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- ----Genome-wide views of genetic variants (SNPs) between chickpea accessions
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- ----Genome-wide views of genetic variants (SNPs) between soybean accessions
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- Medicago truncatula
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- ----Genome-wide views of genetic variants (SNPs) between bean accessions
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Tools | Outreach | Legume Resources | Past Meetings | Recipes | Germplasm | BACs | About LIS
Some plant genome and gene family tools
- LegumeFederation - A jumping-off point for many legume database projects. Also see Legume Resources below.
- Phytozome - plant genomes and gene families
- Plaza - a resource for plant comparative genomics
- SyMAP - synteny browser for plant genomes, including Medicago and soybean
- PGDD - plant genome duplication database
- The Arabidopsis Information Portal ("AraPort") - Arabidopsis genomic resources, including tools such as ThaleMine, JBrowse etc.
- The Arabidopsis Information Resource ("TAIR") - Focusing on curated information about Arabidopsis gene function
- PhylomeDB - A database of phylogenetic trees and alignments for plants and other taxa
LIS outreach activities and materials
Also see the News Archive, with a record of monthly updates
Newsletters | Presentations
Legume Information System Newsletter
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Posters/Presentations
2016
- July 9-13, 2016 ASPB (American Society of Plant Biologist)
- Presentation: Some bioinformatics tools for plant biology research in the legumes
- August 7-10, 2016 16th Biennial Conference of the Molecular and Cellular Biology of the Soybean (SOY2016)
- Presentation: Drivers of Genome Size Change, and Other Insights from Multi-species Legume Genome Comparisons
- January 9-13, 2016: Plant and Animal Genome (PAG) Conference, San Diego, CA.
- Presentation: The Legume Information System and The Legume Federation: Working Together for the Legume-Fed World (Abstract)
- Presentation: What’s New in the Legume Information System and the Federated Legume Database Initiative (Abstract)
- Poster: The Federated Plant Database Initiative for the Legumes (Abstarct)
- Poster: Protocols for Representation of Protein Domain Annotations in Clade-Oriented Databases: a Case Study at the Legume Information System using Chado/Tripal (Abstract)
- Poster: Legume Information System: A clade based web resource (Abstract)
2015
- January 9-14, 2015: Plant and Animal Genome (PAG) Conference, San Diego, CA.
- Abstract: Methods for collecting, integrating and displaying complex genetic data, using the Legume Information System and PeanutBase
- Presentation: QTL Data Standards at PeanutBase and LegumeInfo
- Presentation: Tripal in the Legume Genomics Community
- July 28-29, 2015: Plant Biology 2015 Minneapolis, MN
- Presentation: The Federated Plant Database Initiative for the Legumes
- Nov 1-4, 2015: Bean Improvement Conference (BIC), Niagara Falls, Ontario
- Presentation: Online Resources and Tools for Legume Crop Improvement
- Poster: New features for bean research at the Legume Information System
- Nov 5-6, 2015: North American Pulse Improvement Association (NAPIA 2015) (BIC), Niagara Falls, Ontario, Canada
- Presentation: Online Resources and Tools for Legume Crop Improvement
- Poster: An Integrated Genomic and Genetic Data Portal for the Legume Family
Legume resources
- Bean Improvement Cooperative -- Voluntary and informal organization to effect the exchange of information and materials for the improvement of bean production worldwide.
- Center for Legumes in Mediterranean Agriculture -- Publications and newsletters from this center at the UWA
- Cool Season Food Legume Database -- Database for pea, lentil, and chickpea
- Legume Information System (LIS) "classic" -- Precursor to this site. Will remain active for some time, as features are added to the present site.
- Wikipedia: Legume -- Descriptive information about the family
- National Soybean Research Laboratory -- information on production, nutrition, and other soybean news
- Legume Federation --A consortium of scientists working to support robust agriculture for a substantially legume-fed world.
- LegumeIP -- Legume Integrative Platform (synteny and gene family tools)
- Legoo.org -- A bioinformatics gateway towards integrative legume biology
- KnowPulse -- Pulse crop breeding and genetics, from University of Saskatchewan
- Lupin Genome Portal --International collaborative project to sequence the genome of narrow-leafed lupin
- Interactive Legume Database of Nodulation -- Database of legumes and their nodulation status
- Tropical Forages -- Database of tropical forages, with extensive list of legume forage crops and information
- Tropical Legumes II -- Generation Challenge Program; focus on resource-poor farmers in Africa and South Asia
- Medicago sativa gene index 1.2 -- Web-accessible gene expression atlas between Medicago sativa subspecies.
- Medicago Hapmap -- Medicago haplotype data and resources
- Medicago at JCVI -- Medicago genome browser and data
- Medicago truncatula gene nomenclature -- Gene symbols registry
- Medicago truncatula Handbook -- Resources, protocols, etc.
- MtGEA -- Medicago truncatula Gene Expression Atlas
- Medicago EST Navigation System (MENS)
- RevGenUK -- Reverse genetics (TILLING) resources for Medicago and Lotus; from the John Innes Centre
- PeaMUST --Pea Multi-Stress adaptation and biological regulations for yield improvement and stability
- PhaseolusGenes -- Phaseolus genetic data
- SoyBase -- Soybean genetic and genomic data: genome browser, maps, trait and QTL data, pathways, ...
- Gramene Plant Reactome -- database of plant metabolic and regulatory pathways
Past Meetings
2016
2015
- Dec 6-10, 2015: 23rd North American Conference on Symbiotic Nitrogen Fixation Ixtapa, Mexico
- Nov 5-6, 2015: North American Pulse Improvement Association (NAPIA 2015) (BIC), Niagara Falls, Ontario, Canada
- Nov 1-4, 2015: Bean Improvement Conference (BIC), Niagara Falls, Ontario
- Sept 7-10, 2015: Research in plant genetics: From Mendel's peas to the present Brno, Czech Republic
- July 28-29, 2015: Plant Biology 2015 Minneapolis, MN
- June 21-26, 2015: XIV Lupin Conference Milan, Italy
- Feb 18-20, 2015: 5th International Conference on Next Generation Genomics and Integrated Breeding (NGGIBCI-2015) for Crop Improvement - ICRISAT Campus, Greater Hyderabad, India.
- January 9-14, 2015: Plant and Animal Genome (PAG) Conference, San Diego, CA.
Recipes, nutrition; and information for growers
- Legume Chef - Extensive collection of recipes. Also resources from the U.S. Dry Bean Council and the USA Dry Pea & Lentil Council.
- U.S. Dry Bean Council - Recipes, varieties, industry resources, nutrition
- Saskatchewan Pulse Growers - Information for consumers and producers, on pulses grown in Canada (chickpeas, lentils, peas, beans)
- U.S. Dry Bean Council - Recipes, varieties, industry resources, nutrition
Germplasm
- NPGS/GRIN - National Plant Germplasm System / Germplasm Resources Information Network
Bacterial Artificial Chromosome Libraries
- Clones from BAC libraries from NSF "Comparative Genomics of Legume Disease Resistance Gene" project:
- Libraries for pigeonpea, chickpea, cowpea, peanut, redbud. See linked document for library descriptions and information about making clone requests.
About the Legume Information System (LIS)
- The mission of LIS is to enable productive applied and basic research in the legumes by relating data from multiple crop and model species, and by helping researchers traverse among various data types.
- Note: The "classic" site at http://comparative-legumes.org is in the process of transitioning to the implementation at this site (http://legumeinfo.org), based on GMOD components that are used by a number of other legume plant sites. Please use the contact form if you have questions or suggestions about the functionality at either site. The Legume Information System, a component of the Model Plant Initiative (MPI), is developed by the National Center for Genome Resources in cooperation with the USDA Agricultural Research Service under a Specific Cooperative Agreement.
- The LIS team
- National Center for Genome Resources, Santa Fe NM (Site architecture and design, sequence search tool and data integration, genetic maps, species content):
- Current team: Andrew Farmer, Pooja Umale, Alan Cleary, Alex Rice, Sudhansu Dash
- Alumni: Hrishikesh Lokhande, John Crow, Ken Seal, Arvind Bharti, Selene Virk, Michael Gonzales, Kamal Gajendran, Eric Archuleta, Mark Waugh, Illiana Toneva
- USDA - Agricultural Research Service, Ames IA (Genome browsers, soybean data and tools (at SoyBase), gene family pages, synteny tools, species content):
- Current team: Steven Cannon, Nathan Weeks, Scott Kalberer
- SoyBase: David Grant, Rex Nelson, Kevin Feeley
- Alumni: Benjamin Mulaosmanovic, Robert Baker, Randy Shoemaker, Jugpreet Singh
- Iowa State University, Ames, IA (Genome browsers,gene family pages, synteny tools, species content):
- Current team: Wei Huang, Ethalinda Cannon, Jacqueline D. Campbell, Andrew Wilkey, Prateek Gupta, Shivan Gunda
- Alumni: Deepak Bitragunta, Vijay Karingula