Pearl millet [Pennisetum glaucum(L.) R. Br.] consensus linkage map constructed using four RIL mapping populations and newly developed EST-SSRs

BMC Genomics

Research Article

Mangamoori Lakshmi Narasu¹  Rakesh K Srivastava²  Vincent Vadez²  Trushar M Shah²  Amindala Bhanuprakash²  Basava Ramana Kumari²  Rajeev K Varshney²  Vengaldas Rajaram³  Sushil Kumar⁴  Ambawat Supriya⁵  Senapathy Senthilvel⁶  Oscar Riera-Lizarazu⁷  Thirunavukkarasu Nepolean⁸  Charles Thomas Hash⁹ 

[1] Centre for Biotechnology, IST, JNTUH, 500 085, Kukatpally, Hyderabad, Andhra Pradesh, India;International Crops Research Institute for the Semi-Arid Tropics (ICRISAT), 502 324, Patancheru, Hyderabad, Andhra Pradesh, India;International Crops Research Institute for the Semi-Arid Tropics (ICRISAT), 502 324, Patancheru, Hyderabad, Andhra Pradesh, India;Centre for Biotechnology, IST, JNTUH, 500 085, Kukatpally, Hyderabad, Andhra Pradesh, India;International Crops Research Institute for the Semi-Arid Tropics (ICRISAT), 502 324, Patancheru, Hyderabad, Andhra Pradesh, India;Centre of Excellence in Biotechnology, Anand Agricultural University, 388 110, Anand, Gujarat, India;International Crops Research Institute for the Semi-Arid Tropics (ICRISAT), 502 324, Patancheru, Hyderabad, Andhra Pradesh, India;Department of Biotechnology, College of Basic Sciences and Humanities, Chaudhary Charan Singh Haryana Agricultural University, 125 004, Hisar, Haryana, India;International Crops Research Institute for the Semi-Arid Tropics (ICRISAT), 502 324, Patancheru, Hyderabad, Andhra Pradesh, India;Department of Crop Improvement, Directorate of Oilseeds Research, 500 030, Hyderabad, India;International Crops Research Institute for the Semi-Arid Tropics (ICRISAT), 502 324, Patancheru, Hyderabad, Andhra Pradesh, India;Department of Crop and Soil Sciences, Oregon State University, 97331, Corvallis, Oregon, USA;International Crops Research Institute for the Semi-Arid Tropics (ICRISAT), 502 324, Patancheru, Hyderabad, Andhra Pradesh, India;Division of Genetics, Indian Agricultural Research Institute, 110 012, New Delhi, India;International Crops Research Institute for the Semi-Arid Tropics (ICRISAT), 502 324, Patancheru, Hyderabad, Andhra Pradesh, India;International Crops Research Institute for the Semi-Arid Tropics (ICRISAT), ICRISAT Sahelian Center, BP 12404, Niamey, Niger;

关键词: EST-SSR markers;    EST;    Linkage map;    Consensus map;    Drought stress;    Pearl millet;    Synteny;   

DOI  :  10.1186/1471-2164-14-159

 received in 2012-08-26, accepted in 2013-02-19,  发布年份 2013

来源: Springer

【 摘 要 】

BackgroundPearl millet [Pennisetum glaucum (L.) R. Br.] is a widely cultivated drought- and high-temperature tolerant C4 cereal grown under dryland, rainfed and irrigated conditions in drought-prone regions of the tropics and sub-tropics of Africa, South Asia and the Americas. It is considered an orphan crop with relatively few genomic and genetic resources. This study was undertaken to increase the EST-based microsatellite marker and genetic resources for this crop to facilitate marker-assisted breeding.ResultsNewly developed EST-SSR markers (99), along with previously mapped EST-SSR (17), genomic SSR (53) and STS (2) markers, were used to construct linkage maps of four F7 recombinant inbred populations (RIP) based on crosses ICMB 841-P3 × 863B-P2 (RIP A), H 77/833-2 × PRLT 2/89-33 (RIP B), 81B-P6 × ICMP 451-P8 (RIP C) and PT 732B-P2 × P1449-2-P1 (RIP D). Mapped loci numbers were greatest for RIP A (104), followed by RIP B (78), RIP C (64) and RIP D (59). Total map lengths (Haldane) were 615 cM, 690 cM, 428 cM and 276 cM, respectively. A total of 176 loci detected by 171 primer pairs were mapped among the four crosses. A consensus map of 174 loci (899 cM) detected by 169 primer pairs was constructed using MergeMap to integrate the individual linkage maps. Locus order in the consensus map was well conserved for nearly all linkage groups. Eighty-nine EST-SSR marker loci from this consensus map had significant BLAST hits (top hits with e-value ≤ 1E-10) on the genome sequences of rice, foxtail millet, sorghum, maize and Brachypodium with 35, 88, 58, 48 and 38 loci, respectively.ConclusionThe consensus map developed in the present study contains the largest set of mapped SSRs reported to date for pearl millet, and represents a major consolidation of existing pearl millet genetic mapping information. This study increased numbers of mapped pearl millet SSR markers by >50%, filling important gaps in previously published SSR-based linkage maps for this species and will greatly facilitate SSR-based QTL mapping and applied marker-assisted selection programs.

【 授权许可】

Unknown   
© Rajaram et al.; licensee BioMed Central Ltd. 2013. This article is published under license to BioMed Central Ltd. This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/2.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.