International Journal of Marine Science 2016, Vol.6, No.33, 1-7
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3.2 Molecular analyses
In
cox
2-3 spacer, a total of 345 bp were aligned for 11 taxa from GenBank and specimen AS 12. Total of 73 sites
were variable (20.98%) and 72 sites (20.69%) were parsimoniously informative (Table 2). The MP analysis tree
length was 87 and the rescaled consistency index (RC) was 0.93. The sequences differed by up to 68 bp (19.54%)
pairwise distance between
K. striatus
and AS 12 (data not shown).
A total of 1024 bp in ITS region for 9 taxa from GenBank and specimen AS 12 were aligned. About 251 sites
(21%) were variable and 212 sites (20.70%) were parsimoniously informative (Table 2). The MP analysis tree
length was 218 and the RC was 0.98. The sequences differed by up to 161 bp (15.72%) pairwise distance between
E. denticulatum
and AS 12 (data not shown).
In RuBisCo spacer, a total of 259 bp for 10 taxa from GenBank and specimen AS 12 were aligned. A total of 22
sites were variable (8.03%) and 19 sites (6.93%) were parsimoniously informative (Table 2). The MP analysis tree
length was 20 and the RC was 0.91. The sequences differed by up to 13 bp (4.74%) pairwise distance between
E.
denticulatum
and AS 12 (data not shown).
Based on resulting phylogenetic trees inferred from
cox
2-3 spacer (Fig. 4), ITS region (Fig. 5) and RuBisCo
spacer (Fig. 6), the specimen AS 12 was positioned within the
Kappaphycus
clade forming a sister group to the
K.
alvarezii
,
K. striatus
and
K. malesianus
. All the sequences of this specimen based on
cox
2-3 spacer, ITS region
and RuBisCo spacer were deposited in the GenBank nucleotide sequences database with the accession numbers:
JN897022, KC571238 and JX997823.
Fig.4. Phylogenetic tree based on the
cox
2-3 spacer sequences produced by the maximum parsimony method; support from 1000
bootstrap replicates is shown along the branches. Scale bar underneath the tree indicates the number of substitutions per site
