10.6084/m9.figshare.5307391.v1
Mirella Flores
Mirella
Flores
Surya Saha
Surya
Saha
Prashant S Hosmani
Prashant S
Hosmani
Susan Brown
Susan
Brown
Lukas A Mueller
Lukas
A Mueller
Community portal for the Citrusgreening disease resources
figshare
2017
citrus
database
pathway
biocyc
jbrowse
citrusgreening
HLB
Huanglongbing
website
Bioinformatics
Bioinformatics Software
Gene Expression (incl. Microarray and other genome-wide approaches)
Genomics
Database Management
Plant Pathology
2017-08-14 17:38:16
Poster
https://figshare.com/articles/poster/Community_portal_for_the_Citrusgreening_disease_resources/5307391
<p>Huanglongbing (HLB) is a tritrophic disease complex involving citrus
host trees, the Asian citrus psyllid (ACP) insect and a phloem restricted,
bacterial pathogen <i>Candidatus </i>Liberibacter asiaticus (CLas). HLB is considered to be the most
devastating of all citrus diseases, and there is currently no adequate control
strategy. In Florida, an estimated 40-70% of all citrus trees are infected, and
HLB effects include production declines (10-20% per year), diminished fruit
quality and increased production costs. We have designed a web portal with
information for consumers and growers as well as genomics and bioinformatics
resources for citrus, ACP and CLas. The
JBrowse browser provides the context for
expression data and annotated features on the genome. Biocyc Pathway Tools databases model
biochemical pathways within each organism and will be used to explore the
entire disease complex. Micro-CT analysis of the ACP will be combined with
transcriptomics data from different tissues, life stages and sexes to create a
3D atlas that will reveal the internal anatomy of ACP overlaid with the
expression profile of different tissues across major life stages. All tools
like JBrowse, Blast and the Atlas will connect
to a central database containing gene models for citrus, ACP and multiple <i>Candidatus </i>Liberibacter pathogens. The database will allow
manual curation so that the community can continuously improve the
knowledgebase as more experimental research is published. The database
architecture combines custom schemas and the community developed Chado schema
(http://gmod.org/wiki/Chado) for compatibility with other genome databases. </p>