RT Journal
T1 PHYLOGENETIC RELATIONSHIP AMONG SELECTED SPECIES OF LAMIACEAE INFERRED FROM CHLOROPLAST RPS14 GENE
A1 A. Malik1
A1 T. Shahzad
A1 S. Arif
A1 W. Akhtar
A1 T. Mahmood
JF Journal of Animal and Plant Sciences
JO JAPS
SN 1018-7081
VO 31
IS 4
SP 1060
OP 1069
YR 2020
FD 2020/12/18
DO DOI https://doi.org/10.36899/JAPS.2021.4.0303
AB <p>The&nbsp;<em>Lamiaceae</em>&nbsp;is commonly known as Mint family of order Lamiales. The present study was conducted for assessment of genetic diversity, phylogeny of&nbsp;<em>Lamiaceae&nbsp;</em>based on&nbsp;<em>rps</em>14 gene and validation of&nbsp;<em>rps</em>14 protein by Ramachandran plots. The&nbsp;<em>rps</em>14 gene was amplified and sequence analyzed through MEGA7, I-TASSER and RAMPAGE. The phylogram revealed genetic distance (number of base substitutions per site) of 0.0100 among&nbsp;<em>Lamiaceae</em>&nbsp;species. In Pairwise distance, the range of genetic diversity was 0.013 to 0.089 with a mean of 0.060.&nbsp;<em>Vitex agnus castus&nbsp;</em>and<em>&nbsp;Vitex trifolia</em>&nbsp;were grouped in same cluster with Bootstrap value of 99 %.&nbsp;<em>Caryopteris odorata&nbsp;</em>revealed close relationship with<em>&nbsp;Volkameria inermis, Clerodendrum</em><em>calamitosum&nbsp;</em>and<em>&nbsp;Clerodendrum indicum&nbsp;</em>in same cluster having BS of 58 %.&nbsp;<em>C. indicum, C. calamitosum&nbsp;</em>and<em>&nbsp;V. inermis</em>&nbsp;showed close relationship in same cluster with BS of 51%. The 3D protein model designed by I-TASSER and its validation by RAMPAGE revealed &le; 2 % amino acid in outlier regions of&nbsp;<em>Gmelina philippensis</em>,&nbsp;<em>Clerodendrum. umbellatum</em>&nbsp;and&nbsp;<em>C. calamitosum</em>. This study concluded close genetic relationship and low genetic diversity that indicated potential of&nbsp;<em>rps</em>14 gene for phylogeny and diversity analysis among&nbsp;<em>Lamiaceae&nbsp;</em>species. The validation of 3D protein models by RAMPAGE showed good protein models. This study highlights the evolutionary relationship, earliest, recent evolution of&nbsp;<em>Lamiaceae&nbsp;</em>species. A very low genetic diversity indicates ex-situ conservation and good protein models in&nbsp;<em>Lamiaceae&nbsp;</em>species.</p>
K1 Lamiaceae, Iterative Threading Assembly Refinement, rps14 gene, Pairwise distance, Genetic diversity
PB Pakistan Agricultural Scientists Forum
LK https://thejaps.org.pk/AbstractView.aspx?mid=AG-20-0072