[Bioforum] USDA Nodulation Data in GRIN

Joe Kirkbride via bioforum%40net.bio.net (by joe At nt.ars-grin.gov)
Tue Feb 6 09:29:31 EST 2007


USDA Nodulation Data in GRIN

 

Joseph H. Kirkbride, Jr. and John H. Wiersema

 

After discussions with the Directorate of the International Legume
Database and Information Service (ILDIS), a single field was created in
their database for rhizobial nodulation data in 1986. Input of
nodulation data into the ILDIS database had three phases: 1) entering
the nodulation data from Allen and Allen (1981) with each datum
referenced to that work, 2) reviewing and entering literature reporting
legume nodulation published after 1979, and 3) examining and verifying
the original references cited by Allen and Allen (1981) and attaching
those references to the data in the ILDIS database. In 1986, Mrs. Ethel
K. Allen and the University of Wisconsin Press gave their permission for
the nodulation data in the Allens' book to be incorporated into the
ILDIS database, and this phase was completed in 1990. The third phase
was completed in early 2001. The second phase is complete up to the
present, and current literature is being monitored for new data. The
ILDIS Directorate gave their permission for us to use the nodulation
data in the ILDIS database.

The USDA Germplasm Resources Information Network (GRIN) contains
information on the USDA germplasm holdings. The ILDIS nodulation data
are now incorporated into GRIN, and GRIN data are available via the
World Wide Web. GRIN was selected to host the data because it could be
made available on the WWW and to facilitate it being updated by USDA
personnel. An access web page for the nodulation data is now available
on the GRIN web site:

 http://www.ars-grin.gov/~sbmljw/cgi-bin/taxnodul.pl
<http://www.ars-grin.gov/~sbmljw/cgi-bin/taxnodul.pl> 

Interested users are requested to try out the web page and send
reactions and opinions of the overall interface, ease of use, data
available, and the formatting of reported data.

The Introductory matters, including explanations of how to use the
search page for the rhizobial nodulation data are not yet available.
Hopefully they will be linked to this web page in the coming months via
a subject bar down the right-hand side of the page. The default is to
obtain all types of nodulation data (positive and negative root
nodulation and positive stem nodulation); if one type or another is not
desired, then uncheck the box(es) for that type(s). Queries can be made
based on the traditional legume classification of Polhill, genus,
species, infraspecific taxon, or by geographical unit (country or
state/province). Geographical queries will be effective only for those
taxa for which country/state distribution data exist in GRIN. Currently
about 3,500 of the 4,700 accepted taxa, represented by 6,650 nodulation
reports in GRIN, also have distribution data. The geographical queries
can be either for the actual taxa with nodulation reports of a
geographical unit or for the genera of a geographic unit with nodulation
reports anywhere in the world.

 For example if the GRIN nodulation data is queried for the genus
Anadenanthera, a web page is returned with seven taxa listed for which
nodulation reports exist. Two are accepted species, A. colubrina and A.
peregina, three are infraspecific taxa, A. colubrina var. cebil, A.
colubrina var. colubrina, and A. peregina var. falcata, and two taxa are
synonyms, A. falcata and A. macrocarpa.

If a user clicks on a taxon name, the GRIN taxonomy page for that name
will be displayed, which includes Pohill's subfamilial classification,
place of original publication, infraspecific taxa, common names,
economic uses, distribution, references, synonyms, links to other
databases, and links to images. Following the taxon name in square
brackets are symbols indicating the class(es) of nodulation report(s)
known for the taxon, R+, R-, S+, positive and negative root nodulation
reports and positive stem nodulation reports, respectively. If a user
clicks on a symbol, the complete bibliographic reference will be
displayed.

Clicking on the abbreviated journal citation, for example Pesq.
Agropecu. Brasil., will open a window with the complete journal name,
Pesquisas agropecuaria Brasiliera, Rio de Janeiro.

The first users to contact us have already sent us 54 new nodulation
reports. We hope that interested persons will access the USDA nodulation
data and send us their comments at joe At nt.ars-grin.gov before we
finalize the web presentation.

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