Molecular identification and genetic variation studies in economically important cephalopods at Beypore Fishing Harbour (Kozhikode), South West coast of India

  • Alex LINCY University of Kerala, St. Gregorios College, Department of Zoology, Kottarakara-691531, India
  • Madhavankonath K. ANIL Central Marine Fisheries Research Institute, Regional Centre, Vizhinjam-695521, Kerala
  • Muthusamy THANGARAJ Annamalai University, Faculty of Marine Sciences, Centre of Advanced Study in Marine Biology, Parangipettai-608502, Tamil Nadu
  • Jean J. JOSE University of Kerala, St. Gregorios College, Department of Zoology, Kottarakara-691531
Keywords: cephalopods; cytochrome c oxidase 1; DNA barcoding; phylogenetic analysis

Abstract

Cephalopods are ecologically and economically important marine groups in the world. Biodiversity description is essential for sustainable utilization of natural resources and to characterize biological entities for conservation. DNA barcoding is an effective tool used for identification of organisms at species level and is been widely used for delineate several ambiguity species. In this study, partial sequence of mitochondrial cytochrome c oxidase 1 (CO1) gene with a mean size of 680 bp was amplified by universal primers. Totally 13 individuals of Cephalopods comprising of three species, were barcoded and genetic variation was analysed. The maximum A+T content (67.60%) was recorded in Cistopus indicus and minimum (63.70%) in Sepioteuthis lessoniana. The maximum K2P distance (0.268) was found between the genus Cistopus and Sepioteuthis whereas the minimum distance (0.188) was observed between Uroteuthis and Sepia. The neighbour joining tree revealed three distinct clades represents Loligonidae, Sepiidae and Octopodidae with high boot strap values. However, Sepioteuthis lessoniana is showing a bifurcated branch and it may due to the co-occurring of cryptic species and till date this species is treated as Sepioteuthis lessoniana complex.

Metrics

Metrics Loading ...

References

Allcock AL, Barratt I, Eleaume M, Linse K, Norman MD, Smith PJ, … Strugnell JM (2011). Cryptic speciation and the circumpolarity debate: a case study on endemic Southern Ocean octopuses using the CO1 barcode of life. Deep Sea Research Part II: Topical Studies in Oceanography 58:242-249. https://doi.org/10.1016/j.dsr2.2010.05.016

Anderson FE, Engelke R, Jarrett K, Valinassab T, Mohamed KS, Asokan PK, … Dunning M (2011). Phylogeny of the Sepia pharaonis species complex (Cephalopoda: Sepiida) based on analyses of mitochondrial and nuclear DNA sequence data. Journal of Molluscan Studies 77:65-75. http://dx.doi.org/10.1093/mollus/eyq034

Appukuttan K (1996). Marine molluscs and their conservation. In: Menon NG, Pillai CSG (Eds). Marine Biodiversity, Conservation and Management CMFRI pp 66-80. http://eprints.cmfri.org.in/id/eprint/4097

Avise JC (2000). Phylogeography: The history and formation of species. Harvard University Press, Cambridge, MA, pp 447.

Badhe MR, Pavan-Kumar A, Gireesh-Babu P, Nandanpapwar P, Chaudhari A, Jaiswar AK, … Lakra WS (2013). DNA barcoding of selected cephalopods from Indian coast. Indian Journal of Animal Science 83(8):862-866.

Bickford D, Lohman DJ, Sodhi NS, Ng PKL, Meier R, Winker K, … Das I (2007). Cryptic species as a window on diversity and conservation. Trends in Ecology and Evolution 22:148-155. https://doi.org/10.1016/j.tree.2006.11.004

Carlini DB, Graves JE (1999). Phylogenetic analysis of cytochrome c oxidase I sequences to determine higher-level relationships within the coleoid cephalopods. Bulletin of Marine Science 64:57-76.

Cheng SH, Anderson FE, Bergman A, Mahardika GN, Muchlisin ZA, Dang BT, … Barber PH (2014). Molecular evidence for co-occurring cryptic lineages within the Sepioteuthis cf. lessoniana species complex in the Indian and Indo-West Pacific Oceans. Hydrobiologia 725:165-188. https://doi.org/10.1007/s10750-013-1778-0

FAO (2006). Western Indian Ocean. Fishing area 51. Volumes I-VI. FAO Species Identification Sheets for Fishery Purposes. Rome, FAO. 2006. CD-ROM.

Folmer O, Black M, Hoeh W, Lutz R, Vrijenhoek R (1994). DNA primers for amplification of mitochondrial cytochrome c oxidase subunit I from diverse metazoan invertebrates. Molecular Marine Biology and Biotechnology 3:294-299.

Hajibabaei M, Smith AA, Janzen DH, Rodriguez JJ, Whitfield JB, Hebert PDN (2005). A minimalist barcode can identify a specimen whose DNA is degraded. Molecular Ecology Notes 6:959-964. https://doi.org/10.1111/j.1471-8286.2006.01470.x

Hanlon RT, Chiao CC, Mäthger LM, Barbosa A, Buresch KC, Chubb C (2009). Cephalopod dynamic camouflage: bridging the continuum between background matching and disruptive coloration. Philosophical Transactions of the Royal Society of London B: Biological Sciences 364:429-437. Https://doi.org/10.1098/rstb.2008.0270

Hebert PD, Stoeckle MY, Zemlak TS, Francis CM (2004). Identification of birds through DNA barcodes. Plos Biology 2(10):e312. https://doi.org/10.1371/journal.pbio.0020312

Hebert PDN, Ratnasingham S, Waard JR (2003). Barcoding animal life: cytochrome C oxidase subunit 1 divergences among closely related species. Proceedings of the Royal Society of London B: Biological Sciences 270:S96-99. https://doi.org/10.1098/rsbl.2003.0025

Herke SW, Foltz DW (2002). Phylogeography of two squid (Loligo pealei and L. plei) in the Gulf of Mexico and Northwestern Atlantic Ocean. Marine Biology 140:103-115. https://doi.org/10.1007/s002270100680

Hubert N, Hanner R, Holm E, Mandrak NE, Taylor E, Burridge M, ... Bernatchez L (2008). Identifying Canadian freshwater fishes through DNA barcodes. PLoS One 3:e2490. https://doi.org/10.1371/journal.pone.0002490

Kimura M (1980). A simple method for estimating evolutionary rates of base substitutions through comparative studies of nucleotide sequences. Journal of Molecular Evolution 16:111-120. https://doi.org/10.1007/BF01731581

Kumar S, Tamura K, Peterson D, Peterson N, Stecher G, Nei M (2011). MEGA5: Molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods. Molecular Biology and Evolution 28:2731-2739. https://doi.org/10.1093/molbev/msr121

Murphy JM, Balguerias E, Key LN, Boyle PR (2002). Microsatellite DNA markers discriminate between two Octopus vulgaris (Cephalopoda: Octopoda) fisheries along the Northwest African Coast. Bulletin of Marine Science 71:545-553.

Pratasik SB, Sambali H, Manoppo L, Tilaar FF, Salaki MS (2019). Genetic variations of cuttlefish Sepia latimanus (Cephalopoda, Sepiidae) in North Sulawesi waters, Indonesia. Aquaculture, Aquarium, Conservation & Legislation 12(3):792-803.

Ratnasingham S, Hebert PDN (2007). BOLD: the barcode of life data system. Molecular Ecology Notes 7:355-364. https://doi.org/10.1111/j.1471-8286.2007.01678.x

Sambrook SJ, Russel DW, Janssen KA, Irwuin NJ (2001). Molecular cloning: a laboratory manual. 3rd edn. Cold Spring Harbour Laboratory Press, Cold Spring Harbour, New York.

Strugnell JM, Lindgren AR (2007). A barcode of life database for the Cephalopoda? Considerations and concerns. Reviews in Fish Biology and Fisheries 17:337-344. https://doi.org/10.1007/s11160-007-9043-0

Voight JR (1993). A cladistic reassessment of Octopodid classification. Malacologia 35:343-349.

Ward RD, Zemlak TS, Innes BH, Last PA, Hebert PDN (2005). DNA barcoding Australia fish species. Philosophical Transactions Royal Society B: Biological Sciences 360(1462):1847-1857. https://doi.org/10.1098/rstb.2005.1716

Yalla SK, Mohanraju R (2019). DNA barcoding of commercially important cephalopods from Andaman Islands, India. Regional Studies in Marine Science 25:100479. https://doi.org/10.1016/j.rsma.2018.100479

Published
2021-02-10
How to Cite
LINCY, A., ANIL, M. K., THANGARAJ, M., & JOSE, J. J. (2021). Molecular identification and genetic variation studies in economically important cephalopods at Beypore Fishing Harbour (Kozhikode), South West coast of India. Notulae Scientia Biologicae, 13(1), 10862. https://doi.org/10.15835/nsb13110862
Section
Research articles
CITATION
DOI: 10.15835/nsb13110862