ORCID Profile
0000-0001-6325-3230
Current Organisation
Australian National University
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Publisher: Elsevier BV
Date: 10-2018
Publisher: Wiley
Date: 26-03-2007
Publisher: Springer Berlin Heidelberg
Date: 2010
Publisher: Springer Science and Business Media LLC
Date: 24-07-2007
Abstract: Molecular genetic maps provide a means to link heritable traits with underlying genome sequence variation. Several genetic maps have been constructed for Brassica species, yet to date, there has been no simple means to compare this information or to associate mapped traits with the genome sequence of the related model plant, Arabidopsis . We have developed a comparative genetic map database for the viewing, comparison and analysis of Brassica and Arabidopsis genetic, physical and trait map information. This web-based tool allows users to view and compare genetic and physical maps, search for traits and markers, and compare genetic linkage groups within and between the hidiploid and diploid Brassica genomes. The inclusion of Arabidopsis data enables comparison between Brassica maps that share no common markers. Analysis of conserved syntenic blocks between Arabidopsis and collated Brassica genetic maps validates the application of this system. This tool is freely available over the internet on bioinformatics.pbcbasc.latrobe.edu.au/cmap . This database enables users to interrogate the relationship between Brassica genetic maps and the sequenced genome of A. thaliana , permitting the comparison of genetic linkage groups and mapped traits and the rapid identification of candidate genes.
Publisher: Springer Berlin Heidelberg
Date: 2009
Publisher: Springer Berlin Heidelberg
Date: 2010
Publisher: Springer Science and Business Media LLC
Date: 31-07-2017
Publisher: Oxford University Press (OUP)
Date: 29-03-2013
DOI: 10.1093/BIB/BBT022
Publisher: Oxford University Press (OUP)
Date: 10-2019
Abstract: Wild abalone (Family Haliotidae) populations have been severely affected by commercial fishing, poaching, anthropogenic pollution, environment and climate changes. These issues have stimulated an increase in aquaculture production however production growth has been slow due to a lack of genetic knowledge and resources. We have sequenced a draft genome for the commercially important temperate Australian ‘greenlip’ abalone (Haliotis laevigata, Donovan 1808) and generated 11 tissue transcriptomes from a female adult abalone. Phylogenetic analysis of the greenlip abalone with reference to the Pacific abalone (Haliotis discus hannai) indicates that these abalone species erged approximately 71 million years ago. This study presents an in-depth analysis into the features of reproductive dysfunction, where we provide the putative biochemical messenger components (neuropeptides) that may regulate reproduction including gonad maturation and spawning. Indeed, we isolate the egg-laying hormone neuropeptide and under trial conditions induce spawning at 80% efficiency. Altogether, we provide a solid platform for further studies aimed at stimulating advances in abalone aquaculture production. The H. laevigata genome and resources are made available to the public on the abalone ‘omics website, abalonedb.org.
Publisher: Oxford University Press (OUP)
Date: 08-07-2022
DOI: 10.1093/BIOINFORMATICS/BTAC465
Abstract: Missense mutations that change protein stability are strongly associated with human genetic disease. With the recent availability of predicted structures for all human proteins generated using the AlphaFold2 prediction model, genome-wide assessment of the stability effects of genetic variation can, for the first time, be easily performed. This facilitates the interrogation of personal genetic variation for potentially pathogenic effects through the application of stability metrics. Here, we present a novel tool to prioritize variants predicted to cause strong instability in essential proteins. We show that by filtering by ΔΔG values and then prioritizing by StabilitySort Z-scores, we are able to more accurately discriminate pathogenic, protein-destabilizing mutations from population variation, compared with other mutation effect predictors. StabilitySort is available as a web service (www.stabilitysort.org), as a data download for integration with other tools (ownload) or can be deployed as a standalone system from source code (aaron/StabilitySort). Supplementary data are available at Bioinformatics online.
Publisher: IEEE
Date: 05-2009
Publisher: Wiley
Date: 20-12-2007
Publisher: IEEE
Date: 07-2010
Publisher: Elsevier BV
Date: 02-2021
No related grants have been discovered for Xi Li.