RT Journal Article
SR Electronic
T1 Improved annotation of the insect vector of Citrus greening disease: Biocuration by a diverse genomics community
JF bioRxiv
FD Cold Spring Harbor Laboratory
SP 099168
DO 10.1101/099168
A1 Surya Saha
A1 Prashant S Hosmani
A1 Krystal Villalobos-Ayala
A1 Sherry Miller
A1 Teresa Shippy
A1 Mirella Flores
A1 Andrew Rosendale
A1 Chris Cordola
A1 Tracey Bell
A1 Hannah Mann
A1 Gabe DeAvila
A1 Daniel DeAvila
A1 Zachary Moore
A1 Kyle Buller
A1 Kathryn Ciolkevich
A1 Samantha Nandyal
A1 Robert Mahoney
A1 Joshua Van Voorhis
A1 Megan Dunlevy
A1 David Farrow
A1 David Hunter
A1 Taylar Morgan
A1 Kayla Shore
A1 Victoria Guzman
A1 Allison Izsak
A1 Danielle E Dixon
A1 Andrew Cridge
A1 Liliana Cano
A1 Xialong Cao
A1 Haobo Jiang
A1 Nan Leng
A1 Shannon Johnson
A1 Brandi L Cantarel
A1 Stephen Richardson
A1 Adam English
A1 Robert G Shatters
A1 Chris Childers
A1 Mei-Ju Chen
A1 Wayne Hunter
A1 Michelle Cilia
A1 Lukas A Mueller
A1 Monica Munoz-Torres
A1 David Nelson
A1 Monica F Poelchau
A1 Joshua B Benoit
A1 Helen Wiersma-Koch
A1 Tom D’elia
A1 Susan J Brown
YR 2017
UL http://biorxiv.org/content/early/2017/03/04/099168.abstract
AB The Asian citrus psyllid (Diaphorina citri Kuwayama) is the insect vector of the bacterium Candidatus Liberibacter asiaticus (CLas), the pathogen associated with citrus Huanglongbing (HLB, citrus greening). HLB threatens citrus production worldwide. Suppression or reduction of the insect vector using chemical insecticides has been the primary method to inhibit the spread of citrus greening disease. Accurate structural and functional annotation of the Asian citrus psyllid genome, as well as a clear understanding of the interactions between the insect and CLas, are required for development of new molecular-based HLB control methods. A draft assembly of the D. citri genome has been generated and annotated with automated pipelines. However, knowledge transfer from well-curated reference genomes such as that of Drosophila melanogaster to newly sequenced ones is challenging due to the complexity and diversity of insect genomes. To identify and improve gene models as potential targets for pest control, we manually curated several gene families with a focus on genes that have key functional roles in D. citri biology and CLas interactions. This community effort produced 530 manually curated gene models across developmental, physiological, RNAi regulatory, and immunity-related pathways. As previously shown in the pea aphid, RNAi machinery genes putatively involved in the microRNA pathway have been specifically duplicated. A comprehensive transcriptome enabled us to identify a number of gene families that are either missing or misassembled in the draft genome. In order to develop biocuration as a training experience, we included undergraduate and graduate students from multiple institutions, as well as experienced annotators from the insect genomics research community. The resulting gene set (OGS v1.0) combines both automatically predicted and manually curated gene models. All data are available on https://citrusgreening.org/.