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Kumar A, Sharma M, Gahlaut V, Nagaraju M, Chaudhary S, Kumar A, Tyagi P, Gajula MP, Singh KP. Genome-wide identification, characterization, and expression profiling of SPX gene family in wheat. Int J Biol Macromol 2019; 140:17-32. [DOI: 10.1016/j.ijbiomac.2019.08.105] [Citation(s) in RCA: 21] [Impact Index Per Article: 4.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/11/2019] [Revised: 08/12/2019] [Accepted: 08/12/2019] [Indexed: 01/11/2023]
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Kumar A, Pandeya A, Malik G, Sharma M, P. HK, S. AK, Gahlaut V, Gajula MP, Singh KP, Suravajhala P, Balyan HS, Gupta PK. ---A web resource for nutrient use efficiency-related genes, quantitative trait loci and microRNAs in important cereals and model plants. F1000Res 2018; 7:ISCB Comm J-673. [PMID: 30135718 PMCID: PMC6073097 DOI: 10.12688/f1000research.14561.1] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Accepted: 05/22/2018] [Indexed: 11/20/2022] Open
Abstract
Cereals are key contributors to global food security. Genes involved in the uptake (transport), assimilation and utilization of macro- and micronutrients are responsible for the presence of these nutrients in grain and straw. Although many genomic databases for cereals are available, there is currently no cohesive web resource of manually curated nutrient use efficiency (NtUE)-related genes and quantitative trait loci (QTLs). In this study, we present a web-resource containing information on NtUE-related genes/QTLs and the corresponding available microRNAs for some of these genes in four major cereal crops (wheat ( Triticum aestivum), rice ( Oryza sativa), maize ( Zea mays), barley ( Hordeum vulgare)), two alien species related to wheat ( Triticum urartu and Aegilops tauschii), and two model species ( Brachypodium distachyon and Arabidopsis thaliana). Gene annotations integrated in the current web resource were manually curated from the existing databases and the available literature. The primary goal of developing this web resource is to provide descriptions of the NtUE-related genes and their functional annotation. MicroRNAs targeting some of the NtUE related genes and the QTLs for NtUE-related traits are also included. The genomic information embedded in the web resource should help users to search for the desired information.
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Affiliation(s)
- Anuj Kumar
- Advanced Centre for Computational and Applied Biotechnology, Uttarakhand Council for Biotechnology (UCB), Dehradun, Uttarakhand, 248007, India
| | - Ajay Pandeya
- Department of Biotechnology, Graphic Era University, Dehradun, Uttarakhand, 248002, India
| | - Girik Malik
- Bioclues.org, Hyderabad, 500072, India
- Labrynthe, New Delhi, India
| | - Mansi Sharma
- Bioinformatics Laboratory, Institute of Cytology and Preventative Oncology, Noida, 201301, India
| | - Hima Kumari P.
- Department of Genetics, Osmania University, Hyderabad, Telengana, 500007, India
| | - Anil Kumar S.
- Department of Genetics, Osmania University, Hyderabad, Telengana, 500007, India
| | - Vijay Gahlaut
- Department of Genetics and Plant Breeding, Chaudhary Charan Singh University, Meerut, Uttar Pradesh, 250004, India
| | - M.N.V. Prasad Gajula
- Institute of Biotechnology, Professor Jayashankar Telangana State Agricultural University, Rajendranagar , Telangana, 500030, India
| | - Krishna Pal Singh
- Advanced Centre for Computational and Applied Biotechnology, Uttarakhand Council for Biotechnology (UCB), Dehradun, Uttarakhand, 248007, India
| | - Prashanth Suravajhala
- Bioclues.org, Hyderabad, 500072, India
- Department of Biotechnology and Bioinformatics, Birla Institute of Technology & Science, Jaipur, Rajasthan, 302001, India
| | - Harindra Singh Balyan
- Department of Genetics and Plant Breeding, Chaudhary Charan Singh University, Meerut, Uttar Pradesh, 250004, India
| | - Pushpendra K. Gupta
- Department of Genetics and Plant Breeding, Chaudhary Charan Singh University, Meerut, Uttar Pradesh, 250004, India
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Kumar A, Kumar S, Kumar U, Suravajhala P, Gajula MP. Functional and structural insights into novel DREB1A transcription factors in common wheat (Triticum aestivum L.): A molecular modeling approach. Comput Biol Chem 2016; 64:217-226. [DOI: 10.1016/j.compbiolchem.2016.07.008] [Citation(s) in RCA: 16] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/26/2016] [Revised: 06/23/2016] [Accepted: 07/17/2016] [Indexed: 10/21/2022]
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