant of Samia cynthia, eri silk moth and a source of biofuel. Such databases are shown in this section.

Database Name

Data type

Data content

More on Database

Castor Database

Phenotype, Germplasm

294 different germplasms including 20 FC5 plants and YRCH (Yethapur Ricinus Communis Hybrid) plants; Qualitative Data- Type of Internodes, Type of Inflorescence, Spike shape, Compactness of Inflorescence,

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Other web resources (JCVI Castor bean Genome DB, Castor DB)

 

Genome, ESTs, Proteins, Pathways

  • Gene and protein sequences, gene expression and gene ontology annotation of protein sequences obtained from a variety of repositories.
  • Predicted cellular localization, domains, pathways, protein-protein interactions, sumoylation sites and biochemical properties.
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3. Databases of Papaya

A host plant of Eri silkworm (Samia cynthia ricini) Papaya (Carica papaya) is a secondary host plant of Samia cynthia; whose databases are mentioned here.

Database Name

Data type

Data content

More on Database

Papaya-DB

Whole Genome, ESTs

Papaya physical and genetic maps, shotgun WGS and EST sequences, and sex-determining region. More

CPR-DB

Repetitive elements

Repeatitive elements (56% of the genome) 52% Transposable elements (TEs), 1.3% tandem repeats and 3% high copy number genes

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4. Databases of Jatropha

A host plant of Eri silkworm (Samia cynthia ricini) Jatropha curcas is a secondary host plant of eri silkworm (Samia cynthia) and immense potential in biodiesel production. The database comprising information on Jatropha is mentioned here.

Database Name

Data type

Data content

More on Database

Jatropha

GenomeDB

Genomic information, DNA markers

Genome: Total length of sequences- 297,661,187 bp, Average G + C content was 33.7%; DNA markers of Jatropha curcas

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5. Databases of Cassava:

A secondary host plant of Eri (Samia cynthia ricini) Manihot esculenta (Cassava) is a secondary host plant of Samia cynthia. Databases on Cassava are given as below-

Database Name

Data type

Data content

More on Database

CGDB

ESTs, Whole Genome, SNPs

70000 BAC clones, Assembled Cassava ESTs, SNP information

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CCDB

Annotated genome, Transcriptome,

Various pathways

Assembled draft genome sequence and genome annotation of Cassava. More

Cassavabase

Genomic sequences, Phenotypes, Genetic maps

Cassava genome, annotation, phenotype, markers, breeding programmes, etc. More

 


6. Databases of Quercus

A primary host plant of Oak Tasar silkworm Quercus is a primary host plant of oak tasar silkworm. Specific interlinked databases and web-resources on oak tasar are shown here.

Database Name

Data type

Data content

More on Database

Quercus portal

Genetic Resource, Biodiversity, Evolution, Phylogeny, Taxonomy

Genome, genetic resources, biodiversity, evolution, phylogeny and taxonomy of Quercus. More

 

 


7. Other Generalized Plant Databases

This section shows generalized databases which contain taxonomic, genomic and proteomic information of the plants which contribute to better understanding of the plants.

Database Name

Data type

Data content

More on Database

HOSTS

Host Plant Data

180,000 records comprising taxonomically ‘cleaned’ hostplant data for about 22,000 Lepidoptera species.

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PlantGDB

ESTs, cDNA sequences, Microarray probes

Genome, ESTs, cDNA sequences and microarray probes. More

Phytozome

Annotated genomes

58 sequenced and annotated green plant genomes, 52 of which clustered into gene families at 15 evolutionary significant nodes

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PLAZA

Gene families, Genome homology

Integrated database with structural and functional annotation of published plant genomes; multi-interactive tools to study gene function and gene and genome evolution.

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ChromDB

Chromatin sequence

  • Chromatin-associated proteins, including RNAi-associated proteins.
  • Comparative analysis for wide range of organisms (some silkworm host plants such as R. communis, M. esculenta, and C. papaya).
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Plant TFDB

Transcription factor

26402 predicted TFs from 22 species and 17 plants with available EST sequences

TFs of few host plants of silkworms is available.

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PLANTS

Database

Images, Classification, Ecology

Images, classification, ecology, etc. of a few host plants (M. esculenta, Quercus spp., Shorea robusta) More