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Biodiversity Genomics
Recent advances in DNA sequencing and bioinformatics means it is now possible to expand detailed genomic analysis from a few ‘model species’ to a wide diversity of organisms and environments. However, much of this capability is very new and not yet fully exploited by ecologists and evolutionary biologists.
CBA has invited world-class researchers in this exciting and rapidly expanding field to participate in a conference and series of workshops on Biodiversity Genomics with the aim to expose the broad community of biodiversity scientists to these recent advances and their application to diverse organisms.
Invited speakers
- Keynote presentations: 60 min time slot (including question time)
- Other invited presentations: 30 min time slot (including question time)
Please submit your abstract electronically by 15 March 2013. Include title, author’s name, affiliation, address, email and website (if applicable). Abstract text 300 words maximum.
Please bring presentations on memory stick or CD/DVD.
Lightning talks & posters
We welcome non-invited speakers to present a 'lightning talk' accompanied by a poster.
The posters will be on display during the conference talks. Authors will also give a five minute (maximum) presentation, a 'lightning talk', about the research reported on their poster during one of the two lightning talk sessions (April 3 & 4). Lightning talks may be accompanied by up to five PowerPoint slides. Each session of lightning talks will be followed by a poster session where questions / comments may be addressed to the presenter.
Please submit your abstract electronically by 15 March 2013. Include title, author’s name, affiliation, address, email and website (if applicable). Abstract text 300 words maximum.
Please bring presentations on memory stick or CD/DVD.
Poster display boards where posters will be hung are 1200mm wide x 1800mm tall. Attachment to display boards: “Velcro” / hook and hook-and-loop fastener – please bring the “hook” part stuck to your poster so that it can be attached to the poster display boards.
Useful sites on how to use a poster to effectively communicate your science include:
Partners & sponsors
Sessions
| Time | Session | |
|---|---|---|
| 10:00 | Launch of the CBA Professor Ian Young, AO (Vice-Chancellor of the ANU) Dr Mark Lonsdale (Chief CSIRO Ecosystem Sciences) | |
| 10:30 | Genomics, biodiversity and collections science – applications and opportunities Leo Joseph (Australian National Wildlife Collection, CSIRO | CBA) | |
| 11:00 | Genome wide association studies on the landscape Justin Borevitz (CBA | ANU) | |
| 11:30 | Morning tea | |
| 13:00 | Workshop 1: A next generation sequencing (NGS) primer for biodiversity genomics Peter Milburn Coordinator Peter Milburn Venue John Curtin School of Medical Research (ANU) Target audience Ecologists and evolutionary biologists with an interest in applying genomics to their research, but have not previously used NGS. Outline
| |
| 16:00 | Registration and welcome drinks | |
| 17:30 | Australian Academy of Science Public Lecture Jennifer Marshall Graves LocationThe Shine Dome, ANU DescriptionWeird animal genomes, sex and the future of men More information, including how to RSVP for this free public lecture, can be found here |
| Time | Session | |
|---|---|---|
| 09:00 | Welcome Craig Moritz (CBA Director) LocationDear Colleagues: Welcome to the inaugural conference of the ANU-CSIRO Centre for Biodiversity Analysis. We are in an exciting time for improving our knowledge of biodiversity because of the new capacity to apply genomics to previously intractable species and to investigate evolutionary processes from populations, through clades, to the tree of life. When integrated with knowledge of environments and how these change in space and time, we will achieve an unparalleled understanding of how the biota responds to environmental dynamics, and how to maximize resilience to future anthropogenic change. We are still in the early stages of this transformation. The necessary technologies and methods for interpreting and analyzing the data deluge are, as yet, in relatively few hands. True insights will come when scientists with a deep understanding of organisms and their environments have seamless access to these tools. The purpose of this conference is to bring together genomicists and organismal biologists in order to expose the latter to the rapidly expanding capability of biodiversity genomics and to establish a network of labs to take this forward. At the same time, there are pressing issues in relation to management of biodiversity. This is especially true for Australia where the immediate challenges are profound and the biota is globally unique. Accordingly, we have sought contributions from policy-makers and managers to explore how biodiversity genomics and the underpinning theory in evolutionary biology can improve translation of policy to practice. We hope you find the conference stimulating and rewarding. This is just the beginning… Craig Moritz Director, CBA | |
| 11:00 | Connecting environmental differences to differential gene flow and local adaptation genome-wide Graham Coop (University of California, Davis) | |
| 11:30 | Spatial population structure and its application to spatial assignment problems John Novembre (University of Chicago) | |
| 12:00 | The genomic structure of divergence during early speciation: the transition from local adaptation Rose Andrew (University of British Columbia) | |
| 12:30 | Museum genomics: applying novel genomic tools to museum specimens to detect genomic response to climate change Ke Bi (University of California, Berkeley Museum) | |
| 13:00 | Lunch | |
| 14:00 | History cleans up messes: a genome-wide perspective on hybridization and introgression in a tropical suture zone Sonal Singhal (University of California) | |
| 14:30 | Anchored phylogenomics: accelerating the resolution of Life Alan Lemmon and Emily Moriarty Lemmon (Florida State University) | |
| 15:00 | Phylogenomics and the evolution of insects – The 1KITE project Bernhard Misof (University of Bonn) | |
| 15:30 | Comparative genomics of sex chromosome evolution: lessons from non-model reptiles Tariq Ezaz (University of Canberra) | |
| 16:00 | Afternoon tea | |
| 16:30 | Lightning talks LocationCSIRO Discovery | |
Comparative transcriptomics of kiwi: discovering genes associated with reproductive success Kristin Ramstad | Victoria University of Wellington | ||
Detecting asymmetric evolutionary processes in aligned sequence data Lars Jermiin | CBA, CSIRO Ecosystem Sciences | ||
Deep phylogeographic structuring in a millipede from semi-arid Western Australia indicates Pleistocene vicariance Heidi Nistelberger | University of Western Australia | ||
Exon capture techniques used to detect patterns of diversity across the monsoonal tropics of Australia Sally Potter | CBA, Australian National University | ||
Phylogenetic diversity and biodiversity genomics: a match made in heaven David Nipperess | Macquarie University | ||
Estimating evolutionary timescales using ancient DNA Martyna Molak | University of Sydney | ||
Close enough is good enough: using mouse resources to study rats Terry Bertozzi | South Australian Museum | ||
BrittleStar phylogenomics Andrew Hugall | Melbourne Museum | ||
PartitionFinder: Finding good models of molecular evolution in phylogenetics Rob Lanfear | CBA, Australian National University | ||
Rapid climate change triggers vicariant diversification in a biodiversity hotspot: implications from the phylogeography of ancient pseudoscorpions in southwestern Australia Danilo Harms | University of Western Australia | ||
Calibrating the molecular clock Sebastian Duchene | University of Sydney | ||
Plant adaptations to climate at macro- and micro-evolutionary scales: what are they and how are they linked species distributions? Adam Carroll | CBA, Australian National University | ||
Screening for adaptive genes in natural populations of the human malaria parasite Plasmodium falciparum using whole-transcriptome analyses Margaret Mackinnon | KEMRI-Wellcome Trust Research Programme | ||
DArTseq genome profiling and its IT support Andrzej Kilian | Diversity Arrays Technology Pty Ltd | ||
Repeat landscape of a dragon sex chromosome humika Azad | University of Canberra | ||
Museum ‘omics – in the 21st Century and beyond Rebecca Johnson | Australian Museum | ||
Poster presentations: Session 1 (including finger food and drinks) LocationCSIRO Discovery Each session of lightning talks will be followed by a poster session where questions / comments may be addressed to the presenter. | ||
Comparative transcriptomics of kiwi: discovering genes associated with reproductive success Kristin Ramstad | Victoria University of Wellington | ||
Detecting asymmetric evolutionary processes in aligned sequence data Lars Jermiin | CBA, CSIRO Ecosystem Sciences | ||
Deep phylogeographic structuring in a millipede from semi-arid Western Australia indicates Pleistocene vicariance Heidi Nistelberger | University of Western Australia | ||
Exon capture techniques used to detect patterns of diversity across the monsoonal tropics of Australia Sally Potter | CBA, Australian National University | ||
Phylogenetic diversity and biodiversity genomics: a match made in heaven David Nipperess | Macquarie University | ||
Estimating evolutionary timescales using ancient DNA Martyna Molak | University of Sydney | ||
Close enough is good enough: using mouse resources to study rats Terry Bertozzi | South Australian Museum | ||
BrittleStar phylogenomics Andrew Hugall | Melbourne Museum | ||
PartitionFinder: Finding good models of molecular evolution in phylogenetics Rob Lanfear | CBA, Australian National University | ||
Rapid climate change triggers vicariant diversification in a biodiversity hotspot: implications from the phylogeography of ancient pseudoscorpions in southwestern Australia Danilo Harms | University of Western Australia | ||
Calibrating the molecular clock Sebastian Duchene | University of Sydney | ||
Plant adaptations to climate at macro- and micro-evolutionary scales: what are they and how are they linked species distributions? Adam Carroll | CBA, Australian National University | ||
creening for adaptive genes in natural populations of the human malaria parasite Plasmodium falciparum using whole-transcriptome analyses Margaret Mackinnon | KEMRI-Wellcome Trust Research Programme | ||
DArTseq genome profiling and its IT support Andrzej Kilian | Diversity Arrays Technology Pty Ltd | ||
Repeat landscape of a dragon sex chromosome Bhumika Azad | University of Canberra | ||
Museum ‘omics – in the 21st Century and beyond Rebecca Johnson | Australian Museum | ||
Using ‘next generation’ sequencing to resolve deep phylogenetic relationships in the land molluscs (Panpulmonata) Luisa Teasdale | Museum Victoria |
| Time | Session | |
|---|---|---|
Ecosystems and metagenomics LocationCSIRO Discovery | ||
| 09:00 | Adventures in next generation sequencing: seal scats and stickleback SNPs Bruce Deagle | Australian Antarctic Division | |
| 09:30 | Microbial dynamics in a thawing world: using meta-omic approaches to link microbial communities to increased methane flux in degrading permafrost Gene Tyson | University of Queensland | |
| 10:00 | Eucalypts: genes to ecosystems Carsten Kulheim | CBA, Australian National University | |
| 11:00 | Conservation and policy Chair: Andy Sheppard, Margaret Byrne | Genomics for conservation: integrating policy and practice LocationCSIRO Discovery | |
| 12:00 | Lightning talks: Session 2 Chair: David Yeates LocationCSIRO Discovery | |
Species from faeces: metabarcoding to detect vertebrate prey from predator scats Anna Macdonald | University of Canberra | ||
A genomic technique for measuring inbreeding in wild populations of highly inbred, bottlenecked species Helen Taylor | Victoria University of Wellington | ||
Analysis of ant biodiversity using DNA barcoding and next generation sequencing David Gopurenko | EH Graham Centre for Agricultural Innovation | ||
Diversity and distribution of soil meiofauna from East Antarctica Alejandro Velasco | University of Adelaide | ||
Estimating species presence with confidence: a conceptual framework for eDNA detection Elise Furlan | University of Canberra | ||
Anthropogenic modification in estuaries changes sediment microbial community structure and function Melanie Sun | University of New South Wales | ||
Metagenomic analysis of invertebrate biodiversity in Kimberley rainforests Russell Dinnage | CSIRO Ecosystem Sciences | ||
Distribution and evolution of Antarctic soil organisms explored using high-throughput sequencing Paul Czechowski | University of Adelaide | ||
Gene soup: marine food-webs revealed through next-generation DNA sequencing Oliver Berry | CSIRO Marine and Atmospheric Research | ||
A conservation perspective to species boundaries in Grevillea subgroup floribunda: exploring reproduction, population genetics and evolutionary trajectories Juli Atkinson | La Trobe University | ||
Evaluating the impacts of local adaptation on responses to climate change in a wide spread eucalypt using NGS Shannon Dillon | CBA, CSIRO Plant Industry | ||
Exploring plant genomic biodiversity in South Australia Hugh Cross | State Herbarium of South Australia | ||
Plasticity, adaptation and persistence on the landscape: where and when phenotypic plasticity enables populations to respond to environment in Pelargonium Caroline Chong CBA, Australian National University | ||
Genomic and toxic diversity in Bacillus thuringiensis Craig Anderson | CSIRO Ecosystem Sciences | ||
| 13:30 | Poster presentations: Session 2 (including lunch and coffee) LocationCSIRO Discovery Each session of lightning talks will be followed by a poster session where questions / comments may be addressed to the presenter. | |
Species from faeces: metabarcoding to detect vertebrate prey from predator scats Anna Macdonald | University of Canberra | ||
A genomic technique for measuring inbreeding in wild populations of highly inbred, bottlenecked species Helen Taylor | Victoria University of Wellington | ||
Analysis of ant biodiversity using DNA barcoding and next generation sequencing David Gopurenko | EH Graham Centre for Agricultural Innovation | ||
Diversity and distribution of soil meiofauna from East Antarctica Alejandro Velasco | University of Adelaide | ||
Estimating species presence with confidence: a conceptual framework for eDNA detection Elise Furlan | University of Canberra | ||
Anthropogenic modification in estuaries changes sediment microbial community structure and function Melanie Sun | University of New South Wales | ||
Metagenomic analysis of invertebrate biodiversity in Kimberley rainforests Russell Dinnage | CSIRO Ecosystem Sciences | ||
Distribution and evolution of Antarctic soil organisms explored using high-throughput sequencing Paul Czechowski | University of Adelaide | ||
Gene soup: marine food-webs revealed through next-generation DNA sequencing Oliver Berry | CSIRO Marine and Atmospheric Research | ||
A conservation perspective to species boundaries in Grevillea subgroup floribunda: exploring reproduction, population genetics and evolutionary trajectories Juli Atkinson | La Trobe University | ||
Evaluating the impacts of local adaptation on responses to climate change in a wide spread eucalypt using NGS Shannon Dillon | CBA, CSIRO Plant Industry | ||
Exploring plant genomic biodiversity in South Australia Hugh Cross | State Herbarium of South Australia | ||
Plasticity, adaptation and persistence on the landscape: where and when phenotypic plasticity enables populations to respond to environment in Pelargonium Caroline Chong CBA, Australian National University | ||
Genomic and toxic diversity in Bacillus thuringiensis Craig Anderson | CSIRO Ecosystem Sciences | ||
Conservation and policy (cont.) LocationCSIRO Discovery | ||
| 15:00 | The impact of genome sequence technologies towards understanding Tasmanian devil facial tumour disease Janine Deakin | CBA, Australian National University | |
| 15:30 | Climate change and biodiversity genomics Ary Hoffmann | University of Melbourne | |
| 16:00 | Restoration in the age of genomics Linda Broadhurst | CBA, CSIRO Plant Industry | |
| 16:30 | Conservation planning and management - current challenges Peter Cochrane | Parks Australia | |
| 19:00 | Conference Dinner Thursday 4 April 7pm University House (ANU) | |
Workshop 2: Preparing samples for sequencing and cost-effective library prep LocationSciences Teaching Building, ANU Coordinator Matt Morgan Venue Sciences Teaching Building Seminar Room 1 (ANU) Target audience Ecologists and evolutionary biologists with interest / experience in applying genomics, and who want to learn more about current approaches to effective and efficient sample preparation. Outline Sample preparation is often more expensive than sequencing (on a per sample basis) in biodiversity genomics projects. This workshop will provide an overview of different approaches to sample preparation for non-model organisms, or environmental (meta-genomic) samples. This will include discussion of approaches to indexing and barcoding for multiplexing of samples, and preparation of non-standard tissues (eg. skinomics). | ||
Workshop 3: Contribution of biodiversity genomics to policy and management LocationSciences Teaching Building, ANU Coordinators Venue Sciences Teaching Building Seminar Room 2 (ANU) Target audience Target audience Policy makers and researchers interested in discussing how genomics might inform decisions about policy, management and conservation. Outline This half-day workshop will be made up of two panel discussions on:
|
| Time | Session | |
|---|---|---|
Workshop 4: Population genomics and speciation genomics Jason Bragg LocationSciences Teaching Building, ANU Coordinator Jason Bragg Venue Sciences Teaching Building Seminar Room 1 (ANU) Target audience Researchers about to embark on research in population genomics, or who are currently undertaking population genomics research Outline Presentations on population genomics research design and analysis, followed by a Q&A session. Foci will include sampling design for population genomics, bioinformatics, and inferential methods. | ||
Workshop 5: Phylogenomic inference Rob Lanfear Coordinator Rob Lanfear Sciences Teaching Building Seminar Room 2 (ANU) Target audience Researchers that are interested in using large numbers of loci to understand phylogenetic relationships among taxa, or who reconstruct phylogenetic relationships among organisms in metagenomic samples. Outline Presentations on workflows for estimating phylogenies from NGS data, followed by Q&A session. Sequencing methods, bioinformatics and phylogenetic inference for different study designs (eg. environmental metagenomes, anchor regions, transcriptomes). |
Conference registration
Registration includes talks, morning and afternoon teas and lunches and refreshments for welcome and poster sessions over 2-4 April and the conference dinner on the evening of 4 April.
- Full registration $150
- Student (full-time) $50
Limit 150 registrations. See Program for conference details.
Registration dates
31 Jan - 15 Mar 2013
Workshop registration
Morning tea / afternoon tea and lunch is not included for workshops however food and drink can be purchased at various nearby eateries on the ANU campus.
- Full registration $40 per workshop
- Student (full-time) $20 per workshop
Workshop 1 is limited to 35 registrations and Workshops 2, 3, 4 and 5 are limited to 50 registrations each. See Program for workshop details.
Various locations ANU and CSIRO | Canberra
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