Bamboo and rattan (BR) are economically and ecologically important species with wide applications nowadays. Despite their significance, genetic researches of BR species were affected by lacking of genomic resources, which precludes the understanding and applications of BR. With such background (more detailed background information can be found in the commentary by Zhao et al., Gigascience,2017), the Genome Atlas of Bamboo and Rattan (GABR) Project was initiated in 2016 by the GABR consortium in order to accelerate genetic researches and applications for bamboo and rattan species. The GABR project aimed at generating valuable genomic resources for both bamboo and rattan with global efforts, by sequencing the transcriptomes of all the bamboo species and establishing the reference genomes for the representative rattan species. Thus GABR project has two core subprojects of Bamboo-T1K (Transcriptomes of 1,000 bamboos) and Rattan-G5 (Genomes of 5 rattans), as well as several other cooperative subprojects. We are also preparing a commentary to describe details of this projects (Zhao et al., Gigascience,2017).
Phase I of GABR Project
Currently, we are in the first phase of the GABR project, to generate DNA bacodes and transcriptomes of ~340 representative Old World bamboo species, as well as genome data of two rattan species (Daemonorops jenkinsiana and Calamus simplicifolius). We are also carrying out several other subprojects as indicated below. Right now we are in the process of data generation, and the generated data will first be share in the website , and then as well as the public databases including NCBI SRA and China Nation GeneBank (CNGB) . We aimed at finishing Phase I of GABR Project before the end of 2017.
Current subprojects of Phase I in GABR Projects :
|Omics Data types||Topics of subprojects|
|Bambusoideae evaluation based on nuclear phylogenomics|
|Identification of bamboo species using DNA barcodes|
|Genome sequencing and assembly for the rattans|
|Cellular and molecular characterization of single internode growth of bamboo|
|Transcriptome analysis to reveal the mechanism controlling shortened internodes in bamboo|
|Genome-wide profiling of non-coding circular RNAs in bamboo|
|Comprehensive analysis of seasonal phytochemical changes in bamboo as food for captive giant panda|
|Integrated transcriptomics and metabolomics approaches to reveal terpenoid biosynthesis pathways in bamboo.|
|Floral transcriptome reveals surprising protein sequence conservation in the flowering pathway|
|Gene network analysis and functional module identification for bamboo|
|A pipeline for plant genome annotation developed for high-throughput sequence data of bamboo and rattan|
- G: Genome; T: Transcriptome; P: Proteome; M: Metabolome
The GABR consortium
The GABR consortium was initiated by INBAR (International Network for Bamboo and Rattan) in 2016. INBAR is the intergovernmental organization that was founded in 1997 through a treaty deposited with the United Nations, with global members having bamboo and rattan resources. The GABR Project is supported by ICBR (International Center for Bamboo and Rattan), one of the major members of INBAR. GABR consortium is an international, collaborative and non-profit initiative to generate valuable genomic resources for BR species. The consortium now consists of ~100 scientists from 52 scientific institutions and universities across 42 countries and one intergovernmental organization.
GABR consortium would like to invite any experts and institutions to participate in the project. As all the current members in the consortium, participants should contribute to collections of additional BR resources, genomic data generation or further analysis of the generated genomic data. You can provide a brief proposal of your potential contribution to GABR Project via email to Professor Zhimin Gao at GABR@icbr.ac.cn. We will carefully consider your proposal and let you know whether and how we think we can participate in this consortium.