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Journal of Heredity Advance Access originally published online on December 5, 2008
Journal of Heredity 2009 100(3):338-347; doi:10.1093/jhered/esn102
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© The American Genetic Association. 2008. All rights reserved. For permissions, please email: journals.permissions@oxfordjournals.org.

Original Articles

Genetic Diversity of Amaranthus Species from the Indo-Gangetic Plains Revealed by RAPD Analysis Leading to the Development of Ecotype-Specific SCAR Marker

Tui Ray, and Satyesh Chandra Roy

From the Department of Botany, Centre of Advanced Study, University of Calcutta, 35, Ballygunge Circular Road, Kolkata 700019, India. Tui Ray is now at Plant Biology Division, The Samuel Roberts Noble Foundation, 2510 Sam Noble Parkway, Ardmore, OK 73401

Address correspondence to Satyesh Chandra Roy at the address above, or e-mail: scroy_caluniv{at}yahoo.com.

Genetic diversity and relationships among 6 Amaranthus species from 8 phytogeographic regions of the Indo-Gangetic plains were analyzed using a random amplified polymorphic DNA (RAPD) marker. RAPD primers yielded a total of 262 amplicons, ranging from ~250 to ~3000 bp in size with an average of 13.1 amplicons per primer, of which 254 amplicons (96.94%) were polymorphic. The genetic similarity coefficient among all the Amaranthus species ranged from 0.16 to 0.97 with a mean similarity coefficient of 0.56, indicating that variation existed in the genetic diversity of different populations. In the unweighted pair group method with arithmetic average dendrogram, populations of the same species clustered together. A unique 1371-bp RAPD band specific for Amaranthus gangeticus (syn. tricolor) of a particular phytogeographic region was converted to a sequenced characterized amplified region (SCAR) marker. The translated marker sequence showed homology with hemagglutinin protein. This SCAR marker is potentially useful for germplasm conservation and identification of amaranth ecotype.

Key Words: Amaranths • ecotype • RAPD • SCAR

Corresponding Editor: Perry Gustafson

Received April 2, 2008
Revised November 2, 2008
Accepted November 10, 2008


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