Molecular identification and phylogenetic assessment of species under genus Parapenaeopsis Alcock, 1901, from Indian waters

References

• Alcock A. 1901. A Descriptive Catalogue of the Indian Deep-Sea Crustacea Decapoda Macrura and Anomala, in the Indian Museum. Being a Revised Account of the Deep-Sea Species Collected by the Royal Indian Marine Survey Ship Investigator. Vol. 286. Calcutta, India: Indian Museum; p. 3.
   Google Scholar
• Alcock A. 1906. The Prawns of the Penaeus group: catalogue of the Indian Decapod Crustacea in the collection of the Indian Museum. Part 3, Vol. 55. Macrura. Calcutta, India: Indian Musuem; p. 9.
   Google Scholar
• Avise JC. 1994. Molecular markers, natural history and evolution. New York (NY): Chapman & Hall; 511 p.
   Google Scholar
• Ballard JWO, Whitlock MC. 2004. The incomplete natural history of mitochondria. Mol Ecol. 13:729–744.
   PubMed Web of Science ®Google Scholar
• Basheer VS, Chowdhury LM, Mohitha C, Bineesh KK. 2016. Barcoding of Indian marine fishes: for identification and conservation. In: Trivedi S, Ansari A, Ghosh S, Rehman H, editors. DNA barcoding in marine perspectives. Springer International Publishing; p. 243–270.
   Google Scholar
• Bucklin A, Steinke D, Blanco-Bercial L. 2011. DNA barcoding of marine metazoa. Switzerland: Springer, Cham; p. 243–277.
   Google Scholar
• Chan TY, Tong J, Tam YK, Chu KH. 2008. Phylogenetic relationships among the genera of the Penaeidae (Crustacea: Decapoda) revealed by mitochondrial 16S rRNA gene sequences. Zootaxa 1694:38–50.
   Web of Science ®Google Scholar
• Chanda A. 2016. A study on newly described genera Alcockpenaeopsis, Batepenaeopsis, Helleropenaeopsis, Kishinouyepenaeopsis and Parapenaeopsis from Indian water. Poult Fish Wildl Sci. 4:147.
   Google Scholar
• Chanda A, Bhattacharya T. 2002. Penaeoid Shrimp of Digha and Adjacent Coast of Midnapore, West Bengal, India. J Bio Sci. 8:1–22.
   Google Scholar
• De Bruin GHP. 1965. Penaeid prawns of Ceylon (Crustacea, Decapoda, Penaeidae). Zool Meded Leiden. 41:73–104.
   Google Scholar
• De Croos MDST, Pálsson S. 2012. Population biology and genetic diversity of two adjacent shrimp (Parapenaeopsis coromandelica) populations exploited under different fishing pressures in the coastal waters of Sri Lanka. J Mar Biol Assoc UK. 92:819–829.
   Web of Science ®Google Scholar
• De Croos MDST, Stefánsson G. 2011. A case study of sampling strategies for estimating the length composition of commercial catches: the Sri Lankan shrimp trawl fishery. Crustaceana. 84:1581–1591.
   Web of Science ®Google Scholar
• De Grave S. 2010. Parapenaeopsis coromandelica Alcock, 1906. World Register of Marine Species. http://www.marinespecies.org/aphia.php [accessed 2018 Jan 8].
   Google Scholar
• Fischer W, Bianchi G. 1984. FAO Species Identification Sheets for Fishery Purposes. Western Indian Ocean (fishing Area 51). Vol. 1–6, Rome: FAO.
   Google Scholar
• 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. Mol Mar Biol Biotechnol. 3:294–299.
   PubMedGoogle Scholar
• George MJ. 1973. On the penaeid prawn Parapenaeopsis stylifera and a new variety of the species from Cochin. J Mar Biol Assoc India. 15:420–422.
   Google Scholar
• Hall DNF. 1962. Observation on the taxonomy and biology of some Indo-West Pacific Penaeidae. London, UK:Her Majesty's Stationary Office, Crustacea; 229 pp.
   Google Scholar
• Hall TA. 1999. BioEdit: a user-friendly biological sequence alignment editor and analysis program for Windows 95/98/NT. In: Nucleic acids symposium series, Vol. 41. London, UK: Information Retrieval Ltd. p. 95–98.
   Google Scholar
• Hebert PDN, Cywinska A, Ball SL, Ward JR. 2003. Biological identifications through DNA barcodes. Proc Biol Sci. 270:313–321.
   PubMed Web of Science ®Google Scholar
• Heller C. 1862. Beiträge zur näheren Kenntnis der Macrouren. Sitzungsberichte der mathematischnaturwissenschaftlichen Classe der Kaiserlichen Akademie der Wissenschaften in Wien. 389–426.
   Google Scholar
• Hillis DM, Dixon MT. 1991. Ribosomal DNA: molecular evolution and phylogenetic inference. Q Rev Biol 66:411–453.
   PubMed Web of Science ®Google Scholar
• Holthuis LB. 1980. FAO species catalogue. Vol. 1, Shrimps and prawns of the world. An annotated catalogue of species of interest to fisheries. FAO Fish Synop. 125(1):271 p.
   Google Scholar
• Kimura M. 1980. A simple method for estimating evolutionary rates of base substitutions through comparative studies of nucleotide sequences. J Mol Evol. 16:111–120.
   PubMed Web of Science ®Google Scholar
• Kou Q, Li X, Chan TY, Chu KH, Huang H, Gan Z. 2013. Phylogenetic relationships among genera of the Periclimenes complex (Crustacea: Decapoda: Pontoniinae) based on mitochondrial and nuclear DNA. Mol Phylogenet Evol. 68:14–22.
   PubMed Web of Science ®Google Scholar
• Kumar S, Stecher G, Tamura K. 2016. MEGA7: Molecular Evolutionary Genetics Analysis version 7.0 for bigger datasets. Mol Phylogenet Evol. 33:1870–1874.
   Web of Science ®Google Scholar
• Li X, Xu Y, Kou Q. 2014. Molecular phylogeny of Parapenaeopsis Alcock, 1901 (Decapoda: Penaeidae) based on Chinese materials and 16S rDNA and COI sequence. J Ocean Univ China. 13:104–114.
   Web of Science ®Google Scholar
• Lydegard C, Roe KJ. 1997. The phylogenetic utility of the mitochondrial cytochrome b gene for inferring relationships among actinopterygian fishes. In: Kocher, TD, Stepien, CA, editors. Molecular systematics of fishes. San Diego. CA: Academic Press; p. 285–303.
   Google Scholar
• Mao ZC, Liu P, Duan YF, Li J, Chen P, Meng XL. 2016. Sequencing of complete mitochondrial genome of sword prawn Parapenaeopsis hardwickii (Miers) (Crustacea, Decapoda, Penaeidae). 1:259–260.
   Google Scholar
• Miers EJ. 1878. Notes on the Penæidæ in the collection of the British Museum, with descriptions of some new species. Proc Zoo Soc London. 1878: 298–310.
   Google Scholar
• Miquel JC. 1984. Shrimps and prawns. In: Fischer W, and Bianchi G, editors. FAO species identification sheets for fishery purposes. Western Indian Ocean (Fishing Area 51). Vol. 5, Rome: FAO.
   Google Scholar
• Pathan DI, Jalihal DR. 1998. On the taxonomic status of the Indian kiddi prawn Parapenaeopsis stylifera (H Milne Edwards, 1837). Indian J Mar Sci. 27:367–372.
   Web of Science ®Google Scholar
• Perez Farfante ISABEL, Kensley B. 1997. Penaeoid and sergestoid shrimps and prawns of the world. Keys and diagnoses for the families and genera. Memoires du Museum National d'Histoire Naturelle, Editions du Muséum National d'Histoire Naturelle. Vol. 175, p. 1–233
   Google Scholar
• Racek AA, Dall W. 1965. Littoral Penaeinae (Crustacea, Decapoda) from northern Australia, New Guinea, and adjacent waters. Verhandelingen Der Koninklijke Nederlandse Akademie Van Wetenschappen, Afdeeling Natuurkunde (2) 56:1–119.
   Google Scholar
• Radulovici AE, Sainte‐Marie B, Dufresne F. 2009. DNA barcoding of marine crustaceans from the Estuary and Gulf of St Lawrence: a regional‐scale approach. Mol Ecol Resour. 9:181–187.
   PubMed Web of Science ®Google Scholar
• Rao PV. 1965. Synopsis of biological data on the penaeid prawn Parapenaeopsis stylifera (H. Milne Edwards, 1837). FAO Fisheries Synopsis No. 106 57:1575–1605.
   Google Scholar
• Rao PV. 1969. V. Genus Parapenaeopsis Alcock 1901. Prawn Fisheries of India, Central Marine Fisheries Research Institute Bulletin 14:127–158.
   Google Scholar
• Rao GS, Radhakrishnan EV, Jose J. 2013. Handbook of marine prawns of India. Kochi, India: Central Marine Fisheries Research Institute.
   Google Scholar
• Ravindranath K. 1989. Taxonomic Status of the Coromandel Shrimp Parapenaeopsis Stylifera Coromandelica Alcock (Decapoda, Penaeidea). Crustaceana. 57:257–262.
   Web of Science ®Google Scholar
• Saitou N, Nei M. 1987. The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol. 4:406–425.
   PubMed Web of Science ®Google Scholar
• Sakai K, Shinomiya S. 2011. Preliminary report on eight new genera formerly attributed to Parapenaeopsis Alcock, 1901, sensulato (Decapoda, Penaeidae). Crustaceana. 84:491–504.
   Web of Science ®Google Scholar
• Samuel VKD, Sreeraj CR, Krishnan P, Parthiban C, Sekar V, Chamundeeswari K, Ramesh R. 2016. An updated checklist of shrimps on the Indian coast. J Threatened Taxa. 8:8977–8988.
   Google Scholar
• Simon C, Frati F, Beckenbach A, Crespi B, Liu H, Flook P. 1994. Evolution, weighting, and phylogenetic utility of mitochondrial gene sequences and a compilation of conserved polymerase chain reaction primers. Ann Entomol Soc Am. 87:651–701.
   Web of Science ®Google Scholar
• Tamura K, Nei M, Kumar S. 2004. Prospects for inferring very large phylogenies by using the neighbor-joining method. Proc Natl Acad Sci USA. 101:11030–11035.
   PubMed Web of Science ®Google Scholar
• Timm J, Figiel M, Kochzius M. 2008. Contrasting patterns in species boundaries and evolution of anemone fishes (Amphiprioninae, Pomacentridae) in the centre of marine biodiversity. Mol Phylogenet Evol. 49:268–276.
   PubMed Web of Science ®Google Scholar
• Tirmizi NM. 1968. On the structure and some developmental stages of genitalia in the prawn Parapenaeopsis stylifera (H. Milne Edwards) (Decapoda, Penaeidea). Crustaceana. 15:193–203.
   Google Scholar
• Tong JG, Chan TY, Chu KH. 2000. A preliminary phylogenetic analysis of Metapenaeopsis (Decapoda: Penaeidae) based on mitochondrial DNA sequences of selected species from the Indo-West Pacific. J Crustac Biol. 20:541–549.
   Web of Science ®Google Scholar
• Yang CH, Sha Z, Chan TY, Liu R. 2015. Molecular phylogeny of the deep‐sea penaeid shrimp genus Parapenaeus (Crustacea: Decapoda: Dendrobranchiata). Zool Scripta 44:312–323.
   Web of Science ®Google Scholar