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8 results on '"Kane, N.A."'

1. Improved genetic map identified major QTLs for drought tolerance- and iron deficiency tolerance-related traits in groundnut

Author

Pandey, M.K., Gangurde, S.S., Sharma, V., Pattanashetti, S.K., Naidu, G.K., Faye, I., Hamidou, F., Desmae, H., Kane, N.A., Yuan, M., Vadez, V., Nigam, S.N., Varshney, R.K., Pandey, M.K., Gangurde, S.S., Sharma, V., Pattanashetti, S.K., Naidu, G.K., Faye, I., Hamidou, F., Desmae, H., Kane, N.A., Yuan, M., Vadez, V., Nigam, S.N., and Varshney, R.K.

Abstract

A deep understanding of the genetic control of drought tolerance and iron deficiency tolerance is essential to hasten the process of developing improved varieties with higher tolerance through genomics-assisted breeding. In this context, an improved genetic map with 1205 loci was developed spanning 2598.3 cM with an average 2.2 cM distance between loci in the recombinant inbred line (TAG 24 × ICGV 86031) population using high-density 58K single nucleotide polymorphism (SNP) “Axiom_Arachis” array. Quantitative trait locus (QTL) analysis was performed using extensive phenotyping data generated for 20 drought tolerance- and two iron deficiency tolerance-related traits from eight seasons (2004–2015) at two locations in India, one in Niger, and one in Senegal. The genome-wide QTL discovery analysis identified 19 major main-effect QTLs with 10.0–33.9% phenotypic variation explained (PVE) for drought tolerance- and iron deficiency tolerance- related traits. Major main-effect QTLs were detected for haulm weight (20.1% PVE), SCMR (soil plant analytical development (SPAD) chlorophyll meter reading, 22.4% PVE), and visual chlorosis rate (33.9% PVE). Several important candidate genes encoding glycosyl hydrolases; malate dehydrogenases; microtubule-associated proteins; and transcription factors such as MADS-box, basic helix-loop-helix (bHLH), NAM, ATAF, and CUC (NAC), and myeloblastosis (MYB) were identified underlying these QTL regions. The putative function of these genes indicated their possible involvement in plant growth, development of seed and pod, and photosynthesis under drought or iron deficiency conditions in groundnut. These genomic regions and candidate genes, after validation, may be useful to develop molecular markers for deploying genomics-assisted breeding for enhancing groundnut yield under drought stress and iron-deficient soil conditions.

Published
2020

2. Erratum: Pearl millet genome sequence provides a resource to improve agronomic traits in arid environments

Author

Varshney, R.K., Shi, C., Thudi, M., Mariac, C., Wallace, J., Qi, P., Zhang, H., Zhao, Y., Wang, X., Rathore, A., Srivastava, R.K., Chitikineni, A., Fan, G., Bajaj, P., Punnuri, S., Gupta, S.K., Wang, H., Jiang, Y., Couderc, M., Katta, M.A.V.S.K., Paudel, D.R., Mungra, K.D., Chen, W., Harris-Shultz, K.R., Garg, V., Desai, N., Doddamani, D., Kane, N.A., Conner, J.A., Ghatak, A., Chaturvedi, P., Subramaniam, S., Yadav, O.P., Berthouly-Salazar, C., Hamidou, F., Wang, J., Liang, X., Clotault, J., Upadhyaya, H.D., Cubry, P., Rhoné, B., Gueye, M.C., Sunkar, R., Dupuy, C., Sparvoli, F., Cheng, S., Mahala, R.S., Singh, B., Yadav, R.S., Lyons, E., Datta, S.K., Hash, C.T., Devos, K.M., Buckler, E.S., Bennetzen, J.L., Paterson, A.H., Ozias-Akins, P., Grando, S., Mohapatra, T., Weckwerth, W., Reif, J.C., Liu, X., Vigouroux, Y., Xu, X., Varshney, R.K., Shi, C., Thudi, M., Mariac, C., Wallace, J., Qi, P., Zhang, H., Zhao, Y., Wang, X., Rathore, A., Srivastava, R.K., Chitikineni, A., Fan, G., Bajaj, P., Punnuri, S., Gupta, S.K., Wang, H., Jiang, Y., Couderc, M., Katta, M.A.V.S.K., Paudel, D.R., Mungra, K.D., Chen, W., Harris-Shultz, K.R., Garg, V., Desai, N., Doddamani, D., Kane, N.A., Conner, J.A., Ghatak, A., Chaturvedi, P., Subramaniam, S., Yadav, O.P., Berthouly-Salazar, C., Hamidou, F., Wang, J., Liang, X., Clotault, J., Upadhyaya, H.D., Cubry, P., Rhoné, B., Gueye, M.C., Sunkar, R., Dupuy, C., Sparvoli, F., Cheng, S., Mahala, R.S., Singh, B., Yadav, R.S., Lyons, E., Datta, S.K., Hash, C.T., Devos, K.M., Buckler, E.S., Bennetzen, J.L., Paterson, A.H., Ozias-Akins, P., Grando, S., Mohapatra, T., Weckwerth, W., Reif, J.C., Liu, X., Vigouroux, Y., and Xu, X.

Abstract

In the version of this article initially published, in the HTML, the wrong Creative Commons Attribution license (cc-by-nc rather than cc-by) was inserted. The error has been corrected in the HTML version of the article

Published
2018

3. A western Sahara centre of domestication inferred from pearl millet genomes

Author

Burgarella, C., Cubry, P., Kane, N.A., Varshney, R.K., Mariac, C., Liu, X., Shi, C., Thudi, M., Couderc, M., Xu, X., Chitikineni, A., Scarcelli, N., Barnaud, A., Rhoné, B., Dupuy, C., François, O., Berthouly-Salazar, C., Vigouroux, Y., Burgarella, C., Cubry, P., Kane, N.A., Varshney, R.K., Mariac, C., Liu, X., Shi, C., Thudi, M., Couderc, M., Xu, X., Chitikineni, A., Scarcelli, N., Barnaud, A., Rhoné, B., Dupuy, C., François, O., Berthouly-Salazar, C., and Vigouroux, Y.

Abstract

There have been intense debates over the geographic origin of African crops and agriculture. Here, we used whole-genome sequencing data to infer the domestication origin of pearl millet (Cenchrus americanus). Our results supported an origin in western Sahara, and we dated the onset of cultivated pearl millet expansion in Africa to 4,900 years ago. We provided evidence that wild-to-crop gene flow increased cultivated genetic diversity leading to diversity hotspots in western and eastern Sahel and adaptive introgression of 15 genomic regions. Our study reconciled genetic and archaeological data for one of the oldest African crops.

Published
2018

4. Pearl millet genome sequence provides a resource to improve agronomic traits in arid environments

Author

Varshney, R.K., Shi, C., Thudi, M., Mariac, C., Wallace, J., Qi, P., Zhang, H., Zhao, Y., Wang, X., Rathore, A., Srivastava, R.K., Chitikineni, A., Fan, G., Bajaj, P., Punnuri, S., Gupta, S.K., Wang, H., Jiang, Y., Couderc, M., Katta, M.A.V.S.K., Paudel, D.R., Mungra, K.D., Chen, W., Harris-Shultz, K.R., Garg, V., Desai, N., Doddamani, D., Kane, N.A., Conner, J.A., Ghatak, A., Chaturvedi, P., Subramaniam, S., Yadav, O.P., Berthouly-Salazar, C., Hamidou, F., Wang, J., Liang, X., Clotault, J., Upadhyaya, H.D., Cubry, P., Rhoné, B., Gueye, M.C., Sunkar, R., Dupuy, C., Sparvoli, F., Cheng, S., Mahala, R.S., Singh, B., Yadav, R.S., Lyons, E., Datta, S.K., Hash, C.T., Devos, K.M., Buckler, E., Bennetzen, J.L., Paterson, A.H., Ozias-Akins, P., Grando, S., Mohapatra, T., Weckwerth, W., Reif, J.C., Liu, X., Vigouroux, Y., Xu, X., Varshney, R.K., Shi, C., Thudi, M., Mariac, C., Wallace, J., Qi, P., Zhang, H., Zhao, Y., Wang, X., Rathore, A., Srivastava, R.K., Chitikineni, A., Fan, G., Bajaj, P., Punnuri, S., Gupta, S.K., Wang, H., Jiang, Y., Couderc, M., Katta, M.A.V.S.K., Paudel, D.R., Mungra, K.D., Chen, W., Harris-Shultz, K.R., Garg, V., Desai, N., Doddamani, D., Kane, N.A., Conner, J.A., Ghatak, A., Chaturvedi, P., Subramaniam, S., Yadav, O.P., Berthouly-Salazar, C., Hamidou, F., Wang, J., Liang, X., Clotault, J., Upadhyaya, H.D., Cubry, P., Rhoné, B., Gueye, M.C., Sunkar, R., Dupuy, C., Sparvoli, F., Cheng, S., Mahala, R.S., Singh, B., Yadav, R.S., Lyons, E., Datta, S.K., Hash, C.T., Devos, K.M., Buckler, E., Bennetzen, J.L., Paterson, A.H., Ozias-Akins, P., Grando, S., Mohapatra, T., Weckwerth, W., Reif, J.C., Liu, X., Vigouroux, Y., and Xu, X.

Abstract

Pearl millet [Cenchrus americanus (L.) Morrone] is a staple food for more than 90 million farmers in arid and semi-arid regions of sub-Saharan Africa, India and South Asia. We report the ∼1.79 Gb draft whole genome sequence of reference genotype Tift 23D2B1-P1-P5, which contains an estimated 38,579 genes. We highlight the substantial enrichment for wax biosynthesis genes, which may contribute to heat and drought tolerance in this crop. We resequenced and analyzed 994 pearl millet lines, enabling insights into population structure, genetic diversity and domestication. We use these resequencing data to establish marker trait associations for genomic selection, to define heterotic pools, and to predict hybrid performance. We believe that these resources should empower researchers and breeders to improve this important staple crop.

Published
2017

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