Abstract
Seagrasses and aquatic plants are important clades of higher plants, significant for carbon sequestration and marine ecological restoration. They are valuable in the sense that they allow us to understand how plants have developed traits to adapt to high salinity and photosynthetically challenged environments. Here, we present a large-scale phylogenetically profiled transcriptomics repository covering seagrasses and aquatic plants. SeagrassDB encompasses a total of 1,052,262 unigenes with a minimum and maximum contig length of 8,831 bp and 16,705 bp respectively. SeagrassDB provides access to 34,455 transcription factors, 470,568 PFAM domains, 382,528 prosite models and 482,121 InterPro domains across 9 species. SeagrassDB allows for the comparative gene mining using BLAST-based approaches and subsequent unigenes sequence retrieval with associated features such as expression (FPKM values), gene ontologies, functional assignments, family level classification, Interpro domains, KEGG orthology (KO), transcription factors and prosite information. SeagrassDB is available to the scientific community for exploring the functional genic landscape of seagrass and aquatic plants at: http://115.146.91.129/index.php.
Highlights
Martin Schliep[1], Seagrasses and aquatic plants are important clades of higher plants, significant for carbon sequestration and marine ecological restoration
Climate change associated with rapid increase in global CO2 emissions is a key challenge, which needs to be evaluated for conservation of seagrass meadows and associated rates of carbon sequestration[26,27,28,29]
Several research groups have addressed this issue by developing open-access transcriptomics portals for land plants; these attempts have been limited in marine and aquatic plants, which presents a bottleneck to develop forward genetic approaches to understand the ecological speciation and genetics of marine and aquatic plants
Summary
Martin Schliep[1], Seagrasses and aquatic plants are important clades of higher plants, significant for carbon sequestration and marine ecological restoration They are valuable in the sense that they allow us to understand how plants have developed traits to adapt to high salinity and photosynthetically challenged environments. Acquired traits of evolutionary specialization includes aerenchyma, a dynamic carbonic–carbonate system and efficient photosynthetic systems allowing them to survive in light-limited environments[6] They have exhibit morphological and physiological specific changes such as leaf structure, carbon concentrating mechanisms (CCMs), adaptation to light limitation, submergence, tolerance to high salinity and resisting wave action and tidal currents making them an attractive model system to study in regards to their adaptation to marine environments[4,6]
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