Data from: Ledebouria mavelii (Asparagaceae), a new species from Palakkad gap, Kerala, India

V., Ambika1; Kalathil Sethumadhavan, Abhilash1; Philip, Alen1; Jose, Sojan1; V., Suresh 1

Published Nov 27, 2024 on Dryad. https://doi.org/10.5061/dryad.p8cz8wb15

Data files

Nov 27, 2024 version files 6.04 KB

Abstract

Ledebouria mavelii, a new species from Asparagaceae, is described and compared with L. hyderabadensis, L. karnatakensis, and L. revoluta. L. mavelii is confined to Palakkad District, Kerala. Detailed description, distribution, phenology, photographs, and key to Ledebouria species in India are provided. A phylogenetic analysis was conducted using sequences of two plastid genes, the maturase-coding gene (matK) and the large subunit of ribulose 1,5-bisphosphate carboxylase-coding gene (rbcL) as DNA markers. The phylogenetic trees constructed from matK and rbcL data successfully distinguished each species from one another.

https://doi.org/10.5061/dryad.p8cz8wb15

Description of the data and file structure

We conducted Sanger sequencing on Ledebouri sp. nov., a newly discovered plant species from Palakkad, to obtain its DNA sequence data. Leaf samples were collected from specimens in their natural habitat. Genomic DNA was extracted using standard molecular biology protocols. Specific gene regions were amplified via PCR and sequenced to aid in the taxonomic classification and phylogenetic analysis of this new species.

Files and variables

File: SR3781-MATKF_E07.fsta

Description: Maturase Kinase - Forward of Ledebouria sp nov

File: SR3781-MATKR_E08.fsta

Description: Maturase Kinase - Reverse of Ledebouria sp nov

File: SR3781-RBCLF_F07.fsta

Description: rbcL forwared of Ledebouria sp nov

File: SR3781-RBCLR_F08.fsta

Description: rbcL reverse of Ledebouria sp nov

Code/software

The dataset consists of four FASTA files containing DNA sequences obtained from Sanger sequencing of Ledebouri sp. nov. These files can be accessed and analyzed using the following free or open-source software:

Text Editors (for Viewing):
- Notepad++ (Version 7.9.5)
  - Description: A free source code editor that supports several languages and is suitable for viewing and editing plain text files, including FASTA files.
  - Download Link: Notepad++
  - Dependencies: Windows OS.
- Sublime Text (Version 3.2.2)
  - Description: A sophisticated text editor for code, markup, and prose.
  - Download Link: Sublime Text
  - Dependencies: Cross-platform (Windows, macOS, Linux).
Bioinformatics Software (for Analysis):
- MEGA X (Version 10.2.6)
  - Description: MEGA X (Molecular Evolutionary Genetics Analysis) is an integrated tool for conducting sequence alignment and phylogenetic analysis.
  - Download Link: MEGA Software
  - Dependencies: None.
- BioEdit (Version 7.2.6)
  - Description: A user-friendly biological sequence alignment editor with numerous functions for sequence manipulation and analysis.
  - Download Link: BioEdit
  - Dependencies: Windows OS.
- UGENE (Version 38.1)
  - Description: An open-source cross-platform bioinformatics software for molecular biologists.
  - Download Link: UGENE
  - Dependencies: None.

Access information

Other publicly accessible locations of the data:

Data was derived from the following sources: