International Journal of Marine Science 2015, Vol.5, No.55: 1-9
1
Research Article Open Access
Sequence Analysis and Molecular Phylogeny of 16S rRNA Gene Fragments in
Four Species of the Penaeid Shrimps from the Sudanese Red Sea
Ibrahim M.Y.
1,
, Nor M.S.A.
2
, Abukashawa S.M.A.
3
1. Department of Fisheries, Faculty of Marine Sciences and Fisheries. University of Red Sea, Sudan
2. School of Biological Sciences. University Sains Malaysia. Malaysia
3. Department of Zoology, Faculty of Science, University of Khartoum, Sudan
Corresponding author email:
International Journal of Marine Science, 2015, Vol.5, No.55 doi
Received: 29 Jul, 2015
Accepted: 28 Aug, 2015
Published: 08 Oct., 2015
Copyright
©
2015 Ibrahim et al., This is an open access article published under the terms of the Creative Commons Attribution License, which permits
unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.
Preferred citation for this article: Ibrahim M.Y., Nor M.S.A. and Abukashawa S.M.A., 2015, Sequence Analysis and Molecular Phylogeny of 16S rRNA Gene
Fragments in Four Species of the Penaeid Shrimps from the Sudanese Red Sea, International Journal of Marine Science, 5(55): 1-9
Abstract
Penaeid shrimps are of biological and economic importance and are highly in demand for human consumption. Four
species of the penaeid decapod crustaceans,
Finneropenaeus indicus, Penaeus monodon, P. semisulcatus
and
Metapenaeus
monoceros
were studied. Haplotype and nucleotide diversity were combined to assess the phylogenetic relationships of the penaeid
shrimp species and populations of the
Finneropenaeus indicus
.
Shrimp specimens were collected at different locations of Baaboud and Alkhairat aquafarms and from the wild. Phylogenetic
relationships among the penaeid shrimp species and genetic diversity of
F. indicus
populations were assessed using partial mtDNA
16S rRNA gene (480 bp). Genetic distances among the species were done. The Genetic differentiation between
F. indicus
population
(Baaboud –Alkhairat; Baaboud-Wild; Alkhairat- Wild) was found 0.10957, 0.12459 and 0.14817 respectively. No clear indication of
differentiation between 16S rRNA tree branches of the populations of Alkhairat and Baaboud from the wild population, which may
be attributed to the common collection sites of brood stocks and/or post larvae (PL’s) besides the absence of hydrological and
physical barriers.
M. monoceros
formed a distant sister taxon to all other Penaeus species.
Keywords
Sequence analysis;
F. indicus
;
P. monodon
;
P. semisulcatus
; Ribosomal RNA gene (rRNA); Sudanese Red Sea
1 Introduction
The lack of adequate supply of animal protein, the
exhaustion of livestock, the threats of malnutrition or
undernourishment and the inadequacy of agricultural
supplies have drawn attention to the importance of
aquatic marine resources. Moreover, the demand has
been extended beyond fish to include other marine
invertebrates (Jackson, 1971; Ibrahim, 2001). To this
attribute the production of shrimps from wild or from
culture has gained a considerable contribution. Now
they are considered as the most economic resource in
crustacean fishery and aquafarm industry (Dall et al.,
1990; Holthius, 1980; Pérez-Farfante and Kensley,
1997). Penaeid shrimps are for many centuries been
considered a good source of food. (Marsden, 2008).
Approximately 125 species are known from the broad
west Indo-Pacific region (Dall et al., 1990). Description
and habitat of Penaeid shrimps are well documented
in the Red Sea, which comprise an essential part
among the fishing area 51 described by FAO (1983).
Most commercially important shrimp species have
complex life cycles which consist of demersal eggs
that hatch into pelagic larvae which themselves go
through a series of larval stages before reaching near
shore nursery ground leading to development of two
types of fisheries: An artisanal fishery which targets
the catch of shrimps in deep narrow entrance and
estuaries during migration from near shore to open sea,
and the second type is: the trawling fishery in deeper
water off shore (Landan, 1992). The major commercial
shrimp fisheries in Sudanese Red Sea coast include
F.
indicus
,
P. monodon
P. semisulcatus
and
M. Monoceros
(Reed, 1964; El Hag, 1977) Based on their mode of
life, penaeid shrimps can be grouped into wandering
(e.g
F. indicus
) and burrowing groups (e.g
P. monodon
).
(Dall et al., 1990).
Genetic variation is an important element with regards
to the ability of the species to adapt and evolve. This
measure is also used by conservation officials to plan
management strategies (Schwartz et al., 2007; Reynolds
et al., 2012). The spatial pattern in which genetic
variation is organized within and among animal
