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Emerging Genomic Tools for Legume Breeding: Current Status and Future Prospects.

Pandey MK, Roorkiwal M, Singh VK, Ramalingam A, Kudapa H, Thudi M, Chitikineni A, Rathore A, Varshney RK.

Front Plant Sci. 2016 May 2;7:455. doi: 10.3389/fpls.2016.00455. eCollection 2016. Review.


Multiple post-domestication origins of kabuli chickpea through allelic variation in a diversification-associated transcription factor.

Varma Penmetsa R, Carrasquilla-Garcia N, Bergmann EM, Vance L, Castro B, Kassa MT, Sarma BK, Datta S, Farmer AD, Baek JM, Coyne CJ, Varshney RK, von Wettberg EJ, Cook DR.

New Phytol. 2016 May 19. doi: 10.1111/nph.14010. [Epub ahead of print]


QTL-seq for rapid identification of candidate genes for 100-seed weight and root / total plant dry weight ratio under rainfed conditions in chickpea.

Singh VK, Khan AW, Jaganathan D, Thudi M, Roorkiwal M, Takagi H, Garg V, Kumar V, Chitikineni A, Gaur PM, Sutton T, Terauchi R, Varshney RK.

Plant Biotechnol J. 2016 Apr 23. doi: 10.1111/pbi.12567. [Epub ahead of print]


Genomic Tools in Groundnut Breeding Program: Status and Perspectives.

Janila P, Variath MT, Pandey MK, Desmae H, Motagi BN, Okori P, Manohar SS, Rathnakumar AL, Radhakrishnan T, Liao B, Varshney RK.

Front Plant Sci. 2016 Mar 17;7:289. doi: 10.3389/fpls.2016.00289. eCollection 2016. Review.


Comparative genomics and prediction of conditionally dispensable sequences in legume-infecting Fusarium oxysporum formae speciales facilitates identification of candidate effectors.

Williams AH, Sharma M, Thatcher LF, Azam S, Hane JK, Sperschneider J, Kidd BN, Anderson JP, Ghosh R, Garg G, Lichtenzveig J, Kistler HC, Shea T, Young S, Buck SA, Kamphuis LG, Saxena R, Pande S, Ma LJ, Varshney RK, Singh KB.

BMC Genomics. 2016 Mar 5;17(1):191. doi: 10.1186/s12864-016-2486-8.


Comprehensive tissue-specific proteome analysis of drought stress responses in Pennisetum glaucum (L.) R. Br. (Pearl millet).

Ghatak A, Chaturvedi P, Nagler M, Roustan V, Lyon D, Bachmann G, Postl W, Schröfl A, Desai N, Varshney RK, Weckwerth W.

J Proteomics. 2016 Mar 2. pii: S1874-3919(16)30053-7. doi: 10.1016/j.jprot.2016.02.032. [Epub ahead of print]


The genome sequences of Arachis duranensis and Arachis ipaensis, the diploid ancestors of cultivated peanut.

Bertioli DJ, Cannon SB, Froenicke L, Huang G, Farmer AD, Cannon EK, Liu X, Gao D, Clevenger J, Dash S, Ren L, Moretzsohn MC, Shirasawa K, Huang W, Vidigal B, Abernathy B, Chu Y, Niederhuth CE, Umale P, Araújo AC, Kozik A, Do Kim K, Burow MD, Varshney RK, Wang X, Zhang X, Barkley N, Guimarães PM, Isobe S, Guo B, Liao B, Stalker HT, Schmitz RJ, Scheffler BE, Leal-Bertioli SC, Xun X, Jackson SA, Michelmore R, Ozias-Akins P.

Nat Genet. 2016 Apr;48(4):438-46. doi: 10.1038/ng.3517. Epub 2016 Feb 22.


Exploring plant growth-promotion actinomycetes from vermicompost and rhizosphere soil for yield enhancement in chickpea.

Sreevidya M, Gopalakrishnan S, Kudapa H, Varshney RK.

Braz J Microbiol. 2016 Jan-Mar;47(1):85-95. doi: 10.1016/j.bjm.2015.11.030. Epub 2016 Jan 27.


Whole genome re-sequencing reveals genome-wide variations among parental lines of 16 mapping populations in chickpea (Cicer arietinum L.).

Thudi M, Khan AW, Kumar V, Gaur PM, Katta K, Garg V, Roorkiwal M, Samineni S, Varshney RK.

BMC Plant Biol. 2016 Jan 27;16 Suppl 1:10. doi: 10.1186/s12870-015-0690-3.


First-generation HapMap in Cajanus spp. reveals untapped variations in parental lines of mapping populations.

Kumar V, Khan AW, Saxena RK, Garg V, Varshney RK.

Plant Biotechnol J. 2016 Jan 29. doi: 10.1111/pbi.12528. [Epub ahead of print]


Genome-wide dissection of AP2/ERF and HSP90 gene families in five legumes and expression profiles in chickpea and pigeonpea.

Agarwal G, Garg V, Kudapa H, Doddamani D, Pazhamala LT, Khan AW, Thudi M, Lee SH, Varshney RK.

Plant Biotechnol J. 2016 Jan 23. doi: 10.1111/pbi.12520. [Epub ahead of print]


Identification and Validation of Selected Universal Stress Protein Domain Containing Drought-Responsive Genes in Pigeonpea (Cajanus cajan L.).

Sinha P, Pazhamala LT, Singh VK, Saxena RK, Krishnamurthy L, Azam S, Khan AW, Varshney RK.

Front Plant Sci. 2016 Jan 6;6:1065. doi: 10.3389/fpls.2015.01065. eCollection 2015.


Transcriptome analyses reveal genotype- and developmental stage-specific molecular responses to drought and salinity stresses in chickpea.

Garg R, Shankar R, Thakkar B, Kudapa H, Krishnamurthy L, Mantri N, Varshney RK, Bhatia S, Jain M.

Sci Rep. 2016 Jan 13;6:19228. doi: 10.1038/srep19228.


Gene Expression and Yeast Two-Hybrid Studies of 1R-MYB Transcription Factor Mediating Drought Stress Response in Chickpea (Cicer arietinum L.).

Ramalingam A, Kudapa H, Pazhamala LT, Garg V, Varshney RK.

Front Plant Sci. 2015 Dec 24;6:1117. doi: 10.3389/fpls.2015.01117. eCollection 2015.


Proteomics and Metabolomics: Two Emerging Areas for Legume Improvement.

Ramalingam A, Kudapa H, Pazhamala LT, Weckwerth W, Varshney RK.

Front Plant Sci. 2015 Dec 24;6:1116. doi: 10.3389/fpls.2015.01116. eCollection 2015. Review.


Identification and Evaluation of Single-Nucleotide Polymorphisms in Allotetraploid Peanut (Arachis hypogaea L.) Based on Amplicon Sequencing Combined with High Resolution Melting (HRM) Analysis.

Hong Y, Pandey MK, Liu Y, Chen X, Liu H, Varshney RK, Liang X, Huang S.

Front Plant Sci. 2015 Dec 2;6:1068. doi: 10.3389/fpls.2015.01068. eCollection 2015.


Analytical and Decision Support Tools for Genomics-Assisted Breeding.

Varshney RK, Singh VK, Hickey JM, Xun X, Marshall DF, Wang J, Edwards D, Ribaut JM.

Trends Plant Sci. 2015 Dec 2. pii: S1360-1385(15)00277-0. doi: 10.1016/j.tplants.2015.10.018. [Epub ahead of print] Review.


Identification of quantitative trait loci for yield and yield related traits in groundnut (Arachis hypogaea L.) under different water regimes in Niger and Senegal.

Faye I, Pandey MK, Hamidou F, Rathore A, Ndoye O, Vadez V, Varshney RK.

Euphytica. 2015;206(3):631-647. Epub 2015 May 30.


Molecular breeding for introgression of fatty acid desaturase mutant alleles (ahFAD2A and ahFAD2B) enhances oil quality in high and low oil containing peanut genotypes.

Janila P, Pandey MK, Shasidhar Y, Variath MT, Sriswathi M, Khera P, Manohar SS, Nagesh P, Vishwakarma MK, Mishra GP, Radhakrishnan T, Manivannan N, Dobariya KL, Vasanthi RP, Varshney RK.

Plant Sci. 2016 Jan;242:203-13. doi: 10.1016/j.plantsci.2015.08.013. Epub 2015 Aug 28.


Exciting journey of 10 years from genomes to fields and markets: Some success stories of genomics-assisted breeding in chickpea, pigeonpea and groundnut.

Varshney RK.

Plant Sci. 2016 Jan;242:98-107. doi: 10.1016/j.plantsci.2015.09.009. Epub 2015 Sep 10. Review.

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