Rice Genomics and Genetics 2015, Vol.6, No.1, 1-8
5
B
Figure 2 Jalview of muscle multiple sequence alignment tool (www. ebi.ac.uk/ Tools/msa/ muscle/) based on nucleotide sequences of
10 aromatic rice cultivars and its wild relatives along with grasses progenitors.
Note: A: Colored boxes in the MSA indicate the substitution nucleotide changes in aromatic rice cultivars; B: Red colored boxes
indicates deletion of nucleotides with respect to its progenitors.
Oryza nivara
was the possible ancestor of
Oryza
sativa
indica and japonica group. The maximum
bootstrap value 99 was calculated for Cluster-II
including
Oryza ridleyi
and
Oryza longiglumis
which indicates the correctness of topology and
minimum bootstrap value 1 was estimated for
Oryza
rufipogal
which indicated the interior branch.
In the conclusion, this study indicates that the
patterns and types of nucleotide substitutions,
insertion and deletion in the
matK
gene are most
comprehensive phylogenetic analysis using molecular
