Cytochrome Oxidase Subunit I Gene Based Phylogenetic Description of Common Mormon Butterfly Papilio polytes (Lepidoptera: Papilionidae)

Abstract

Lepidoptera is one of the largest orders of insects that include moths and butterflies. Most of the lepidopterans are morphologically similar, therefore the identification of these insect are tedious using morphotaxonomy and that is detrimental in designing a better strategy to control and conserve them. These are an extremely important group of 'model' organisms used to investigate many areas of biological research, including such diverse fields as navigation, pest control, embryology, mimicry, evolution, genetics, population dynamics and biodiversity conservation. Knowledge of lepidopteran genomics will create new methods of insect pest management and will contribute to sustainable agriculture, protection of the environment and the maintenance of biodiversity. In this study we have amplified cytochrome oxidase I gene of Papilio polytes for species identification and constructed phylogenetic tree for recognizing evolutionary relationship.

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International Journal of Science and Research (IJSR)
ISSN (Online): 2319-7064
Index Copernicus Value (2013): 6.14 | Impact Factor (2014): 5.611
Volume 5 Issue 3, March 2016
www.ijsr.net
Licensed Under Creative Commons Attribution CC BY
Cytochrome Oxidase Subunit I Gene Based
Phylogenetic Description of Common Mormon
Butterfly Papilio polytes (Lepidoptera:
Papilionidae)
Akhilesh V. P.1, Sebastian C. D.2
Molecular Biology Laboratory, Department of Zoology, University of Calicut, Kerala 673 635 India
Abstract: Lepidoptera is one of the largest orders of insects that include moths and butterflies. Most of the lepidopterans are
morphologically similar, therefore the identification of these insect are tedious using morphotaxonomy and that is detrimental in
designing a better strategy to control and conserve them. These are an extremely important group of ‘model’ organisms used to
investigate many areas of biological research, including such diverse fields as navigation, pest control, embryology, mimicry, evolution,
genetics, population dynamics and biodiversity conservation. Knowledge of lepidopteran genomics will create new methods of insect pest
management and will contribute to sustainable agriculture, protection of the environment and the maintenance of biodiversity. In this
study we have amplified cytochrome oxidase I gene of Papilio polytes for species identification and constructed phylogenetic tree for
recognizing evolutionary relationship.
Keywords: Molecular systematics, DNA barcoding, mitochondrial COI gene sequences
1. Introduction
Identification and preservation the genetic diversity is vital
for Lepidoptera since it is one amongst the widespread and
wide recognizable insect orders in the world. The strength of
Lepidopteran genomics lies within the diversity of the group
as a whole. Though there are clear insect models for genetic
analysis (Drosophila) or disease vectors (Anopheles), the
Lepidoptera are rich in diverse model systems for a range of
biological processes. Much of our knowledge of
endocrinology, reproduction, behavior and immunity is
derived from the studies of Lepidoptera [1]. They are
important test case for the use of mitochondrial DNA in
species identification. This is an important order among
class Insecta that have appeared on endangered species list.
The genome of Lepidoptera is characterized by larger size
and higher chromosome number, typically about 30. Genetic
crosses are routinely accomplished in Lepidoptera. The GC
content of Lepidopteran DNA is about 35-40%. The large
body size, accessible genetics, and extreme diversity of
Lepidopteran species are important experimental
advantages. Identification at the molecular level is important
since phenotypic variability and convergent evolution causes
misidentification of many cryptic species, in addition sexual
dimorphism causes more confusion to species identification
[2]. To solve this problem in the taxonomy, recently a short
nucleotide sequence of mitochondrial DNA (COI) is widely
accepted as a marker for the accurate and easy identification
of species. DNA sequences of the mitochondrial cytochrome
oxidase I (COI) gene can serve as a DNA barcode for
identifying all kinds of animals [3]. Phylogenetic analysis
using COI gene sequences were extensively carried out by
several workers in different group of organisms like
southern house mosquito Culex quinquefasciatus [4],
Armigeres subalbatus mosquito [5], green bottle fly Lucilia
sericata [6], Herpetogramma stultalis [7], white backed
plant hopper Sogatella furcifera [8], Asian honeybee Apis
cerana [9] and lepidopteran species [10]. It is an important
advancement in molecular biology for rapidly and cost-
efficiently using a short reference sequence of DNA to help
catalog and inventory biodiversity.
Classification of insect species is critical for both basic and
applied research. The classification based on morphological
features poses problems in many groups of insects because
of their small size, morphological attributes that change as
function of environment and prevalence of biotypes and
species that cannot be easily differentiated by morphological
criteria [11]. There have been many attempts to use
techniques of molecular taxonomy to insects and
these have
yielded valuable result [12] [13].
Theory of the evolution of supergene which explains this
mimicry studied in Papilo polytes, hence their identification
at molecular level is very important. Besides, these
lepidopteran insects serve as important model organisms for
studies of genetics, physiology, development, ecology,
evolutionary biology and insect-plant co-evolution [14].
Insect phylogenetic studies normally include use of
morphological features as phenotypic characters and
ontogenic stages, or pathways as developmental traits.
In
recent times, RNA, DNA, allozymes and amino
acid
sequences have been used to infer evolutionary
relationships among insects as molecular markers [15].
Such studies are more important to rebuild the status of
ancestral characters to provide an idea on divergence of
insects and their homology [16] [17].
Morphological characters have a mosaic distribution and
it is extremely difficult to find out
phylogenetic indications
from such variable data with a small number of functional
characters [18]. In addition, phylogenetic analysis of species
on the basis of morphological attributes may be faced with
Paper ID: NOV162033
977

International Journal of Science and Research (IJSR)
ISSN (Online): 2319-7064
Index Copernicus Value (2013): 6.14 | Impact Factor (2014): 5.611
Volume 5 Issue 3, March 2016
www.ijsr.net
Licensed Under Creative Commons Attribution CC BY
problems
because these features are variable with the
environment and geographical locations. Molecular
markers are more reliable in terms of the number of
available taxonomic characters displaying an
appropriate
level of variability and thus they offer an
alternate tool [3].
The present work reveals the partial mitochondrial COI gene
sequences of P. polytes their genetic divergence and
phylogenetic status.
2. Methodology
Collection and preservation
The P. polytes were collected from Botanical Garden of
Calicut University (CUBG), Kerala using hand sweeping
net. The sample were morphologically identified and placed
in separate glassine envelope with 70% ethanol, assigned
code number and stored at -20 0Cas voucher specimen until
further use.
DNA Extraction, Amplification and Sequencing
DNA was extracted from the leg piece of the specimen using
phenol chloroform method [19]. The obtained DNA was
amplified for COI gene using forward primer, 5’-
GGTCAACAAA TCATAAAGATATTGG-3’ and reverse
primer 5’-TAAACTTCAGGGTGACCAAAAAATCA-3’.
The PCR reaction mixture consisted of 2ng of genomic
DNA (1μl), 0.5μl each forward and reverse primer with at a
concentration of 5μΜ, 0.5 μl dNTPS(2.5mM), 2.5 μl 10X
reaction buffer, 0.5 μl Taq polymerase(5U/ μl) and 19.5 μl
H2O. The PCR profile consisted of an initial denaturation
step of 5min at 95°C, followed by 30 cycles of 10s at 95°C,
30s at 55°Cand 45s at 72°Cand ending with afinal phase of
72°Cfor 3min. The PCR products were resolved on a2%
TAE-agarose gel, for confirmation of the target gene
amplification. The PCR product was column purified using
Fermentas, GeneJET PCR purification kit. The purified PCR
product was sequenced using Sanger’s method [20].The
obtained sequence was checked for its quality by examining
chromatograms and the forward and reverse sequence were
assembled using Clustal W. Sequence analysis and sample
identification were done by inputting the trimmed sequence
in NCBI’s BLAST tool. Phylogenetic tree was then
constructed using MEGA 6 software [21].
3. Result and Discussion
The present study was centered on P. polytes otherwise
known as the Common Mormon butterfly (Figure 1) whose
habitat ranges widely from Sri Lanka and India to Indo-
China,S. Japan, the Philippines and Sunda Islands in SE
Asia. Its caterpillars feed on Rutaceae plant varieties (Citrus
and allied genera, as well as lemon and orange plants) and
the butterfly is palatable to its predators like birds. The
feminine kinds of this species derive protection from such
predators with their resemblance to distantly related,
chemically protected (toxic) Pachliopta butterflies, which
experience eating evadance from birds. This type of
resemblance is called Batesian mimicry, which is restricted
in P. polytes to females, and the toxic species they resemble
are called "models". Throughout its range, and in numerous
subspecific variations, P. polytes has asingle non-mimetic
male form, with which cyrus, a male-like non-mimetic
female form, co-occurs. Most populations also have up to
two female forms that mimic locally available Pachliopta
species. The female limited mimetic polymorphism reaches
its apex in Sri Lanka and peninsular India where, in the
subspecies Papilio polytes romulus, three female forms fly
together: Form cyrus is male-like and non-mimetic form
polytes (stichius)mimics Pachliopta aristolochiae and
Pachliopta pandiyana (Pachliopta jophon in Sri Lanka), and
form Romulus mimics Pachliopta hector.
Figure 1: Papilio polytes
In our studies, the
resolution of phylogeny based on COI
sequences
reveals phylogenetic relationship of the species.
DNA Sequences of good quality and length of 580 bp were
generated in the present study. BLAST result concludes that
COI gene sequence of Papilio species in this study was
found to be novel. The evolutionary history of Papilio
polytes is inferred using Neighbour joining method which
shows clearly inter and intra species divergence (Figure 2).
NJ clustering analysis showed that Papilio polytes from
Calicut, Kerala belong to single monophyletic clade without
any overlap, even though these species are separated by
large geographic distances. The present results indicate that
an identification system for insect life based on the COI
gene will be highly effective. Although COI divergences
appear too low to regularly enable species diagnosis within
the insects, generic-level identifications remains a prospect.
The P. polytes found from Kerala is exhibiting 99%
similarity with P. polytes from Pakistan (KC 158441) and
China (HM 246458). Thus intra species nucleotide
divergence between P. polytes calculated shows 1%
divergence; here geographical barrier may act as
evolutionary tool for the sequence divergence. Inter species
divergence is found to be between 6-8%. The evolutionary
divergence of P. polytes is given in the Table 1. Sequences
generated in this study were submitted to GenBank, with
Accession number KJ 636441 (Papilio polytes )and can be
used as molecular barcode of this species. The present study
on molecular evolutionary analysis using partial
mitochondrial cytochrome oxidase subunit I (COI) gene
sequence explicates phylogenetic relationships of P. polytes.
The study suggests that the best phylogenetic inferences can
be created through moderately divergent nucleotide data
from mitogenomes, of which the COI gene is best studied.
Paper ID: NOV162033
978

International Journal of Science and Research (IJSR)
ISSN (Online): 2319-7064
Index Copernicus Value (2013): 6.14 | Impact Factor (2014): 5.611
Volume 5 Issue 3, March 2016
www.ijsr.net
Licensed Under Creative Commons Attribution CC BY
Table 1: Evolutionary Divergence between related species
on COI gene sequences of Papilio polytes
Species name with GenBank
Accession number
%of
Divergence
KC158441 Papilio polytes
1%
HM246458 Papilio polytes
1%
KF723532 Papilio macilentus
6%
HM246453 Papilio memon
6%
HM246457 Papilio arcturus
6%
AY457581 Papilio protenor
6%
KF404031 Papilio aegeus
7%
JQ982076 Papilio hopponis
7%
JQ982038 Papilio arturus
7%
JF681018 Papilio bridge
7%
KF226559 Papilio helenus
8%
KF401753 Papilio fuscus
8%
KC433408 Papilio maackii
8%
JQ982147 Papilio syfanius
8%
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Paper ID: NOV162033
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International Journal of Science and Research (IJSR)
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www.ijsr.net
Licensed Under Creative Commons Attribution CC BY
KJ195268.1 Papilio polytes
KC810960.1 P apilio pol yt es
KJ195269.1 Papilio polytes
KC158441.1 P apilio pol yt es
KJ195285.1 Papilio polytes
EU792485.1 P apilio pol yt es
AB969795. 1 Papilio poly tes
AB192474. 1 Papilio poly tes
AY457580. 1 Papilio poly tes
KJ636441.1 Papilio polytes Kerala
KJ195266.1 Papilio polytes
JF747533.1 Papilio poly tes
KC158442.1 P apilio pol yt es
KM507502. 1 Papilio poly tes
KF226575.1 Papilio polytes romulus
KF226573.1 Papilio polytes romulus
AY457581. 1 Papilio protenor
KF723532.1 Papilio macilentus
JN087397.1 Papilio mac ilent us
AY569095. 1 Papilio erithonioides
0.01
Figure 2: Phlogenetic status of Papilio polytes using neighbor joining method from NCBI
Paper ID: NOV162033
980