Complete chloroplast genome of Lens lamottei reveals intraspecies variation among with Lens culinaris

Abstract

Lens lamottei is a member of the Fabaceae family and the second gene pool of the genus Lens. The environmental factors that drove the divergence among wild and cultivated species have been studied extensively. Recent research has focused on genomic signatures associated with various phenotypes with the acceleration of next-generation techniques in molecular profiling. Therefore, in this study, we provide the complete sequence of the chloroplast genome sequence in the wild Lens species L. lamottei with a deep coverage of 713 × next-generation sequencing (NGS) data for the first time. Compared to the cultivated species, Lens culinaris, we identified synonymous, and nonsynonymous changes in the protein-coding regions of the genes ndhB, ndhF, ndhH, petA, rpoA, rpoC2, rps3, and ycf2 in L. lamottei. Phylogenetic analysis of chloroplast genomes of various plants under Leguminosae revealed that L. lamottei and L. culinaris are closest to one another than to other species. The complete chloroplast genome of L. lamottei also allowed us to reanalyze previously published transcriptomic data, which showed high levels of gene expression for ATP-synthase, rubisco, and photosystem genes. Overall, this study provides a deeper insight into the diversity of Lens species and the agricultural importance of these plants through their chloroplast genomes.

The first complete chloroplast genome of Thalictrum fargesii: insights into phylogeny and species identification

“…Interestingly, the pafI and rps19 genes in the plastome of T. fargesii exhibited more than 5% variation within the Thalictrum, which was consistent with the findings of Li et al (2014). In addition, the pafI gene contains two mono-type (10 bp each) SSR repeats and a 39-bp forward repeat at one of its introns, similar to the findings elucidated by Kurt et al (2023). With the meaningful characteristic architecture of the IRA-LSC, the distance between the rpl2 and trnH genes was markedly different from that of other species in the genus.…”

“…(2014) . In addition, the pafI gene contains two mono-type (10 bp each) SSR repeats and a 39-bp forward repeat at one of its introns, similar to the findings elucidated by Kurt et al. (2023) .…”