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Research Articles 2014-2012

2014

  1. Bhardwaj, A. R., Joshi, G., Pandey, R., Goel, S., Jagannath, A., Kumar, A., Katiyar-Agarwal, S., & Agarwal, M. (2014). A genome-wide perspective of miRNAome in response to high temperature, salinity and drought stresses in Brassica juncea(Czern) L. PloS One, 9(3), e92456.
  2. Bollineni, H., Krishnan, S. G., Sundaram, R. M., Sudhakar, D., Prabhu, K. V., Singh, N. K., & Singh, A. K. (2014). Marker assisted biofortification of rice with pro-vitamin A using transgenic Golden Rice® lines: progress and prospects. Indian Journal of Genetics and Plant Breeding (The), 74(4s), 624-630.
  3. Gahlaut, V., Mathur, S., Dhariwal, R., Khurana, J. P., Tyagi, A. K., Balyan, H. S., & Gupta, P. K. (2014). A multi-step phosphorelay two-component system impacts on tolerance against dehydration stress in common wheat. Functional & Integrative Genomics, 14(4), 707-716.
  4. Gour, P., Garg, P., Jain, R., Joseph, S. V., Tyagi, A. K., & Raghuvanshi, S. (2014). Manually curated database of rice proteins. Nucleic Acids Research, 42(D1), D1214-D1221.
  5. Johnson, A. A., Dasgupta, I., & Gopal, D. S. (2014). Development of loop-mediated isothermal amplification and SYBR green real-time PCR methods for the detection of Citrus yellow mosaic badnavirus in citrus species. Journal of Virological Methods, 203, 9-14.
  6. Kanwar, P., Sanyal, S. K., Tokas, I., Yadav, A. K., Pandey, A., Kapoor, S., & Pandey, G. K. (2014). Comprehensive structural, interaction and expression analysis of CBL and CIPK complement during abiotic stresses and development in rice. Cell Calcium, 56(2), 81-95.
  7. Kohli, D., Joshi, G., Deokar, A. A., Bhardwaj, A. R., Agarwal, M., Katiyar-Agarwal, S., & Jain, P. K. (2014). Identification and characterization of wilt and salt stress-responsive microRNAs in chickpea through high-throughput sequencing. PloS One, 9(10), e108851.
  8. Lakhotia, N., Joshi, G., Bhardwaj, A. R., Katiyar-Agarwal, S., Agarwal, M., Jagannath, A., & Kumar, A. (2014). Identification and characterization of miRNAome in root, stem, leaf and tuber developmental stages of potato (Solanum tuberosum L.) by high-throughput sequencing. BMC Plant Biology, 14(1), 6.
  9. Nayar, S., Kapoor, M., & Kapoor, S. (2014). Post-translational regulation of rice MADS29 function: homodimerization or binary interactions with other seed-expressed MADS proteins modulate its translocation into the nucleus. Journal of Experimental Botany, 65(18), 5339-5350.
  10. Pandey, R., Joshi, G., Bhardwaj, A. R., Agarwal, M., & Katiyar-Agarwal, S. (2014). A comprehensive genome-wide study on tissue-specific and abiotic stress-specific miRNAs in Triticum aestivum. PLoS One, 9(4), e95800.
  11. Sangwan, N., Verma, H., Kumar, R., Negi, V., Lax, S., Khurana, P., & Lal, R. (2014). Reconstructing an ancestral genotype of two hexachlorocyclohexane-degrading Sphingobium species using metagenomic sequence data. The ISME Journal, 8(2), 398-408.
  12. Sarkar, N. K., Kim, Y. K., & Grover, A. (2014). Coexpression network analysis associated with call of rice seedlings for encountering heat stress. Plant Molecular Biology, 84(1-2), 125-143.
  13. Sharma, M., & Pandey, G.K.  (2014).  DUBa: Regulation by reversible ubiquitination.  Journal of Molecular Biology and Molecular Imaging, 2(1), 1014.
  14. International Wheat Genome Sequencing Consortium. (2014). A chromosome-based draft sequence of the hexaploid bread wheat (Triticum aestivum) genome. Science, 345(6194), 1251788.
  15. Shankar, A., Srivastava, A. K., Yadav, A. K., Sharma, M., Pandey, A., Raut, V. V., & Pandey, G. K. (2014). Whole genome transcriptome analysis of rice seedling reveals alterations in Ca 2+ ion signaling and homeostasis in response to Ca 2+ deficiency. Cell Calcium, 55(3), 155-165.
  16. Sharma, M., Singh, A., Shankar, A., Pandey, A., Baranwal, V., Kapoor, S., & Pandey, G. K. (2014). Comprehensive expression analysis of rice Armadillo gene family during abiotic stress and development. DNA Research, 21(3), 267-283.
  17. Sharma, P., Chatterjee, M., Burman, N., & Khurana, J. P. (2014). Cryptochrome 1 regulates growth and development in Brassica through alteration in the expression of genes involved in light, phytohormone and stress signalling. Plant Cell & Environment, 37(4), 961-977.
  18. Singh, A., Kanwar, P., Yadav, A. K., Mishra, M., Jha, S. K., Baranwal, V.,  & Pandey, G. K. (2014). Genome‐wide expressional and functional analysis of calcium transport elements during abiotic stress and development in rice. The FEBS Journal, 281(3), 894-915.
  19. Verma, H., Kumar, R., Oldach, P., Sangwan, N., Khurana, J. P., Gilbert, J. A., & Lal, R. (2014). Comparative genomic analysis of nine Sphingobium strains: insights into their evolution and hexachlorocyclohexane (HCH) degradation pathways. BMC Genomics, 15(1), 1014.

 

2013

 

  1. Borah, B. K., Sharma, S., Kant, R., Johnson, A. M., Saigopal, D. V. R., & Dasgupta, I. (2013). Bacilliform DNA‐containing plant viruses in the tropics: commonalities within a genetically diverse group. Molecular Plant Pathology, 14(8), 759-771.
  2. Chaudhary, N., & Khurana, P. (2013). Cloning, functional characterisation and transgenic manipulation of vitamin E biosynthesis genes of wheat. Functional Plant Biology, 40(11), 1129-1136.
  3. Chauhan, H., Khurana, N., Agarwal, P., Khurana, J. P., & Khurana, P. (2013). A seed preferential heat shock transcription factor from wheat provides abiotic stress tolerance and yield enhancement in transgenic Arabidopsis under heat stress environment. PloS One, 8(11), e79577.
  4. Checker, V. G., & Khurana, P. (2013). Molecular and functional characterization of mulberry EST encoding remorin (MiREM) involved in abiotic stress. Plant Cell Reports, 32(11), 1729-1741.
  5. Dangwal, M., Malik, G., Kapoor, S., & Kapoor, M. (2013). De novo methyltransferase, OsDRM2, interacts with the ATP-dependent RNA helicase, OseIF4A, in rice. Journal of Molecular Biology, 425(16), 2853-2866.
  6. Dangwal, M., Kapoor, S., & Kapoor, M. (2014). The PpCMT chromomethylase affects cell growth and interacts with the homolog of LIKE HETEROCHROMATIN PROTEIN 1 in the moss Physcomitrella patens. The Plant Journal, 77(4), 589-603.
  7. Das, M., Tetoriya, M., Haq, Q.M.R., & Khurana, P. (2013). Screening and expression analysis of HAL3a, dehydrin and NHX1 in ten genotypes of mulberry for abiotic stress tolerance. Sericologia,53, 1-10.
  8. Das, R., Pandey, A., & Pandey, G. K. (2013). Role of calcium regulated kinases: expressional and functional analysis in abiotic stress signalling. Advances in Genome Science, 49, 377-425.
  9. Giri, J., Dansana, P. K., Kothari, K. S., Sharma, G., Vij, S., & Tyagi, A. K. (2013). SAPs as novel regulators of abiotic stress response in plants. Bioessays, 35(7), 639-648.
  10. Gour, P., Garg, P., Jain, R., Joseph, S. V., Tyagi, A. K., & Raghuvanshi, S. (2014). Manually curated database of rice proteins. Nucleic Acids Research, 42(D1), D1214-D1221.
  11. Grover, A., Mittal, D., Negi, M., & Lavania, D. (2013). Generating high temperature tolerant transgenic plants: achievements and challenges. Plant Science, 205, 38-47.
  12. Jyothsna, M., Manonmani, S., Rabindran, R., Dasgupta, I., & Robin, S. (2013). Introgression of transgenic resistance for rice tungro disease into mega variety, ASD 16 of Tamil Nadu through marker assisted backcross breeding. Madras Agricultural Journal, 100(1/3), 70-74.
  13. Kaur, J., Verma, H., Tripathi, C., Khurana, J. P., & Lal, R. (2013). Draft genome sequence of a hexachlorocyclohexane-degrading bacterium, Sphingobium baderi strain LL03T. Genome Announcements, 1(5), e00751-13.
  14. Khurana, N., Chauhan, H., & Khurana, P. (2013). Wheat chloroplast targeted sHSP26 promoter confers heat and abiotic stress inducible expression in transgenic Arabidopsis plants. PLoS One, 8(1), e54418.
  15. Khurana, R., Kathuria, H., Mukhopadhyay, A., Kapoor, S., & Tyagi, A. K. (2013). A 286 bp upstream regulatory region of a rice anther-specific gene, OSIPP3, confers pollen-specific expression in Arabidopsis. Biotechnology Letters, 35(3), 455-462.
  16. Khurana, R., Kapoor, S., & Tyagi, A. K. (2013). Spatial and temporal activity of upstream regulatory regions of rice anther-specific genes in transgenic rice and Arabidopsis. Transgenic Research, 22(1), 31-46.
  17. Kumar, R., Khurana, A., & Sharma, A. K. (2013). Molecular regulators of fruit ripening. Stewart Postharvest Review, 9(4), 1-7.
  18. Mathithumilan, B., Kadam, N. N., Biradar, J., Reddy, S. H., Ankaiah, M., Narayanan, M. J., & Sreeman, S. M. (2013). Development and characterization of microsatellite markers for Morus spp. and assessment of their transferability to other closely related species. BMC Plant Biology, 13(1), 194.
  19. Mathur, S., & Dasgupta, I. (2013). Further support of genetic conservation in Indian isolates of Ricetungrobacilliformvirus by sequence analysis of an isolate from North–Western India. Virus Genes, 46(2), 387-391.
  20. Mishra, M., Kanwar, P., Singh, A., Pandey, A., Kapoor, S., & Pandey, G. K. (2013). Plant omics: genome-wide analysis of ABA repressor1 (ABR1) related genes in rice during abiotic stress and development. Omics: A Journal of Integrative Biology, 17(8), 439-450.
  21. Mukherjee, U., Kumar, R., Mahato, N. K., Khurana, J. P., & Lal, R. (2013). Draft genome sequence of Sphingobium sp. strain HDIPO4, an avid degrader of hexachlorocyclohexane. Genome Announcements, 1(5), e00749-13.
  22. Nayar, S., Sharma, R., Tyagi, A. K., & Kapoor, S. (2013). Functional delineation of rice MADS29 reveals its role in embryo and endosperm development by affecting hormone homeostasis. Journal of Experimental Botany, ert231.
  23. Niharika, N., Sangwan, N., Ahmad, S., Singh, P., Khurana, J. P., & Lal, R. (2013). Draft genome sequence of Sphingobium chinhatense strain IP26T, isolated from a hexachlorocyclohexane dumpsite. Genome Announcements, 1(4), e00680-13.
  24. Sarkar, N. K., Kundnani, P., & Grover, A. (2013). Functional analysis of Hsp70 superfamily proteins of rice (Oryza sativa). Cell Stress and Chaperones, 18(4), 427-437.
  25. Sarkar, N. K., Thapar, U., Kundnani, P., Panwar, P., & Grover, A. (2013). Functional relevance of J-protein family of rice (Oryza sativa). Cell Stress and Chaperones, 18(3), 321-331.
  26. Saxena, A., Nayyar, N., Sangwan, N., Kumari, R., Khurana, J. P., & Lal, R. (2013). Genome sequence of Novosphingobium lindaniclasticum LE124T, isolated from a hexachlorocyclohexane dumpsite. Genome Announcements, 1(5), e00715-13.
  27. Shankar, A., Singh, A., Kanwar, P., Srivastava, A. K., Pandey, A., Suprasanna, P., & Pandey, G. K. (2013). Gene expression analysis of rice seedling under potassium deprivation reveals major changes in metabolism and signaling components. PLoS One, 8(7), e70321.
  28. Sharma, M., Pandey, A., & Pandey, G.K. (2013). Role of Plant U-BOX (PUB) Protein in Stress and Development. Plant Stress, 7(1), 1-9.
  29. Shanmugam, T., Sharma, M., Pandey, A., & Pandey, G. K. (2013). Small GTPases: Rho of plant (ROP) in development and stress signaling. Stress-Mediated Signaling in Plants II, Plant Stress, 7, 10-15.
  30. Shanker, A., Pandey, A., & Pandey, G.K. (2013). WRKY Transcription Factor: Role in Abiotic and Biotic Stress. Plant Stress,7(1), 26-34.
  31. Singh, A., Sangwan, N., Sharma, A., Gupta, V., Khurana, J.P., & Lal, R. (2013). Draft genome sequence of Sphingobium quisquiliarum P25T, a novel hexachlorocylohexane (HCH) degrading bacterium isolated from the HCH dumpsite. Genome Announcement, 1(5), e00717-13.
  32. Singh, A., Kanwar, P., Yadav, A. K., Mishra, M., Jha, S. K., Baranwal, V., & Pandey, G. K. (2014). Genome‐wide expressional and functional analysis of calcium transport elements during abiotic stress and development in rice. The FEBS Journal, 281(3), 894-915.
  33. Singh, B., Chauhan, H., Khurana, J. P., Khurana, P., & Singh, P. (2013). Evidence for the role of wheat eukaryotic translation initiation factor 3 subunit g (TaeIF3g) in abiotic stress tolerance. Gene, 532(2), 177-185.
  34. Singh, R. K., Jena, S. N., Khan, S., Yadav, S., Banarjee, N., Raghuvanshi, S., & Swapna, M. (2013). Development, cross-species/genera transferability of novel EST-SSR markers and their utility in revealing population structure and genetic diversity in sugarcane. Gene, 524(2), 309-329.

2012

  1. Anand, S., Sangwan, N., Lata, P., Kaur, J., Dua, A., Singh, A. K., & Mathur, S. (2012). Genome sequence of Sphingobium indicum B90A, a hexachlorocyclohexane-degrading bacterium. Journal of Bacteriology, 194(16), 4471-4472.
  2. Bhasin, H., Bhatia, D., Raghuvanshi, S., Lore, J. S., Sahi, G. K., Kaur, B., & Singh, K. (2012). New PCR-based sequence-tagged site marker for bacterial blight resistance gene Xa38 of rice. Molecular Breeding, 30(1), 607-611.
  3. Baranwal, V. K., Mikkilineni, V., Zehr, U. B., Tyagi, A. K., & Kapoor, S. (2012). Heterosis: emerging ideas about hybrid vigour. Journal of Experimental Botany, 63(18), 6309-6314.
  4. Borah, B. K., & Dasgupta, I. (2012). Begomovirus research in India: A critical appraisal and the way ahead. Journal of Biosciences, 37(4), 791-806.
  5. Borah, B. K., & Dasgupta, I. (2012). PCR-RFLP analysis indicates that recombination might be a common occurrence among the cassava infecting begomoviruses in India. Virus Genes, 45(2), 327-332.
  6. Chauhan, H., Khurana, N., Nijhavan, A., Khurana, J. P., & Khurana, P. (2012). The wheat chloroplastic small heat shock protein (sHSP26) is involved in seed maturation and germination and imparts tolerance to heat stress. Plant, cell & Environment, 35(11), 1912-1931.
  7. Checker, V. G., Chhibbar, A. K., & Khurana, P. (2012). Stress-inducible expression of barley Hva1 gene in transgenic mulberry displays enhanced tolerance against drought, salinity and cold stress. Transgenic Research, 21(5), 939-957.
  8. Dwivedi, V., Sangwan, N., Nigam, A., Garg, N., Niharika, N., Khurana, P., & Lal, R. (2012). Draft genome sequence of Thermus sp. strain RL, isolated from a hot water spring located atop the Himalayan ranges at Manikaran, India. Journal of Bacteriology, 194(13), 3534-3534.
  9. Johnson, A. A., Borah, B. K., Gopal, D. S., & Dasgupta, I. (2012). Analysis of full-length sequences of two Citrus yellow mosaic badnavirus isolates infecting Citrus jambhiri (Rough Lemon) and Citrus sinensis L. Osbeck (Sweet Orange) from a nursery in India. Virus Genes, 45(3), 600-605.
  10. Khurana, R., Kathuria, H., Mukhopadhyay, A., Kapoor, S., & Tyagi, A. K. (2013). A 286 bp upstream regulatory region of a rice anther-specific gene, OSIPP3, confers pollen-specific expression in Arabidopsis. Biotechnology Letters, 35(3), 455-462.
  11. Kumar, R., Agarwal, P., Tyagi, A. K., & Sharma, A. K. (2012). Genome-wide investigation and expression analysis suggest diverse roles of auxin-responsive GH3 genes during development and response to different stimuli in tomato (Solanum lycopersicum). Molecular Genetics and Genomics, 287(3), 221-235.
  12. Kumar, R., Sharma, M. K., Kapoor, S., Tyagi, A. K., & Sharma, A. K. (2012). Transcriptome analysis of rin mutant fruit and in silico analysis of promoters of differentially regulated genes provides insight into LeMADS-RIN-regulated ethylene-dependent as well as ethylene-independent aspects of ripening in tomato. Molecular Genetics and Genomics, 287(3), 189-203.
  13. Kumar, S., Kateriya, S., Singh, V. S., Tanwar, M., Agarwal, S., Singh, H., & Tripathi, A. K. (2012). Bacteriophytochrome controls carotenoid-independent response to photodynamic stress in a non-photosynthetic rhizobacterium, Azospirillum brasilense Sp7. Scientific Reports, 2, 872.
  14. Malik, G., Dangwal, M., Kapoor, S., & Kapoor, M. (2012). Role of DNA methylation in growth and differentiation in Physcomitrella patens and characterization of cytosine DNA methyltransferases. The FEBS Journal, 279(21), 4081-4094.
  15. Malhotra, J., Dua, A., Saxena, A., Sangwan, N., Mukherjee, U., Pandey, N., & Lal, R. (2012). Genome sequence of Acinetobacter sp. strain HA, isolated from the gut of the polyphagous insect pest Helicoverpa armigera. Journal of Bacteriology, 194(18), 5156-5156.
  16. Mathur, S., & Dasgupta, I. (2013). Further support of genetic conservation in Indian isolates of Ricetungrobacilliformvirus by sequence analysis of an isolate from North–Western India. Virus Genes, 46(2), 387-391.
  17. Mittal, D., Madhyastha, D. A., & Grover, A. (2012). Gene expression analysis in response to low and high temperature and oxidative stresses in rice: combination of stresses evokes different transcriptional changes as against stresses applied individually. Plant Science, 197, 102-113.
  18. Mittal, D., Madhyastha, D. A., & Grover, A. (2012). Genome-wide transcriptional profiles during temperature and oxidative stress reveal coordinated expression patterns and overlapping regulons in rice. PloS One, 7(7), e40899.
  19. Pandey, A.K., & Pandey, G.K.  (2012). Calcium Homeostasis: Role of CAXs Transporters in Plant Signaling. Plant Stress, 6(1), 60-69.
  20. Ray, S., Kapoor, S., & Tyagi, A. K. (2012). Analysis of transcriptional and upstream regulatory sequence activity of two environmental stress-inducible genes, NBS-Str1 and BLEC-Str8, of rice. Transgenic Research, 21(2), 351-366.
  21. Saini, V., Raghuvanshi, S., Khurana, J. P., Ahmed, N., Hasnain, S. E., Tyagi, A. K., & Tyagi, A. K. (2012). Massive gene acquisitions in Mycobacterium indicus pranii provide a perspective on mycobacterial evolution. Nucleic Acids Research, 40(21), 10832-10850.
  22. Sangwan, N., Lata, P., Dwivedi, V., Singh, A., Niharika, N., Kaur, J., & Lal, D. (2012). Comparative metagenomic analysis of soil microbial communities across three hexachlorocyclohexane contamination levels. PLoS One, 7(9), e46219.
  23. Sharma, R., Agarwal, P., Ray, S., Deveshwar, P., Sharma, P., Sharma, N., & Khurana, J. P. (2012). Expression dynamics of metabolic and regulatory components across stages of panicle and seed development in indica rice. Functional & Integrative Genomics, 12(2), 229-248.
  24. Sharma, S., & Dasgupta, I. (2012). Development of SYBR Green I based real-time PCR assays for quantitative detection of Rice tungro bacilliform virus and Rice tungro spherical virus. Journal of Virological Methods, 181(1), 86-92.
  25. Singh, A., & Pandey, G. K. (2012). Protein phosphatases: a genomic outlook to understand their function in plants. Journal of Plant Biochemistry and Biotechnology, 21(1), 100-107.
  26. Singh, A., Pandey, A., & Pandey, G. K. (2012). Phospholipase D in stress activated lipid signaling in plants. Plant Stress., 6, 10-17.
  27. Singh, A., Pandey, A., Baranwal, V., Kapoor, S., & Pandey, G. K. (2012). Comprehensive expression analysis of rice phospholipase D gene family during abiotic stresses and development. Plant Signaling & Behavior, 7(7), 847-855.
  28. Singh, A., Mittal, D., Lavania, D., Agarwal, M., Mishra, R. C., & Grover, A. (2012). OsHsfA2c and OsHsfB4b are involved in the transcriptional regulation of cytoplasmic OsClpB (Hsp100) gene in rice (Oryza sativa L.). Cell Stress and Chaperones, 17(2), 243-254.
  29. Tomato Genome Consortium. (2012). The tomato genome sequence provides insights into fleshy fruit evolution. Nature, 485(7400), 635-641.
  30. Verma, V., Sharma, S., Devi, S. V., Rajasubramaniam, S., & Dasgupta, I. (2012). Delay in virus accumulation and low virus transmission from transgenic rice plants expressing Rice tungro spherical virus RNA. Virus Genes, 45(2), 350-359.
  31. Yadav, A.K., Pandey, A., & Pandey, G.K. (2012). Calcium Homeostasis: Role of CAXs Transporters in Plant Signaling. Plant Stress, 6(1), 60-69.