The citrus greening disease (also called huanglongbing) has devastated the Florida citrus industry, and is now in CA and TX. Fruit from infected trees is safe to eat, but production is reduced so much that citrus may cease to be inexpensive and broadly available. If you are a citrus lover you should know that massive research efforts, including this project, are underway to keep citrus affordable and plentiful. See impact on US production..

Citrus Greening Solutions is a USDA NIFA project.



Credit: Cilia lab

News
Webinar for new Diaphorina citri v2.0 genome and Official gene set v2.0 release
The improved v2.0 reference assembly has 1906 contigs and a contig N50 of 759Kb. We are also releasing a new Official Gene Set (v2.0) with 20,967 genes. We will be announcing more details in a webinar on March 5, 2018 (12-1pm EST, 9-10am PST, 5-6pm GMT). No login is required to join the webinar. Please click here to connect at the meeting time.
New updates posted on Diaphorina citri genome and annotation pages
We have added details about the interim genome v1.91 and the new WebApollo system that is hosted at Boyce Thompson Institute. Links to the BioCyc metabolic pathway databases have also been added to the genome pages.
Our paper describing the Diaci v1.1 genome, MCOT transcriptome and Official gene set v1.0 is now available online. Please see the supplementary data for details of manual curation.
The Official Gene Set (OGS v1.0) reported in our paper is now available for blast analysis. This includes the automatically predicted genes from the last version of annotation (XP,XM) as well as 530 manually curated gene models.
The interim genome v1.9 for Asian citrus psyllid assembled from Pacbio data is now available on Jbrowse. The genome build is also available at the Ag Data Commons site. Please cite this resource if you publish any analysis based on this dataset.
The Cilia, Shatters, Mueller, Slupsky and Hunter labs presented multiple talks and posters at the IRCHLB meeting in Orlando in March 2017. Please see the agenda for more details.
We have added more details of the curation process as well as a detailed workflow, tutorial and slides used for training annotators. The preprint focuses on specific gene families in developmental, physiological, RNAi regulatory, and immunity-related pathways.
We are releasing a interim Pacbio assembly (Diaci v1.9) for the ACP genome that is a major improvement over the current genome (Diaci v1.1).You can download the genome at our FTP site. Please note that this is an interim assembly so we will not be annotating it but you can blast DNA and protein sequences to it.
Annotation Updates
C-Type Lectins
Report and protein sequences
C-Type Lectins(CTLs) are calcium dependent extracellular proteins involved in recognition of glycans. A total of 10 models were found and annotated. Refer to C-type lectin gene report for further details. The Basecamp page and FTP site contain the data sets and instructions for annotation.
Relish-like Proteins
Report and protein sequences
Relish-like proteins are transcription factors and are inlvolved in Imd pathway. The Basecamp page and FTP site contain the data sets and instructions for annotation.
Galactoside-Binding Lectins
Report and protein sequences
Galactoside-Binding Lectins (GALEs) or galectins bind to beta-galactoside sugars. GALEs are implicated in innate immunity as they might be involved in microbial recognition and/or phagocytosis. The Basecamp page and FTP site contain the data sets and instructions for annotation.
Fibrinogen-Related Proteins annotation
Report and protein sequences
Fibrinogen-Related Proteins (FREPs) are implicated in bacteria binding, enhancement of antimicrobial activity and interaction with parasite. The Basecamp page and FTP site contain the data sets and instructions for annotation.
Events
Third Annual CitrusGreening Solutions meeting
The Third Annual CitrusGreening Solutions meeting will be held on Dec 10-12th,2017 at University of California, Davis campus in CA.
International Research Conference on Huanglongbing
The IRCHLB V meeting was held in Orlando, FL from March 15-17th, 2017. See here for more information. The Cilia, Mueller and Shatters labs were represented at the meeting.
International Plant and Animal Genome XXV meeting
Members from the Mueller lab presented a poster and gave a demonstration of the resources at Citrusgreening.org. Updates to the ACP genome were presented at the Arthropod genomics workshop. CitrusCyc metabolic pathway database was described at the Citrus Genome workshop.
Links
Agencies
Psyllid Research
Citrus Research