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Halophytes.tn: an innovative database for Tunisian halophyte plant identification, distribution and characterization.

ABSTRACT: Halophytes.tn (http://halophytes.rnrt.tn/) is a web-based database of Tunisian halophyte species. Halophytes are salt-tolerant plants able to grow above 85 mM of salt, even up to 2 M as for Tecticornia spp. Tunisia, a North African country located on the Mediterranean border, covering ∼165 000 km2, harbors several types of saline habitats and biotopes where halophytes preferably vegetate. With ∼6000 worldwide and over 420 Tunisian species, halophytes represent a huge potential in several fields, including desalination, phytoremediation, agrofarming, medicinal use, industrial applications, pharmacology and even nanotechnology. We describe the practical and technical steps followed and bioinformatics tools used to conceive and design the first Tunisian halophytes database, enabling species identification and characterization. As a first version, information about botany, morphology, ecophysiology and biochemistry were provided for the identified species with their sites of growing in Tunisia, first step of biodiversity conservation, management and valorization. The database will be regularly maintained, updated and enriched to achieve the goal of whole Tunisian halophyte species and fit the needs of scientists and all category of users.Database URL: http://halophytes.rnrt.tn/.

SUBMITTER: Merchaoui H

PROVIDER: S-EPMC9216540 | biostudies-literature | 2022 Mar

REPOSITORIES: biostudies-literature

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Halophytes.tn: an innovative database for Tunisian halophyte plant identification, distribution and characterization.

Merchaoui Henda H Ksouri Riadh R Abdelly Chedly C Hanana Mohsen M

Database : the journal of biological databases and curation 20220301

Halophytes.tn (http://halophytes.rnrt.tn/) is a web-based database of Tunisian halophyte species. Halophytes are salt-tolerant plants able to grow above 85 mM of salt, even up to 2 M as for Tecticornia spp. Tunisia, a North African country located on the Mediterranean border, covering ∼165 000 km2, harbors several types of saline habitats and biotopes where halophytes preferably vegetate. With ∼6000 worldwide and over 420 Tunisian species, halophytes represent a huge potential in several fields, ...[more]

PMID: 35305011

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Project description:The study of salt tolerance mechanisms in halophyte plants can provide valuable information for crop breeding and plant engineering programs. The aim of the present study was to investigate whole transcriptome analysis of Aeluropus littoralis in response to salinity stress (200 and 400 mM NaCl) by de novo RNA-sequencing. To assemble the transcriptome, Trinity v2.4.0 and Bridger tools, were comparatively used with two k-mer sizes (25 and 32 bp). The de novo assembled transcriptome by Bridger (k-mer 32) was chosen as final assembly for subsequent analysis. In general, 103290 transcripts were obtained. The differential expression analysis (log2FC > 1 and FDR < 0.01) showed that 1861 transcripts expressed differentially, including169 up and 316 down-regulated transcripts in 200 mM NaCl treatment and 1035 up and 430 down-regulated transcripts in 400 mM NaCl treatment compared to control. In addition, 89 transcripts were common in both treatments. The most important over-represented terms in the GO analysis of differentially expressed genes (FDR < 0.05) were chitin response, response to abscisic acid, and regulation of jasmonic acid mediated signaling pathway under 400 mM NaCl treatment and cell cycle, cell division, and mitotic cell cycle process under 200 mM treatment. In addition, the phosphatidylcholine biosynthetic process term was common in both salt treatments. Interestingly, under 400 mM salt treatment, the PRC1 complex that contributes to chromatin remodeling was also enriched along with vacuole as a general salinity stress responsive cell component. Among enriched pathways, the MAPK signaling pathway (ko04016) and phytohormone signal transduction (ko04075) were significantly enriched in 400 mM NaCl treatment, whereas DNA replication (ko03032) was the only pathway that significantly enriched in 200 mM NaCl treatment. Finally, our findings indicate the salt-concentration depended responses of A. littoralis, which well-known salinity stress-related pathways are induced in 400 mM NaCl, while less considered pathways, e.g. cell cycle and DNA replication, are highlighted under 200 mM NaCl treatment.

Dataset Information

Halophytes.tn: an innovative database for Tunisian halophyte plant identification, distribution and characterization.

Publications

Halophytes.tn: an innovative database for Tunisian halophyte plant identification, distribution and characterization.

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