Articles
MangoBase: bioinformatics tools for mango research
Article number
1415_27
Pages
229 – 236
Language
English
Abstract
Mangoes are delicious fruits with great nutritional value, and one of the main fruit crops worldwide in terms of production, being cultivated in more than 100 countries.
Recently, the genomes of several mango (Mangifera indica L.) cultivars and Mangifera species, such as M. altissima and M. odorata have been sequenced.
However, there was no bioinformatics platform dedicated to mango genomics to access and study these data.
Here, we present MangoBase (https://mangobase.org/
), a web portal, which provides multiple interactive bioinformatics tools, sequences, and annotations to analyze, visualize and download omics data related to mango.
MangoBase includes bioinformatics tools such as BLAST, genome browser, annotation and gene ID search, gene list sequence downloading, gene list annotation extraction, gene set enrichment, and gene ID lookup.
Additionally, a gene expression atlas with 12 data sets and 80 experiments representing some of the most significant mango RNA-seq experiments published to this date is available.
These experiments are related to mango fruit ripening in several cultivars with different pulp firmness and sweetness or peel coloration, to postharvest hot water treatment, infection with Colletotrichum gloeosporioides, and to the main mango tree organ tissues.
Recently, the genomes of several mango (Mangifera indica L.) cultivars and Mangifera species, such as M. altissima and M. odorata have been sequenced.
However, there was no bioinformatics platform dedicated to mango genomics to access and study these data.
Here, we present MangoBase (https://mangobase.org/
), a web portal, which provides multiple interactive bioinformatics tools, sequences, and annotations to analyze, visualize and download omics data related to mango.
MangoBase includes bioinformatics tools such as BLAST, genome browser, annotation and gene ID search, gene list sequence downloading, gene list annotation extraction, gene set enrichment, and gene ID lookup.
Additionally, a gene expression atlas with 12 data sets and 80 experiments representing some of the most significant mango RNA-seq experiments published to this date is available.
These experiments are related to mango fruit ripening in several cultivars with different pulp firmness and sweetness or peel coloration, to postharvest hot water treatment, infection with Colletotrichum gloeosporioides, and to the main mango tree organ tissues.
Publication
Authors
N. Fernandez-Pozo, A. Gómez-Ollé, A. Bullones, L.A. Mueller, J.I. Hormaza
Keywords
genomics, gene expression, RNA-seq, software, database, fruit ripening
Groups involved
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