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ARS Home » Southeast Area » Tifton, Georgia » Crop Genetics and Breeding Research » Research » Publications at this Location » Publication #318825

Research Project: Genetic Enhancement and Management of Warm-Season Species for Forage, Turf and Renewable Energy

Location: Crop Genetics and Breeding Research

Title: Pearl millet genome sequence provides a resource to improve agronomic traits in arid environments

Author
item SHI, CHENGCHENG - BGI SHENZHEN
item THUDI, MAHENDAR - INTERNATIONAL CROPS RESEARCH INSTITUTE FOR SEMI-ARID TROPICS (ICRISAT) - INDIA
item MARIAC, CEDRIC - INSTITUTE FOR RESEARCH AND DEVELOPMENT (IRD)
item WALLACE, JASON - CORNELL UNIVERSITY - NEW YORK
item ZHANG, HE - BGI SHENZHEN
item GHATAK, ARINDAM - D.Y. PATIL UNIVERSITY
item CHATURVEDI, PALAK - UNIVERSITY OF VIENNA
item ZHAO, YUSHENG - BGI SHENZHEN
item WANG, XIYIN - UNIVERSITY OF GEORGIA
item RATHORE, ABHISHEK - INTERNATIONAL CROPS RESEARCH INSTITUTE FOR SEMI-ARID TROPICS (ICRISAT) - INDIA
item WANG, JIANPING - UNIVERSITY OF FLORIDA
item SRIVASTAVA, RAKESH - INTERNATIONAL CROPS RESEARCH INSTITUTE FOR SEMI-ARID TROPICS (ICRISAT) - INDIA
item CHITIKINENI, ANNAPURNA - INTERNATIONAL CROPS RESEARCH INSTITUTE FOR SEMI-ARID TROPICS (ICRISAT) - INDIA
item FAN, GUANGYI - CHINESE ACADEMY OF AGRICULTURAL SCIENCES
item PUNNURI, SOMASHEKHAR - FORT VALLEY STATE UNIVERSITY
item GUPTA, S - INTERNATIONAL CROPS RESEARCH INSTITUTE FOR SEMI-ARID TROPICS (ICRISAT) - INDIA
item JIANG, YONG - BGI SHENZHEN
item COUDERC, MARIE - UNIVERSITY OF MONTPELLIER
item BAJAJ, PRASAD - INTERNATIONAL CROPS RESEARCH INSTITUTE FOR SEMI-ARID TROPICS (ICRISAT) - INDIA
item KATTA, MOHAN - INTERNATIONAL CROPS RESEARCH INSTITUTE FOR SEMI-ARID TROPICS (ICRISAT) - INDIA
item PAUDEL, DEV - UNIVERSITY OF FLORIDA
item MUNGRA, K - JUNAGADH AGRICULTURAL UNIVERSITY
item CHEN, WENBIN - BGI SHENZHEN
item Harris-Shultz, Karen
item GARG, VANIKA - NATIONAL INSTITUTE OF PLANT GENOME RESEARCH
item DESAI, NEETIN - AMITY UNIVERSITY MUMBAI
item DODDAMANI, DADAKHALANDAR - INTERNATIONAL CROPS RESEARCH INSTITUTE FOR SEMI-ARID TROPICS (ICRISAT) - INDIA
item KANE, NDJIDO - INSTITUT SENEGALAIS DE RECHERCHES AGRICOLES
item CONNER, JOANN - UNIVERSITY OF GEORGIA
item SUBRAMANIAM, SHABARINATH - AMRITA UNIVERSITY
item YADAV, OM - CENTRAL ARID ZONE RESEARCH INSTITUTE
item BERTHOULY-SALAZAR, CECILE - INSTITUT SENEGALAIS DE RECHERCHES AGRICOLES
item HAMIDU, FALALOU - INTERNATIONAL CROPS RESEARCH INSTITUTE FOR SEMI-ARID TROPICS (ICRISAT) - INDIA
item LIANG, XINMING - BGI SHENZHEN
item CLOTAULT, JEREMY - INSTITUT SENEGALAIS DE RECHERCHES AGRICOLES
item GUEYE, MAME - INSTITUT SENEGALAIS DE RECHERCHES AGRICOLES
item SUNKAR, RAMANJULU - OKLAHOMA STATE UNIVERSITY
item DUPUY, CHRISTIAN - FRENCH NATIONAL INSTITUTE FOR AGRICULTURAL RESEARCH
item SPARVOLI, FRANCESCA - CONSIGLIO NAZIONALE DELLE RICERCHE
item CHENG, SHIFENG - BGI SHENZHEN
item MAHALA, R - PIONEER HI-BRED INTERNATIONAL
item SINGH, BHARAT - FORT VALLEY STATE UNIVERSITY
item YADAV, RATTAN - ABERYSTWYTH UNIVERSITY
item LYONS, ERIC - UNIVERSITY OF ARIZONA
item DATTA, SWAPAN - INDIAN COUNCIL OF AGRICULTURAL RESEARCH (ICAR)
item HASH, C - INTERNATIONAL CROPS RESEARCH INSTITUTE FOR SEMI-ARID TROPICS (ICRISAT) - INDIA
item DEVOS, KATRIEN - UNIVERSITY OF GEORGIA
item Buckler, Edward - Ed
item BENNETZEN, JEFFREY - UNIVERSITY OF GEORGIA
item PATERSON, ANDREW - UNIVERSITY OF GEORGIA
item OZIAS-AKINS, PEGGY - UNIVERSITY OF GEORGIA
item GRANDO, STEFANIA - INTERNATIONAL CROPS RESEARCH INSTITUTE FOR SEMI-ARID TROPICS (ICRISAT) - INDIA
item WANG, JUN - UNIVERSITY OF CENTRAL FLORIDA
item REIF, JOCHEN - LEIBNIZ INSTITUTE OF PLANT GENETICS AND CROP PLANT RESEARCH
item WECKWERTH, WOLFRAM - UNIVERSITY OF VIENNA
item LIU, XIN - BGI SHENZHEN
item VIGOUROUX, YVES - INSTITUTE FOR RESEARCH AND DEVELOPMENT (IRD)
item XU, XUN - BGI SHENZHEN

Submitted to: Nature Biotechnology
Publication Type: Peer Reviewed Journal
Publication Acceptance Date: 6/16/2017
Publication Date: 9/18/2017
Citation: Shi, C., Thudi, M., Mariac, C., Wallace, J., Zhang, H., Ghatak, A., Chaturvedi, P., Zhao, Y., Wang, X., Rathore, A., Wang, J., Srivastava, R., Chitikineni, A., Fan, G., Punnuri, S., Gupta, S., Jiang, Y., Couderc, M., Bajaj, P., Katta, M., Paudel, D., Mungra, K., Chen, W., Harris-Shultz, K.R., Garg, V., Desai, N., Doddamani, D., Kane, N., Conner, J., Subramaniam, S., Yadav, O., Berthouly-Salazar, C., Hamidu, F., Liang, X., Clotault, J., Gueye, M., Sunkar, R., Dupuy, C., Sparvoli, F., Cheng, S., Mahala, R., Singh, B., Yadav, R., Lyons, E., Datta, S., Hash, C., Devos, K., Buckler Iv, E.S., Bennetzen, J., Paterson, A., Ozias-Akins, P., Grando, S., Wang, J., Reif, J., Weckwerth, W., Liu, X., Vigouroux, Y., Xu, X. 2017. Pearl millet genome sequence provides a resource to improve agronomic traits in arid environments. Nature Biotechnology. 35:969-976. https://doi.org/10.1038/nbt.3943.
DOI: https://doi.org/10.1038/nbt.3943

Interpretive Summary: Pearl millet is a warm-season annual grass used in the US for forage and birdseed and as a staple crop for people living in the dryland areas of Africa and South Asia. Despite pearl millet’s tolerances to drought and poor soils, few genes have been identified that underlie the traits of interest. To accomplish this goal, the genome of pearl millet was sequenced. Additionally, re-sequencing of 994 inbreds and wild accessions identified marker-trait associations and predictions of hybrid performance. These resources are important tools for accelerating genetic gains in pearl millet.

Technical Abstract: Pearl millet [Pennisetum glaucum (L.) R. Br., syn. Cenchrus americanus (L.) Morrone], is a staple food for over 90 million poor farmers in arid and semi-arid regions of sub-Saharan Africa and South Asia. We report the ~1.79 Gb genome sequence of reference genotype Tift 23D2B1-P1-P5, which contains an estimated 38,579 genes. Resequencing analysis of 994 (963 inbreds of the highly cross-pollinated cultigen, and 31 wild accessions) provides insights into population structure, genetic diversity, evolution and domestication history. In addition we demonstrated the use of re-sequence data for establishing marker trait associations, genomic selection and prediction of hybrid performance and defining heterotic pools. The genome wide variations and abiotic stress proteome data are useful resources for pearl millet improvement through deploying modern breeding tools for accelerating genetic gains in pearl millet.