Academic Journal
Shotgun metagenomic dataset of leaf endophytic microbiome of the garden sage (Salvia officinalis L.).
| Title: | Shotgun metagenomic dataset of leaf endophytic microbiome of the garden sage (Salvia officinalis L.). |
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| Authors: | Palanisamy M; Plant Genetic Engineering Laboratory, Department of Biotechnology, Bharathiar University, Coimbatore, Tamil Nadu, 641046, India., Babalola OO; Food Security and Safety Focus Area, Faculty of Natural and Agricultural Sciences, North-West University, Mmabatho, 2735, South Africa., Ramalingam S; Plant Genetic Engineering Laboratory, Department of Biotechnology, Bharathiar University, Coimbatore, Tamil Nadu, 641046, India. rsathish@buc.edu.in. |
| Source: | BMC genomic data [BMC Genom Data] 2026 May 06; Vol. 27 (1). Date of Electronic Publication: 2026 May 06. |
| Publication Type: | Journal Article |
| Language: | English |
| Journal Info: | Publisher: BioMed Central Country of Publication: England NLM ID: 101775394 Publication Model: Electronic Cited Medium: Internet ISSN: 2730-6844 (Electronic) Linking ISSN: 27306844 NLM ISO Abbreviation: BMC Genom Data Subsets: MEDLINE |
| Imprint Name(s): | Original Publication: London : BioMed Central, [2021]- |
| MeSH Terms: | Salvia officinalis*/microbiology , Salvia officinalis*/genetics , Plant Leaves*/microbiology , Endophytes*/genetics , Microbiota* , Metagenomics* , Metagenome*, Bacteria/genetics ; Bacteria/classification ; Shotgun Sequencing |
| Abstract: | Objectives: Garden sage (Salvia officinalis L.) is a traditional medicinal plant known for its rich bioactive secondary metabolites. However, there is limited information about the diversity of endophytic microbial communities, including bacteria, fungi, archaea, and viruses. Therefore, the study employs shotgun metagenomics to generate and make publicly available a dataset representing the leaf endophytic microbiome of Salvia officinalis. Data Description: Metagenomic DNA was extracted from leaves of S. officinalis collected as three biological replicates and sequenced using the Illumina NovaSeq X platform. Host-derived and contaminant sequences were removed by mapping reads to the S. officinalis reference genome using BWA-MEM. The resulting high-quality FASTQ files were analyzed to characterize the taxonomic composition of the endophytic microbiome using Kraken2-based classification. (© 2026. The Author(s).) |
| Competing Interests: | Declarations. Ethics approval and consent to participate: Not applicable. Consent for publication: Not applicable. Competing interests: The authors declare no competing interests. |
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| Grant Information: | CMRG2400927 Chief Minister`s Research Grant (CMRG), Government of Tamil Nadu, India |
| Contributed Indexing: | Keywords: Salvia officinalis; Endophytic microbiome; Plant-microbe interactions; Shotgun metagenome sequencing; Taxonomic profiling |
| Molecular Sequence: | BioProject National Cancer Institute |
| Entry Date(s): | Date Created: 20260507 Date Completed: 20260716 Latest Revision: 20260716 |
| Update Code: | 20260716 |
| PubMed Central ID: | PMC13154648 |
| DOI: | 10.1186/s12863-026-01428-4 |
| PMID: | 42092753 |
| Database: | MEDLINE |
| ISSN: | 2730-6844 |
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| DOI: | 10.1186/s12863-026-01428-4 |