ArticleGenomics, proteomics & bioinformatics2011
Genome-wide comparative in silico analysis of calcium transporters of rice and sorghum.
Article in Genomics, proteomics & bioinformatics, 2011. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 14 papers.
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Who cites it
14 citing papers in PubMed.
- The endoplasmic reticulum-localized CaFrontiers in plant science · 2026Article
- Molecular dissection of connected rice populations revealed important genomic regions for agronomic and biofortification traits.Frontiers in plant science · 2023Article
- Calcium signalling in weeds under herbicide stress: An outlook.Frontiers in plant science · 2023Article
- Genome-Wide Identification and Characterization of Banana CaInternational journal of molecular sciences · 2022Article
- Genome-wide association study reveals the genetic architecture for calcium accumulation in grains of hexaploid wheat (Triticum aestivum L.).BMC plant biology · 2022Article
- Calcium Biofortification of Crops-Challenges and Projected Benefits.Frontiers in plant science · 2021Review
- Molecular characterization and differential expression suggested diverse functions of P-type II CaBMC genomics · 2018Article
- Genome-Wide Identification and Analysis ofGenes · 2018Article
- Genome-Wide Association Study of Calcium Accumulation in Grains of European Wheat Cultivars.Frontiers in plant science · 2017Article
- Rice Improvement Through Genome-Based Functional Analysis and Molecular Breeding in India.Rice (New York, N.Y.) · 2016Article
- Calcium Biofortification: Three Pronged Molecular Approaches for Dissecting Complex Trait of Calcium Nutrition in Finger Millet (Frontiers in plant science · 2016Review
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- In silico analysis of expression data for identification of genes involved in spatial accumulation of calcium in developing seeds of rice.Omics : a journal of integrative biologyArticle
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Authors and funding
5 authors.
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Abstract
The mechanism of calcium uptake, translocation and accumulation in Poaceae has not yet been fully understood. To address this issue, we conducted genome-wide comparative in silico analysis of the calcium (Ca(2+)) transporter gene family of two crop species, rice and sorghum. Gene annotation, identification of upstream cis-acting elements, phylogenetic tree construction and syntenic mapping of the gene family were performed using several bioinformatics tools. A total of 31 Ca(2+) transporters, distributed on 9 out of 12 chromosomes, were predicted from rice genome, while 28 Ca(2+) transporters predicted from sorghum are distributed on all the chromosomes except chromosome 10 (Chr 10). Interestingly, most of the genes on Chr 1 and Chr 3 show an inverse syntenic relationship between rice and sorghum. Multiple sequence alignment and motif analysis of these transporter proteins revealed high conservation between the two species. Phylogenetic tree could very well identify the subclasses of channels, ATPases and exchangers among the gene family. The in silico cis-regulatory element analysis suggested diverse functions associated with light, stress and hormone responsiveness as well as endosperm- and meristem-specific gene expression. Further experiments are warranted to validate the in silico analysis of the predicted transporter gene family and elucidate the functions of Ca(2+) transporters in various biological processes.
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