First complete chloroplast genomics and comparative phylogenetic analysis of Commiphora gileadensis and C. foliacea: Myrrh producing trees

Autor: Noor Mazin Abdulkareem, Zabta Khan Shinwari, Ahmed Al-Rawahi, Tariq Shehzad, Arif Ullah Khan, Ali H. Al-Lawati, Sajjad Asaf, Adil Khan, Omar Al-Sudairy, Abdul Latif Khan, Nadiya A. Al-Saady, Ahmed Al-Harrasi
Rok vydání: 2018
Předmět:
0106 biological sciences
0301 basic medicine
Phytochemicals
Gene Dosage
Plant Genomes
Plant Science
Plant Genetics
01 natural sciences
Genome
Trees
Database and Informatics Methods
Intergenic region
Plant Genomics
Plastids
Commiphora
Phylogeny
Flowering Plants
Data Management
Multidisciplinary
Chromosome Mapping
Eukaryota
Commiphora gileadensis
Phylogenetic Analysis
Exons
Genomics
Plants
Phylogenetics
Chloroplast DNA
Medicine
Engineering and Technology
Sequence Analysis
Research Article
Biotechnology
Computer and Information Sciences
Bioinformatics
Science
Bioengineering
Biology
Genes
Plant
Genome Complexity
Research and Analysis Methods
010603 evolutionary biology
Polymorphism
Single Nucleotide
03 medical and health sciences
Tandem repeat
Genomic Medicine
Chloroplast Genome
Genetics
Evolutionary Systematics
Genome
Chloroplast
Taxonomy
Comparative genomics
Evolutionary Biology
Inverted Repeat Sequences
Organisms
Biology and Life Sciences
Computational Biology
Comparative Genomics
biology.organism_classification
Introns
Boswellia sacra
030104 developmental biology
Evolutionary biology
Genomic Structural Variation
Plant Biotechnology
Microsatellite Repeats
Zdroj: PLoS ONE
PLoS ONE, Vol 14, Iss 1, p e0208511 (2019)
ISSN: 1932-6203
Popis: Commiphora gileadensis and C. foliacea (family Burseraceae) are pantropical in nature and known for producing fragrant resin (myrrh). Both the tree species are economically and medicinally important however, least genomic understanding is available for this genus. Herein, we report the complete chloroplast genome sequences of C. gileadensis and C. foliacea and comparative analysis with related species (C. wightii and Boswellia sacra). A modified chloroplast DNA extraction method was adopted, followed with next generation sequencing, detailed bioinformatics and PCR analyses. The results revealed that the cp genome sizes of C. gileadensis and C. foliacea, are 160,268 and 160,249 bp, respectively, with classic quadripartite structures that comprises of inverted repeat’s pair. Overall, the organization of these cp genomes, GC contents, gene order, and codon usage were comparable to other cp genomes in angiosperm. Approximately, 198 and 175 perfect simple sequence repeats were detected in C. gileadensis and C. foliacea genomes, respectively. Similarly, 30 and 25 palindromic, 15 and 25 forward, and 20 and 25 tandem repeats were determined in both the cp genomes, respectively. Comparison of these complete cp genomes with C. wightii and B. sacra revealed significant sequence resemblance and comparatively highest deviation in intergenic spacers. The phylo-genomic comparison showed that C. gileadensis and C. foliacea form a single clade with previously reported C. wightii and B. sacra from family Burseraceae. Current study reports for the first time the cp genomics of species from Commiphora, which could be helpful in understanding genetic diversity and phylogeny of this myrrh producing species.
Databáze: OpenAIRE
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