Legume Information System

LIS contains agronomically useful information in legume species, including genome sequences, genetic maps, genes, gene families, and mapped traits. The "legumeinfo" site makes use of several open-source projects (Intermine, Tripal, Chado, GBrowse, JBrowse, and many others), facilitating more efficient collaboration with other research groups using and developing these tools.

Publications

  • S. Redsun, S. Hokin, C. Cameron, A. Cleary, J. Berendzen, S. Dash, A. Brown, A. Wilkey, J. Campbell, W. Huang, S. Kalberer, N. Weeks, S. Cannon and A. Farmer.
    Doing Genetic and Genomic Biology Using the Legume Information System and Associated Resources
    Methods Mol Biol, 2443, 81--100, 2022, PMID 35037201
    Legume Information System 
  • D. Bertioli, J. Clevenger, I. Godoy, H. Stalker, S. Wood, J. Santos, C. Ballén-Taborda, B. Abernathy, V. Azevedo, J. Campbell, C. Chavarro, Y. Chu, A. Farmer, D. Fonceka, D. Gao, J. Grimwood, N. Halpin, W. Korani, M. Michelotto, P. Ozias-Akins, J. Vaughn, R. Youngblood, M. Moretzsohn, G. Wright, S. Jackson, S. Cannon, B. Scheffler and S. Leal-Bertioli.
    Legacy genetics of Arachis cardenasii in the peanut crop shows the profound benefits of international seed exchange
    Proc Natl Acad Sci U S A, 118(38), 2021, PMID 34518223
    Legume Information System  Legume Federation  PeanutBase 
  • J. Quilbé, L. Lamy, L. Brottier, P. Leleux, J. Fardoux, R. Rivallan, T. Benichou, R. Guyonnet, M. Becana, I. Villar, O. Garsmeur, B. Hufnagel, A. Delteil, D. Gully, C. Chaintreuil, M. Pervent, F. Cartieaux, M. Bourge, N. Valentin, G. Martin, L. Fontaine, G. Droc, A. Dereeper, A. Farmer, C. Libourel, N. Nouwen, F. Gressent, P. Mournet, A. D'Hont, E. Giraud, C. Klopp and J. Arrighi.
    Genetics of nodulation in Aeschynomene evenia uncovers mechanisms of the rhizobium-legume symbiosis
    Nat Commun, 12(1), 829, 2021, PMID 33547303
    Legume Information System  Legume Federation 
  • G. Bauchet, K. Bett, C. Cameron, J. Campbell, E. Cannon, S. Cannon, J. Carlson, A. Chan, A. Cleary, T. Close, D. Cook, A. Cooksey, C. Coyne, S. Dash, R. Dickstein, A. Farmer, D. Fernández-Baca, S. Hokin, E. Jones, Y. Kang, M. Monteros, M. Muñoz-Amatriaín, K. Mysore, C. Pislariu, C. Richards, A. Shi, C. Town, M. Udvardi, E. Wettberg, N. Young and P. Zhao.
    The future of legume genetic data resources: Challenges, opportunities, and priorities
    Legume Science, n/a(n/a), e16, 2019, DOI 10.1002/leg3.16
    Legume Information System  Legume Federation  PeanutBase  Medicago HapMap Project 
  • S. Lo, M. Munoz-Amatriain, S. Hokin, N. Cisse, P. Roberts, A. Farmer, S. Xu and T. Close.
    A genome-wide association and meta-analysis reveal regions associated with seed size in cowpea [Vigna unguiculata (L.) Walp]
    Theor. Appl. Genet., 2019
    Legume Information System  Legume Federation 
  • D. Bertioli, J. Jenkins, J. Clevenger, O. Dudchenko, D. Gao, G. Seijo, S. Leal-Bertioli, L. Ren, A. Farmer, M. Pandey, S. Samoluk, B. Abernathy, G. Agarwal, C. Ballén-Taborda, C. Cameron, J. Campbell, C. Chavarro, A. Chitikineni, Y. Chu, S. Dash, M. Baidouri, B. Guo, W. Huang, K. Kim, W. Korani, S. Lanciano, C. Lui, M. Mirouze, M. Moretzsohn, M. Pham, J. Shin, K. Shirasawa, S. Sinharoy, A. Sreedasyam, N. Weeks, X. Zhang, Z. Zheng, Z. Sun, L. Froenicke, E. Aiden, R. Michelmore, R. Varshney, C. Holbrook, E. Cannon, B. Scheffler, J. Grimwood, P. Ozias-Akins, S. Cannon, S. Jackson and J. Schmutz.
    The genome sequence of segmental allotetraploid peanut Arachis hypogaea
    Nature Genetics, 51(5), 877--884, 2019, DOI 10.1038/s41588-019-0405-z
    Legume Information System  Legume Federation  PeanutBase 
  • S. Lonardi, M. Muñoz-Amatriaín, Q. Liang, S. Shu, S. Wanamaker, S. Lo, J. Tanskanen, A. Schulman, T. Zhu, M. Luo, H. Alhakami, R. Ounit, A. Hasan, J. Verdier, P. Roberts, J. Santos, A. Ndeve, J. Doležel, J. Vrána, S. Hokin, A. Farmer, S. Cannon and T. Close.
    The genome of cowpea (Vigna unguiculata [L.] Walp.)
    The Plant Journal, 98(5), 767--782, 2019, DOI 10.1111/tpj.14349
    Legume Information System  Legume Federation 
  • A. Cleary and A. Farmer.
    Genome Context Viewer: visual exploration of multiple annotated genomes using microsynteny
    Bioinformatics, 34(9), 1562--1564, 2017, DOI 10.1093/bioinformatics/btx757
    Legume Information System  Legume Federation 
  • J. Singh, S. Kalberer, V. Belamkar, T. Assefa, M. Nelson, A. Farmer, W. Blackmon and S. Cannon.
    A transcriptome-SNP-derived linkage map of Apios americana (potato bean) provides insights about genome re-organization and synteny conservation in the phaseoloid legumes
    Theoretical and Applied Genetics, 131(2), 333--351, 2017, DOI 10.1007/s00122-017-3004-3
    Legume Information System 
  • M. Munoz-Amatriain, H. Mirebrahim, P. Xu, S. Wanamaker, M. Luo, H. Alhakami, M. Alpert, I. Atokple, B. Batieno, O. Boukar, S. Bozdag, N. Cisse, I. Drabo, J. Ehlers, A. Farmer, C. Fatokun, Y. Gu, Y. Guo, B. Huynh, S. Jackson, F. Kusi, C. Lawley, M. Lucas, Y. Ma, M. Timko, J. Wu, F. You, N. Barkley, P. Roberts, S. Lonardi and T. Close.
    Genome resources for climate-resilient cowpea, an essential crop for food security
    Plant J., 89(5), 1042--1054, 2017
    Legume Information System  Legume Federation 
  • R. Penmetsa, N. Carrasquilla-Garcia, E. Bergmann, L. Vance, B. Castro, M. Kassa, B. Sarma, S. Datta, A. Farmer, J. Baek, C. Coyne, R. Varshney, E. Wettberg and D. Cook.
    Multiple post-domestication origins of kabuli chickpea through allelic variation in a diversification-associated transcription factor
    New Phytologist, 211(4), 1440--1451, 2016, DOI 10.1111/nph.14010
    Legume Information System  Legume Federation 
  • D. Bertioli, S. Cannon, L. Froenicke, G. Huang, A. Farmer, E. Cannon, X. Liu, D. Gao, J. Clevenger, S. Dash, L. Ren, M. Moretzsohn, K. Shirasawa, W. Huang, B. Vidigal, B. Abernathy, Y. Chu, C. Niederhuth, P. Umale, A. Araújo, A. Kozik, K. Kim, M. Burow, R. Varshney, X. Wang, X. Zhang, N. Barkley, P. Guimarães, S. Isobe, B. Guo, B. Liao, H. Stalker, R. Schmitz, B. Scheffler, S. Leal-Bertioli, X. Xun, S. Jackson, R. Michelmore and P. Ozias-Akins.
    The genome sequences of Arachis duranensis and Arachis ipaensis, the diploid ancestors of cultivated peanut
    Nature Genetics, 48(4), 438--446, 2016, DOI 10.1038/ng.3517
    Legume Information System  Legume Federation  PeanutBase 
  • M. Gonzales, E. Archuleta, A. Farmer, K. Gajendran, D. Grant, R. Shoemaker, W. Beavis and M. Waugh.
    The Legume Information System (LIS): an integrated information resource for comparative legume biology
    Nucleic Acids Res., 33(Database issue), D660--665, 2005
    Legume Information System 

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