In silico analysis of onion chitinases using transcriptome data Article Swipe
Rupesh Kumar Mohapatra
,
Satyabrata Nanda
·
YOU?
·
· 2018
· Open Access
·
· DOI: https://doi.org/10.6026/97320630014440
YOU?
·
· 2018
· Open Access
·
· DOI: https://doi.org/10.6026/97320630014440
Chitinases are glycoside hydrolase (GH) family of proteins having multifaceted roles in plants. It is of interest to identify and characterize chitinase-encoding genes from the popular bulbous plant onion (Allium cepa L.). We have used the EST sequences for onion chitinases to elucidate its functional features using sequence, structure and functional analysis. These contigs belong to the GH19 chitinases family according to domain architecture analysis. They have highly conserved chitinase motifs including motifs exclusive to plant chitinases as implied using the MEME based structural characterization. Estimation of biochemical properties suggested that these proteins have features to form stable and hydrophilic proteins capable of localizing extracellular and in vacuoles. Further, they have multiple cellular processes including defense role as inferred by DeepGO function prediction. Phylogenetic analysis grouped them as class I and class VII plant chitinase, with possible abundance of class I chitinase in onion. These observations help in the isolation and functional validation of onion chitinases.
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Metadata
- Type
- article
- Language
- en
- Landing Page
- https://doi.org/10.6026/97320630014440
- http://www.bioinformation.net/014/97320630014440.pdf
- OA Status
- hybrid
- Cited By
- 3
- References
- 22
- Related Works
- 10
- OpenAlex ID
- https://openalex.org/W2896997806
All OpenAlex metadata
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https://openalex.org/W2896997806Canonical identifier for this work in OpenAlex
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In silico analysis of onion chitinases using transcriptome dataWork title
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articleOpenAlex work type
- Language
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enPrimary language
- Publication year
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2018Year of publication
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2018-08-31Full publication date if available
- Authors
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Rupesh Kumar Mohapatra, Satyabrata NandaList of authors in order
- Landing page
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https://doi.org/10.6026/97320630014440Publisher landing page
- PDF URL
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https://www.bioinformation.net/014/97320630014440.pdfDirect link to full text PDF
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YesWhether a free full text is available
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hybridOpen access status per OpenAlex
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https://www.bioinformation.net/014/97320630014440.pdfDirect OA link when available
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Chitinase, In silico, Computational biology, Biology, Glycoside hydrolase, Phylogenetic tree, Sequence alignment, Gene, Proteome, Genetics, Peptide sequenceTop concepts (fields/topics) attached by OpenAlex
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3Total citation count in OpenAlex
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2021: 1, 2020: 1, 2019: 1Per-year citation counts (last 5 years)
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10Other works algorithmically related by OpenAlex
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| citation_normalized_percentile.is_in_top_10_percent | False |