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1

Epigenetics and epigenomics: underlying mechanisms, relevance, and implications in crop improvement

Agarwal, Gaurav, Kudapa, Himabindu, Ramalingam, Abirami, Choudhary, Divya, Sinha, Pallavi, Garg, Vanika, Singh, Vikas K, Patil, Gunvant B, Pandey, Manish K, Nguyen, Henry T, Guo, Baozhu, Sunkar, Raman

Journal:

Functional & Integrative Genomics

Year:

2020

File:

PDF, 753 KB

2020

2

QTL-seq approach identified genomic regions and diagnostic markers for rust and late leaf spot resistance in groundnut ( Arachis hypogaea L.)

Pandey, Manish K., Khan, Aamir W., Singh, Vikas K., Vishwakarma, Manish K., Shasidhar, Yaduru, Kumar, Vinay, Garg, Vanika, Bhat, Ramesh S., Chitikineni, Annapurna, Janila, Pasupuleti, Guo, Baozhu, Var

Journal:

Plant Biotechnology Journal

Year:

2017

Language:

english

File:

PDF, 1.61 MB

english, 2017

3

Identification of main effect and epistatic quantitative trait loci for morphological and yield-related traits in peanut (Arachis hypogaea L.)

Khedikar, Yogendra, Pandey, Manish K., Sujay, V., Singh, Sube, Nayak, Spurthi N., Klein-Gebbinck, Henry W., Sarvamangala, Cholin, Mukri, Ganapati, Garg, Vanika, Upadhyaya, Hari D., Nadaf, H. L., Gowda

Journal:

Molecular Breeding

Year:

2018

Language:

english

File:

PDF, 1.39 MB

english, 2018

4

Super-Pangenome by Integrating the Wild Side of a Species for Accelerated Crop Improvement

Khan, Aamir W., Garg, Vanika, Roorkiwal, Manish, Golicz, Agnieszka A., Edwards, David, Varshney, Rajeev K.

Journal:

Trends in Plant Science

Year:

2019

File:

PDF, 1.47 MB

2019

5

Large scale in-silico identification and characterization of simple sequence repeats (SSRs) from de novo assembled transcriptome ofCatharanthus roseus(L.) G. Don

Kumar, Santosh, Shah, Niraj, Garg, Vanika, Bhatia, Sabhyata

Journal:

Plant Cell Reports

Year:

2014

Language:

english

File:

PDF, 539 KB

english, 2014

6

Genome-wide survey and expression analysis of F-box genes in chickpea

Gupta, Shefali, Garg, Vanika, Kant, Chandra, Bhatia, Sabhyata

Journal:

Year:

2015

Language:

english

File:

PDF, 4.15 MB

english, 2015

7

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

Thudi, Mahendar, Khan, Aamir W., Kumar, Vinay, Gaur, Pooran M., Katta, Krishnamohan, Garg, Vanika, Roorkiwal, Manish, Samineni, Srinivasan, Varshney, Rajeev K.

Journal:

BMC Plant Biology

Year:

2016

Language:

english

File:

PDF, 1.79 MB

english, 2016

8

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

Kumar, Vinay, Khan, Aamir W., Saxena, Rachit K., Garg, Vanika, Varshney, Rajeev K.

Journal:

Plant Biotechnology Journal

Year:

2016

Language:

english

File:

PDF, 1.05 MB

english, 2016

9

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

Agarwal, Gaurav, Garg, Vanika, Kudapa, Himabindu, Doddamani, Dadakhalandar, Pazhamala, Lekha T., Khan, Aamir W., Thudi, Mahendar, Lee, Suk-Ha, Varshney, Rajeev K.

Journal:

Plant Biotechnology Journal

Year:

2016

Language:

english

File:

PDF, 1.73 MB

english, 2016

10

Next-generation sequencing for identification of candidate genes for Fusarium wilt and sterility mosaic disease in pigeonpea ( Cajanus cajan )

Singh, Vikas K., Khan, Aamir W., Saxena, Rachit K., Kumar, Vinay, Kale, Sandip M., Sinha, Pallavi, Chitikineni, Annapurna, Pazhamala, Lekha T., Garg, Vanika, Sharma, Mamta, Sameer Kumar, Chanda Venkat

Journal:

Plant Biotechnology Journal

Year:

2015

Language:

english

File:

PDF, 828 KB

english, 2015

11

Draft genome of the peanut A-genome progenitor ( Arachis duranensis ) provides insights into geocarpy, oil biosynthesis, and allergens

Chen, Xiaoping, Li, Hongjie, Pandey, Manish K., Yang, Qingli, Wang, Xiyin, Garg, Vanika, Li, Haifen, Chi, Xiaoyuan, Doddamani, Dadakhalandar, Hong, Yanbin, Upadhyaya, Hari, Guo, Hui, Khan, Aamir W., Z

Journal:

Proceedings of the National Academy of Sciences

Year:

2016

Language:

english

File:

PDF, 1.83 MB

english, 2016

12

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, Vikas K, Khan, Aamir W, Jaganathan, Deepa, Thudi, Mahendar, Roorkiwal, Manish, Takagi, Hiroki, Garg, Vanika, Kumar, Vinay, Chitikineni, Annapurna, Gaur, Pooran M, Sutton, Tim, Terauchi, Ryohei,

Journal:

Plant Biotechnology Journal

Year:

2016

Language:

english

File:

PDF, 1.01 MB

english, 2016

13

Prioritization of candidate genes in “QTL-hotspot” region for drought tolerance in chickpea (Cicer arietinum L.)

Kale, Sandip M, Jaganathan, Deepa, Ruperao, Pradeep, Chen, Charles, Punna, Ramu, Kudapa, Himabindu, Thudi, Mahendar, Roorkiwal, Manish, Katta, Mohan AVSK, Doddamani, Dadakhalandar, Garg, Vanika, Kisho

Journal:

Scientific Reports

Year:

2015

Language:

english

File:

PDF, 1.78 MB

english, 2015

14

Construction of genotyping-by-sequencing based high-density genetic maps and QTL mapping for fusarium wilt resistance in pigeonpea

Saxena, Rachit K., Singh, Vikas K., Kale, Sandip M., Tathineni, Revathi, Parupalli, Swathi, Kumar, Vinay, Garg, Vanika, Das, Roma R., Sharma, Mamta, Yamini, K. N., Muniswamy, S., Ghanta, Anuradha, Rat

Journal:

Scientific Reports

Year:

2017

Language:

english

File:

PDF, 3.15 MB

english, 2017

15

Genotyping-by-sequencing of three mapping populations for identification of candidate genomic regions for resistance to sterility mosaic disease in pigeonpea

Saxena, Rachit K., Kale, Sandip M., Kumar, Vinay, Parupali, Swathi, Joshi, Shourabh, Singh, Vikas, Garg, Vanika, Das, Roma R., Sharma, Mamta, Yamini, K. N., Ghanta, Anuradha, Rathore, Abhishek, Sameer

Journal:

Scientific Reports

Year:

2017

Language:

english

File:

PDF, 2.71 MB

english, 2017

16

Gene expression atlas of pigeonpea and its application to gain insights into genes associated with pollen fertility implicated in seed formation

Pazhamala, Lekha T., Purohit, Shilp, Saxena, Rachit K., Garg, Vanika, Krishnamurthy, L., Verdier, Jerome, Varshney, Rajeev K.

Journal:

Journal of Experimental Botany

Year:

2017

Language:

english

File:

PDF, 18.40 MB

english, 2017

17

The RNA-Seq based high resolution gene expression atlas of chickpea ( Cicer arietinum L.) reveals dynamic spatio-temporal changes associated with growth and development

Kudapa, Himabindu, Garg, Vanika, Chitikineni, Annapurna, Varshney, Rajeev K.

Journal:

Plant, Cell & Environment

Year:

2018

Language:

english

File:

PDF, 2.22 MB

english, 2018

18

Correction to: Identification of main effect and epistatic quantitative trait loci for morphological and yield-related traits in peanut (Arachis hypogaea L.)

Khedikar, Yogendra, Pandey, Manish K., Sujay, V., Singh, Sube, Nayak, Spurthi N., Klein-Gebbinck, Henry W., Sarvamangala, Cholin, Mukri, Ganapati, Garg, Vanika, Upadhyaya, Hari D., Nadaf, H. L., Gowda

Journal:

Molecular Breeding

Year:

2018

Language:

english

File:

PDF, 885 KB

english, 2018

19

A New Set of ESTs from Chickpea (Cicer arietinum L.) Embryo Reveals Two Novel F-Box Genes, CarF-box_PP2 and CarF-box_LysM, with Potential Roles in Seed Development

Gupta, Shefali, Garg, Vanika, Bhatia, Sabhyata, Zhang, Xianlong

Journal:

Year:

2015

Language:

english

File:

PDF, 7.05 MB

english, 2015

20

RNA-Seq analysis revealed genes associated with drought stress response in kabuli chickpea (Cicer arietinum L.)

Mahdavi Mashaki, Keyvan, Garg, Vanika, Nasrollahnezhad Ghomi, Ali Asghar, Kudapa, Himabindu, Chitikineni, Annapurna, Zaynali Nezhad, Khalil, Yamchi, Ahad, Soltanloo, Hasan, Varshney, Rajeev Kumar, Thu

Journal:

Year:

2018

Language:

english

File:

PDF, 3.93 MB

english, 2018

21

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

Ramalingam, Abirami, Kudapa, Himabindu, Pazhamala, Lekha T., Garg, Vanika, Varshney, Rajeev K.

Journal:

Frontiers in Plant Science

Year:

2015

Language:

english

File:

PDF, 2.00 MB

english, 2015

22

Genome-Wide Identification, Characterization, and Expression Analysis of Small RNA Biogenesis Purveyors Reveal Their Role in Regulation of Biotic Stress Responses in Three Legume Crops

Garg, Vanika, Agarwal, Gaurav, Pazhamala, Lekha T., Nayak, Spurthi N., Kudapa, Himabindu, Khan, Aamir W., Doddamani, Dadakhalandar, Sharma, Mamta, Kavi Kishor, P. B., Varshney, Rajeev K.

Journal:

Frontiers in Plant Science

Year:

2017

Language:

english

File:

PDF, 5.09 MB

english, 2017

23

Genome-Wide Discovery and Deployment of Insertions and Deletions Markers Provided Greater Insights on Species, Genomes, and Sections Relationships in the Genus Arachis

Vishwakarma, Manish K., Kale, Sandip M., Sriswathi, Manda, Naresh, Talari, Shasidhar, Yaduru, Garg, Vanika, Pandey, Manish K., Varshney, Rajeev K.

Journal:

Frontiers in Plant Science

Year:

2017

Language:

english

File:

PDF, 2.73 MB

english, 2017

24

Genomic-enabled prediction models using multi-environment trials to estimate the effect of genotype × environment interaction on prediction accuracy in chickpea

Roorkiwal, Manish, Jarquin, Diego, Singh, Muneendra K., Gaur, Pooran M., Bharadwaj, Chellapilla, Rathore, Abhishek, Howard, Reka, Srinivasan, Samineni, Jain, Ankit, Garg, Vanika, Kale, Sandip, Chitiki

Journal:

Scientific Reports

Year:

2018

File:

PDF, 2.55 MB

2018

25

Genomic-enabled prediction models using multi-environment trials to estimate the effect of genotype × environment interaction on prediction accuracy in chickpea

Roorkiwal, Manish, Jarquin, Diego, Singh, Muneendra K., Gaur, Pooran M., Bharadwaj, Chellapilla, Rathore, Abhishek, Howard, Reka, Srinivasan, Samineni, Jain, Ankit, Garg, Vanika, Kale, Sandip, Chitiki

Journal:

Scientific Reports

Year:

2018

Language:

english

File:

PDF, 2.55 MB

english, 2018

26

Integrated transcriptome, small RNA and degradome sequencing approaches provide insights into Ascochyta blight resistance in chickpea

Garg, Vanika, Khan, Aamir W, Kudapa, Himabindu, Kale, Sandip M, Chitikineni, Annapurna, Qiwei, Sun, Sharma, Mamta, Li, Chuanying, Zhang, Baohong, Liu, Xin, Kishor, P B Kavi, Varshney, Rajeev K

Journal:

Plant Biotechnology Journal

Year:

2018

Language:

english

File:

PDF, 3.00 MB

english, 2018

27

Genetic Diversity Patterns and Heterosis Prediction Based on SSRs and SNPs in Hybrid Parents of Pearl Millet

Singh, Satbeer, Gupta, S. K., Thudi, Mahendar, Das, Roma Rani, Vemula, Anilkumar, Garg, Vanika, Varshney, R. K., Rathore, Abhishek, Pahuja, S. K., Yadav, Dev Vart

Journal:

Year:

2018

Language:

english

File:

PDF, 5.21 MB

english, 2018

28

The genome of cultivated peanut provides insight into legume karyotypes, polyploid evolution and crop domestication

Zhuang, Weijian, Chen, Hua, Yang, Meng, Wang, Jianping, Pandey, Manish K., Zhang, Chong, Chang, Wen-Chi, Zhang, Liangsheng, Zhang, Xingtan, Tang, Ronghua, Garg, Vanika, Wang, Xingjun, Tang, Haibao, Ch

Journal:

Nature Genetics

Year:

2019

Language:

english

File:

PDF, 5.14 MB

english, 2019

29

Genome‐wide analysis of epigenetic and transcriptional changes associated with heterosis in pigeonpea

Sinha, Pallavi, Singh, Vikas K, Saxena, Rachit K, Kale, Sandip M, Li, Yuqi, Garg, Vanika, Tang, Meifang, Khan, Aamir W, Kim, Kyung Do, Chitikineni, Annapurna, Saxena, KB, Sameer Kumar, CV, Liu, Xin, X

Journal:

Plant Biotechnology Journal

Year:

2020

Language:

english

File:

PDF, 43.55 MB

english, 2020

30

Seed protein content and its relationships with agronomic traits in pigeonpea is controlled by both main and epistatic effects QTLs

Obala, Jimmy, Saxena, Rachit K., Singh, Vikas K., Kale, Sandip M., Garg, Vanika, Kumar, C. V. Sameer, Saxena, K. B., Tongoona, Pangirayi, Sibiya, Julia, Varshney, Rajeev K.

Journal:

Scientific Reports

Year:

2020

File:

PDF, 1.76 MB

2020

31

Genome-wide transcriptome and physiological analyses provide new insights into peanut drought response mechanisms

Bhogireddy, Sailaja, Xavier, Abishek, Garg, Vanika, Layland, Nancy, Arias, Renee, Payton, Paxton, Nayak, Spurthi N., Pandey, Manish K., Puppala, Naveen, Varshney, Rajeev K.

Journal:

Scientific Reports

Year:

2020

File:

PDF, 7.91 MB

2020