Abstract:
Farsetia is a complex genus of medicinal relevance from clade C of the Brassicaceae family that grows in the desert. On NCBI (National Center for Biotechnology Information), there is just one full chloroplast genome for Farsetia occidentalis, which is unsatisfactory to address taxonomic difficulties at the species level. We published the whole cp genome sequence of Farsetia hamiltonii Royle MT884003 (154802 bp) from the Cholistan desert in Punjab, Pakistan, and compared it to Farsetia occidentalis (MK637823). We sequenced the chloroplast genome using NGS, assembled it using NOVOplasty, annotated it using Geneious Prime 2021.1.1, and then ran a number of bioinformatics analyses. A large single copy, a small single copy, and a pair of inverted repetitions make up the quadripartite arrangement of the both genomes. Genome length, gene synteny, GC content, synonymous and non-synonymous substitutions, codon use, amino acid frequencies, RNA editing sites, microsatellites, and oligonucleotide repeats were all quite similar in Farsetia hamiltonii Royle and Farsetia occidentalis cp. The ratio of transition to transversion was less than 1. Farsetia was shown to be a monophyletic genus with 96 percent similarity to the genus Parolinia in the maximum likelihood tree formed in IQtree. We also identified 20 highly polymorphic regions with the help of DnaSP including trnH-CAC-psbA, rpl32-trnL-CUA, rps8-rpl14, rps16-trnQ-CAA, psbA-trnK-AAA, rpoB-trnC-UGC, trnR-AGA-atpA, trnS-AGC-trnG-GGA, petN-psbM, clpP intron2 and 10 more that might be utilized to provide reliable and affordable markers for resolving taxonomic differences and inferring evolutionary connections among Farsetia species.
Page(s):
69-69
DOI:
DOI not available
Published:
Journal: Abstract Book on Global Science Technology and Management Conference, Volume: 0, Issue: 0, Year: 2023
Keywords:
Transition
,
Transversion
,
Farsetia hamiltonii
,
Synonymous substitutions
,
Farsetia occidentalis