The complete chloroplast genome of tropical and sub-tropical fruit tree Lucuma nervosa (Sapotaceae)

Abstract

The Lucuma nervosa, native to Western Ghats of India, Malaysia and southeastern Asia, is a tree member of the mulberry family (Sapotaceae). Chloroplast genome sequences play an significant role in the development of molecular markers in plant phylogenetic and population genetic studies. In this study, we report the complete chloroplast genome sequence of L. nervosa for the first time. The chloroplast genome is 157,920 bp long and includes 113 genes. Its LSC, SSC, and IR regions are 88,123, 18,861, and 25,468 bp long, respectively. Phylogenetic tree analysis exhibited that L. nervosa was clustered with other Sapotaceae species with high bootstrap values.

Complete Chloroplast Genome of Argania spinosa: Structural Organization and Phylogenetic Relationships in Sapotaceae

“…The A. spinosa genome consists of a circular molecule measuring 158,848 bp in length, with 36.9% GC content, which is consistent with other sequenced cp genomes of the Sapotaceae family, whose plastome GC content was 36.8% and 38.9% for P. campechiana and S. wightianum , respectively. The whole genome alignment to the cp reference and the dot plot of the genome sequence confirmed the quadripartite structure found in most chloroplast genomes of plants [ 12 , 14 , 15 , 21 , 22 ] ( Figure 1 ). The genome has an inverted repeat (IR) region 25,945 bp in length, a large single-copy (LSC) region of 88,367 bp, and a small single-copy (SSC) region of 18,591 bp.…”

“…During the last two decades, the advent of next-generation sequencing (NGS) technologies has accelerated the pace of deciphering the chloroplast (cp) genomes of many plant species; presently, 3949 land plant cp genomes have been deposited in GenBank Organelle Genome Resources (accessed on 25 June 2020). This photosynthetic organelle provides essential energy for plants and algae and represents a valuable resource for exploring intra- and inter-specific evolutionary histories of land plants [ 11 , 12 , 13 , 14 , 15 ]. In addition, due to their several characteristics such as small length, simple structure, maternal inheritance characters, conserved sequences, and very low level of recombination [ 16 ], the chloroplast genomes are commonly used for studies of plant evolution, phylogeny, and traceability [ 17 , 18 ].…”

Single-Molecule Real-Time Sequencing of the Madhuca pasquieri (Dubard) Lam. Transcriptome Reveals the Diversity of Full-Length Transcripts

“…For example, in coffee (Coffea arabica) bean, a Nr-annotated tobacco species was much larger than that of Coffea canephora (1,746,308 versus 142,656 hits; maximum 50 hits per sequence) [63]. This is not unexpected, since there is no available genomic and transcriptomic information for M. pasquieri or a comprehensive genomic resource for Sapotaceae, only the genome of Argania spinosa has been reported [64], so as the plastome sequence of Pouteria campechiana (Kunth) Baehni [65], Manilkara zapota (L.) P.Royen [66], and chloroplast genome of Lucuma nervosa [67], Vitellaria paradoxa, and Sideroxylon wightianum [68]. Since studies on M. pasquieri remain in their infancy, and information available from other plants is relatively limited, further research is needed.…”

The first complete plastome of Mimusops coriacea (A. DC.) Miq. (Sapotaceae)

“…Thus, the development of tools that allow us to address phylogenetic relationships and clarify generic limits is extremely important for Sapotaceae. To our knowledge, there are published plastomes from only six genera in the family (Jo et al, 2016, Khayi et al, 2020, Liu et al, 2019, Niu et al, 2018, 2020, Tao et al, 2021. Therefore, we present the first complete plastome for a species of the genus Mimusops.…”