Open Access Research article

Generation and analysis of expressed sequence tags (ESTs) for marker development in yam (Dioscorea alata L.)

Satya S Narina1*, Ramesh Buyyarapu2, Kameswara Rao Kottapalli3, Alieu M Sartie4, Mohamed I Ali5, Asiedu Robert4, Mignouna JD Hodeba6, Brian L Sayre7 and Brian E Scheffler1*

Author Affiliations

1 USDA-ARS, Stoneville, MS, USA

2 Dow AgroSciences, Indianapolis, IN, USA

3 Texas Tech University, Department of Plant and Soil Science, Lubbock, Texas 79409, USA

4 International Institute for Tropical Agriculture (IITA), Oyo Road, PMB 5320 Ibadan, Nigeria

5 USDA-NIFA, Washington D.C., USA

6 African Agricultural Technology Foundation, Nairobi 00100, Kenya

7 Virginia State University, Petersburg, VA23806, USA

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BMC Genomics 2011, 12:100  doi:10.1186/1471-2164-12-100

Published: 9 February 2011

Additional files

Additional file 1:

Gene Ontology (GO IDs) identifiers for three libraries. Mapping and annotation steps in Blast2GO program resulted in providing GO IDs to individual ESTs in each dataset of the three libraries, TDa 95-0310, TDa 95-0328 and TDa 87-01091.

Format: XLS Size: 6.8MB Download file

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Additional file 2:

Yam sequences annotated using Mercator tool of MapMan database. Yam ESTs for three libraries with MapMan annotations were presented in sheet 1, Mapping file generated from Mercator tool with Bin Codes for each yam EST matching to specific genes on sheet 2 and unique Bin IDs identified in each library related to anthracnose were listed on sheet 3 of the file.

Format: XLS Size: 13.4MB Download file

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Additional file 3:

Differential gene expression among the three libraries. The summary of differential gene expression analysis providing the gene information that might be potentially over-expressed or under-expressed compared to other libraries. The sheet 1 of the file has expression differences between TDa 87-01091 compared with TDa 95-0310 and the sheet 2 has expression differences between TDa 95/0328 compared with TDa 95/0310 while sheet 3 has expression differences between TDa 87-01091 compared with TDa 95-0328.

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Additional file 4:

Simple Sequence Repeat (SSR) primers generated from the project. The SSR primers generated from library TDa 95-310, TDa 95-0328 and TDa 87-01091 were respectively presented on sheet 1, 2 and 3 of the file.

Format: XLS Size: 992KB Download file

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