Legume Information System

The Legume Information System (LIS) is legume sciences portal specifically for legume breeders and
researchers, established and supported by the Agricultural Research Service of the United States
Department of Agriculture. The mission of the Legume Information System is "to facilitate discoveries and
crop improvement in the legumes," in particular to improve crop yields, their nutritional value, and our
understanding of basic legume science.

Development of the Legume Information System is a joint venture between the National Center for
Genome Resources (NCGR) and the USDA-ARS at Iowa State University. In 2014, development effort
on LIS shifted from the comparative-legumes.org domain to legumeinfo.org (http://legumeinfo.org/). The
comparative-legumes site was developed using the Ruby on Rails framework, and the LegumeInfo site is
developed using the Tripal (http://tripal.info/) content management system.

The reference species as a backbone for orphan species research

A fundamental approach taken in LIS is facilitate research in the orphan species by taking advantage of
more extensive knowledge developed for the reference species. Use of synteny and local similarity, for
instance, provides a basis for trait inference.

Reference species

Note that LIS makes use of the UniProt organism mnemonics (https://www.uniprot.org/docs/speclist) for
identifying species whenever possible.

The current legume reference species (also referred to as model organisms) are the following:

Glycine max (soybean), GLYMA (http://legumeinfo.org/organism/Glycine/max)

Lotus japonicus (lotus), LOTJA (http://legumeinfo.org/organism/Lotus/japonicus)
Medicago truncatula (barrel medic), MEDTR (http://legumeinfo.org/organism/Medicago/trunc
atula)
Phaseolus vulgaris (common bean), PHAVU (http://legumeinfo.org/organism/Phaseolus/vul
garis)

Orphan species

Orphan species represented at LIS are:

Arachis duranensis (wild peanut), ARADU (http://peanutbase.org/Arachis/duranensis)

Arachis ipaensis (wild peanut), ARAIP (http://peanutbase.org/Arachis/ipaensis)
Arachis hypogaea (peanut), ARAHY (http://legumeinfo.org/organism/Arachis/hypogaea)
Cajanus cajan (pigeon pea), CAJCA (http://legumeinfo.org/organism/Cajanus/cajan)
Chamaecrista fasciculata (partidge pea), CHAFS (http://legumeinfo.org/organism/Chamaecri
sta/fasciculata)
Cicer arietinum (chickpea), CICAR (http://legumeinfo.org/organism/Cicer/arietinum)
 Lens culinaris (lentil), LENCU (http://legumeinfo.org/organism/Lens/culinaris)
Lupinus albus (white lupin), LUPAL (http://legumeinfo.org/organism/Lupinus/albus)
Lupinus angustifolius (narrow-leafed lupin), LUPAN (http://legumeinfo.org/organism/Lupinu
s/angustifolius)
Medicago sativa (alfalfa), MEDSA (http://legumeinfo.org/organism/Medicago/sativa)
Pisum sativum (garden pea), PISSA (http://legumeinfo.org/organism/Pisum/sativum)
Trifolium pratense (red clover), TRIPR (http://legumeinfo.org/organism/Trifolium/pratense)
Trifolium repens (white clover), TRIRE (http://legumeinfo.org/organism/Trifolium/repens)
Vicia faba (faba bean), VICFA (http://legumeinfo.org/organism/Vicia/faba)
Vigna angularis (adzuki bean), VIGAN (http://legumeinfo.org/organism/Vigna/angularis)
Vigna unguiculata (cowpea), VIGUN (http://legumeinfo.org/organism/Vigna/unguiculata)

See also
Legumes
Pulses

External links
Home page (http://legumeinfo.org/home) for the Legume Information System.
Gonzales, MD; Gajendran, K; Farmer, AD; Archuleta, E; Beavis, WD (2007). "Leveraging
model legume information to find candidate genes for soybean sudden death syndrome
using the legume information system". Plant Bioinformatics. Methods in Molecular Biology.
Vol. 406. pp. 245–59. doi:10.1007/978-1-59745-535-0_11 (https://doi.org/10.1007%2F978-1-
59745-535-0_11). ISBN 978-1-58829-653-5. PMID 18287696 (https://pubmed.ncbi.nlm.nih.g
ov/18287696).
Gonzales, M. D.; Archuleta, E; Farmer, A; Gajendran, K; Grant, D; Shoemaker, R; Beavis,
WD; Waugh, ME (2004). "The Legume Information System (LIS): An integrated information
resource for comparative legume biology" (https://www.ncbi.nlm.nih.gov/pmc/articles/PMC54
0082). Nucleic Acids Research. 33 (Database issue): D660–5. doi:10.1093/nar/gki128 (http
s://doi.org/10.1093%2Fnar%2Fgki128). PMC 540082 (https://www.ncbi.nlm.nih.gov/pmc/arti
cles/PMC540082). PMID 15608283 (https://pubmed.ncbi.nlm.nih.gov/15608283).
Dash, S.; Campbell, J.D.; Cannon, E.K.S.; Cleary, A.M.; Huang, W.; Kalberer, S.R.;
Karingula, V.; Rice, A.G.; Singh, J.; Umale, P.E.; Weeks, N.T.; Wilkey, A.P.; Farmer, A.D.;
Cannon, S.B. (2016). Legume information system (LegumeInfo.org): a key component of a
set of federated data resources for the legume family (https://web.archive.org/web/20160516
055205/http://nar.oxfordjournals.org/content/44/D1/D1181) Nucleic Acids Research 44
(Database issue): D1181-D1188. doi:10.1093/nar/gkv1159 (https://web.archive.org/web/201
60516055205/http://nar.oxfordjournals.org/content/44/D1/D1181) PMC4702835 (https://web.
archive.org/web/20160516055205/http://nar.oxfordjournals.org/content/44/D1/D1181)

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