BeanGenes --- A Phaseolus/Vigna sp. Database
Phillip E. McClean
Department of Plant Sciences
North Dakota State University
Fargo, ND 58105
Plant Genome Databases
Plant genome databases have been designed for a number of important crop
species. The goal of these databases is to provide "one-stop shopping" for
information that is relevant to a species or group of species. Examples of
these databases include GrainGenes (for cereal groups), SolGenes (for
Solanaceous species), and SoyBase (for Glycine species). Information that is
contained in these databases include molecular mapping data, germplasm
information, trait studies, identified quantitative trait loci, pathogen
descriptions, relevant publication citations, images pertaining to all aspects
of the crop, and colleague addresses. These efforts are each funded by the
USDA Plant Genome project.
BeanGenes is a plant genome data base which currently contains
information relevant to Phaseolus and Vigna species. The BeanGenes project
was funded by the USDA/ARS Plant Genome project through the SoyBase project
administered by Dr. Randy Shoemaker (USDA/ARS, Ames, Iowa). The hardware
component of BeanGenes is a computer containing a Pentium P90 processor, 64
mByte RAM, 2 GByte hard drive, and 8 GByte tape backup drive. The machine is
running under the Linux operating system. Linux is a Unix-based operating
system designed to run on machines using the Intel X86 series of processors.
Internet domain name of the machine is beangenes.cws.ndsu.nodak.edu. The IP
address of the machine is 18.104.22.168.
Currently, all of the BeanGenes information is stored in the ACeDB
software application. This is the most frequently used plant genome database
application. Richard Durbin (MRC, England) and Jean Thierry-Mieg (CNRS,
France) initially developed ACeDB (an acronym for A C. elegans database) to
archive information about Caenorhabditis elegans. The database runs under
the X-Windows environment on machines
utilizing some flavor of a UNIX operating system. To access the database as
an X-window application, the user must login on the server. Alternatively, a
user can obtain a copy of the database and install it on a local X-Windows
server. Remote users will need to access the database from a computer running
a form of X-Windows. The database can be accessed from any personal computer
or MacIntosh computer which has X-Windows emulation software.
The BeanGenes database can be accessed in three manners. For those
users with X-Windows capability, a login on the BeanGenes server can be
established. If you would like to have an account on the BeanGenes machine
contact Phil McClean at email@example.com and an account
will be established.
Two other methods of accessing the database are available that do not require
X-Windows capability. The ACeDB form of BeanGenes can be searched on the
Agricultural Genome World Wide Web Server at URL
http://probe.nalusda.gov:8300/. This WWW site can be accessed by such client
software as Mosaic and Netscape. Once the site is reached, find the BeanGenes
entry and the database can be navigated using standard point-and-click
techniques. The database is also accessible using the Gopher application.
The gopher address is probe.nalusda.gov. When the database is accessed via
Gopher, the user will able to search for information using the WAIS (Wide Area
Information Search) application.