Abstract
In the present investigation, genetic polymorphism and variability in seven natural populations of Himalayan prawn Macrobrachium dayanum were assessed by polymerase chain reaction (PCR) based two molecular techniques viz., ISSR and RAPD. Genomic DNA of each sample was isolated by Phenol–chloroform method. Genotyping by selective ISSR and RAPD markers revealed high level of genetic variability among seven populations depicted by 86.9% and 96.2% polymorphism respectively. The combined results of two molecular marker assays disclosed that populations of Nagri and Chadwal streams were genetically closest having highest values of Jaccard similarity (0.419) and Nei & Li coefficient (0.591) whereas the populations of Chadwal and Sai streams were genetically least related with lowest values of Jaccard similarity (0.206) and Nei & Li coefficient (0.342). Cluster analysis by UPGMA dendrograms revealed that seven populations of M. dayanum were distributed into two major groups which were further divided into sub-groups. The principal coordinate analysis was consistent with the UPGMA Clustering of the populations. Overall, the population of Kheri stream was found to be quite distinct from rest of six populations. The findings of present communication will serve for the sustainable conservation program of the Himalayan prawn and selection of its desired populations having higher genetic variability to withstand adverse conditions for future venture of commercial prawn culturing in the rural areas of Himalayas. In addition, the results of current study set a stage to evaluate the reasons for lesser genetic diversity of the studied species in some of the streams of Jammu and the way forward to improve the status of these lotic ecosystems to enhance the genetic polymorphism in M. dayanum.
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Ahmed, M.D., Mohsen, S.H., Abdelghany, M.F., Fagr, K.A.G., Wagdy, K.B.K.: Genetic studies of relationship between Penaeus semisulcatus, Penaeus japonicus and Metapenaeus monoceros using biochemical and molecular tools. Int. J. Life Sci. Pharma Res. 6(1), 15–24 (2016)
Arumugam, S.: Distribution and seasonal availability of freshwater prawn Macrobrachium Spp. in Kodayar River in Tamil Nadu, India. Univers. J. Environ. Res. Technol. 2(4), 247–253 (2012)
Bakhtiyar, Y., Langer: Seasonal variation in the proximate body composition of Macrobrachium dayanum (Henderson, 1893) (Decapoda, Caridea) from Gho-Manhasa stream Jammu, North India. Acta Biologica Turcica 29(3), 89–98 (2016)
Bala, B., Mallik, M., Saclain, S., Islam, M.S.: Genetic variation in wild and hatchery populations of giant freshwater prawn (Macrobrachium rosenbergii) revealed by randomly amplified polymorphic DNA markers. J. Genet. Eng. Biotechnol. 15, 23–30 (2017)
Carvalho, G.R., Hauser, L.: Molecular genetics and the stock concept in fisheries. In: Carvalho, G.R., Pitcher, T.J. (eds.) Molecular genetics in fisheries, pp. 55–80. Chapman and Hall, London (1995)
Chalotra RK (2002) Studies on early life history of fresh water Prawn, M. dayanum. M.Phil. Dissertation, Jammu University, Jammu.
Dasgupta, N., Nandy, P., Sengupta, C., Das, S.: RAPD and ISSR marker mediated genetic polymorphism of two mangroves Bruguiera gymnorrhiza and Heritiera fomes from Indian Sundarbans in relation to their sustainability. Physiol. Mol. Biol. Plants 21(3), 375–384 (2015)
Ganaie, H.A., Ali, M.A.: Studies on the genetic variability of three fish species (Cyprinus carpio specularis, Cyprinus carpio communis and Oncorhynchus mykiss) collected from Kashmir (India) Using Random Amplified Polymorphic DNA (RAPD) technique. Asian J. Anim. Sci. 10(1), 59–67 (2016)
Hassanien, H.A., Al-Rashada, Y.: Estimation of genetic variation in green tiger prawn, Penaeus semisulcatus by using random amplified polymorphic DNA, inter simple sequence repeat and simple sequence repeat markers. Aquac. Res. 50, 1626–1633 (2019)
Ibrahim, N., Abbas, E.M., El-Seedy, A., Soliman, T., Ali, F.S.: DNA barcoding and comparative genetic diversification among species of family Sparidae in the coastal waters of Egypt. Egypt. J .Aquat. Biol. Fish. 24(3), 333–349 (2020)
Jaccard, P.: Nouvelles recherches sur la distribution florale. Buletin De La Societe Vaudoise Sciences Naturelles 44, 223–270 (1908)
Jayachandran, K.V., Indira, B.: Sustainable exploitation of freshwater prawn diversity of India for food and livelihood security with emphasis on planning. Indian J. Sci. Res. 1(2), 127–132 (2010)
Jasrotia, R., Langer, S., Palaq, S.N., Panjaliya, R.K.: Assessment of genetic variability of two freshwater prawns, Macrobrachium dayanum And Macrobrachium lamarrei From Jammu Region by using ISSR markers. Int. J. Recent. Sci. Res. 8(10), 21176–21180 (2017)
Jiang SF, Fu HT, Xiong YW, Wu Y, Gong YS.: Genetic diversity of four geographical populations of Macrobrachium nipponense revealed by RAPD analysis. J. Yangtze Univ: Nat. Sci. Ed. 3(2), 179–182 (2006)
Kailoo UC (1984) Studies on the systematic and reproductive biology of freshwater prawns of Jammu waters. M.Phil. Dissertation, University of Jammu, Jammu.
Khajuria B (2017) Morphological, cytological and molecular characterization of Tor putitora Hamilton and its status in Jammu waters. Ph.D. Thesis, University of Jammu, Jammu.
Kumari, N., Thakur, S.K.: Randomly amplified polymorphic DNA-a brief review. Am. J. Anim. Vet. Sci. 9, 6–13 (2014)
Kumari A (2008) Population structure and morphometric variations in freshwater prawn, M. dayanum (Henderson) from different water bodies. M.Phil. Dissertation, University of Jammu, Jammu.
Lakra, W.S., Goswami, M., Singh, A., Mishra, P.S., Gayathri, N., Nagpure, N.S.: Genetic characterization of Metapenaeus affinis (H. M. Edwards, 1837) using RAPD markers. Mol. Biol. Rep. 37, 3757–3761 (2010)
Langer, S., Manhas, M., Bakhtiyar, Y.: Studies on the biochemical composition of Macrobrachium dayanum and M. kistensis. Uttar Pradesh J. Zool. 28(2), 211–214 (2008)
Lester, L.J.: Developing a selective breeding program for penaeid shrimp mariculture. Aquaculture 33, 41–50 (1983)
Mahboob, S., Al-Ghanim, K.A., Al-Misned, F., Al-Balawi, H.F.A., Ashraf, A., Al-Mulhim, N.M.A.: Genetic diversity in tilapia populations in a freshwater reservoir assayed by randomly amplified polymorphic DNA markers. Saudi J. Biol. Sci. 26, 363–367 (2019)
Mitton, J.B., Koeh, R.K.: Genetic organization and adaptive response of allozymes to ecological variables in Fundulus heteroclitus. Genetics 79, 97–111 (1975)
Mohammadabadi, M., Oleshko, V., Oleshko, O., Heiko, L., Starostenko, I., Kunovskii, J., Bazaeva, A., Roudbari, Z.: Using inter simple sequence repeat multi-loci markers for studying genetic diversity in guppy fish. Turk. J. Fish. Aquat. Sci. 21(12), 603–613 (2021)
Mohsen, S.H., Abdelghany, M.F., Ahmed, M.D.: Molecular and biochemical studies on some marine shrimp species. Middle East J. Appl. Sci. 6(4), 646–652 (2016)
Nei, M., Li, W.H.: Mathematical model for studying genetic variation in terms of restriction endonucleases. Proc. Natl. Acad. Sci. USA 76, 5269–5273 (1979)
Nyman, O.L., Shaw, D.H.: Molecular weight heterogeneity of serum streases in four species of salmonid fishes. Comp. Biochem. Physiol. 40, 563–566 (1971)
Ponniah, A.G.: Functional relationship between biochemical genetic polymorphism and physiological variation in aquatic animals. In: Das, P., Jhingran, V.G. (eds.) Fish Genetics in India. Today and Tomorrow printers and Publishers, New Delhi (1989)
Purnamaningrum, A., Handayani, N.S.N., Trijoko, Handayani, C.R.: Assessment of genetic variation in outbreed and inbreed giant tiger shrimp (Penaeus monodon Fabricius, 1798) using ISSR marker. AIP Conf. Proc. 1755, 140009-1–140016 (2016)
Rebello, V.T., George, M.K., Paulton, M.P., Thomas, P.C.: An investigation on the molecular genetic profile of Indian marine penaeid prawn, Penaeus monodon Fabricius, 1798. Int. J. Appl. Res. 1(12), 11–17 (2015)
Rohlf, F.: NTSYS-PC RF. 2.02. Numerical taxonomy and multivariate analysis system. Applied Biostatistics Setauket, New York (1998)
Saad, Y.M., Sabir, J.M., Abu Zinadah, O.A.H.: Development of ISSR and multiplex ISSR markers for reconstructing phylogenetic relations among some shrimp species. Life Sci. J. 10(4), 1316–1322 (2013)
Sabry, A.M., Hassan, M.M., Mohamed, A.A., Awad, N.S.: Molecular characterization of some popular fish species in Saudi Arabia. Int. J. Appl. Sci. Biotechnol. 3(2), 359–366 (2015)
Sambrook, J., Russell, D.W.: Molecular cloning. A laboratory manual, 3rd edn. Cold Spring Harbor Laboratory Press, Cold Spring Harbor (2001)
Tassanakajon, A., Pongsomboon, S., Jarayabhand, P., Klinbunga, S., Boonsaeng, V.: Genetic structure in wild populations of black tiger shrimp (Penaeus monodon) using randomly amplified polymorphic DNA analysis. J. Mar. Biotechnol. 6, 249–254 (1998)
Wang, W.J., Kong, J.: Preliminary study on the application of inter-simple sequence repeats (ISSR)-PCR technique in Chinese shrimp (Fenneropenaeus chinensis). Mar. Fish Res. 23(1), 1–4 (2002)
Williams, J.G.K., Kubelik, A.R., Livak, K.J., Rafalski, J.A., Tingey, S.V.: DNA polymorphisms amplified by arbitrary primers are useful as genetic markers. Nucl. Acid Res. 18, 6531–6535 (1990)
Yang, P., Chen, L., Wang, W., Yu, N., Song, D., Liu, Z.: Genetic diversity of oriental river prawn (Macrobrachium nipponense De Haan) revealed by ISSR markers. J. Fish. Sci. China 17(5), 913–921 (2010)
Zhang, G., Cao, Y., Li, Z., Chen, J., Zhao, B., Lei, G., Wang, Z.: Analysis of the genetic diversity and differentiation of Fenneropenaeus penicillatus populations using AFLP technology. Chin. J. Oceanol. Limnol. 30(3), 440–445 (2012)
Zheng, X.Z., Chen, W.J., Guo, Z.L.: The genus Macrobrachium (Crustacea, Caridea, Plaemonidae) with the description of a new species from the Zaomu Mountain Forest Park, Guangdong Province, China. Zookeys 866, 65–83 (2019)
Acknowledgements
The authors would like to thank Department of Science and Technology (DST), Government of India (GOI) for providing necessary facilities under FIST, RUSA and PURSE programs. The valuable suggestions and methodological help provided by Head, Department of Zoology, University of Jammu is duly acknowledged.
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RJ: Experimental setup, data analysis, manuscript drafting; SL: Valuable editing and interpretation; MD- formatting, added inputs and grammar checking.
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Jasrotia, R., Langer, S. & Dhar, M. Molecular genetic diversity of a cultivable freshwater prawn Macrobrachium dayanum (Henderson, 1893) from Outer Himalayas, India. Proc.Indian Natl. Sci. Acad. 88, 472–481 (2022). https://doi.org/10.1007/s43538-022-00105-1
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DOI: https://doi.org/10.1007/s43538-022-00105-1