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Mitochondrial DNA Part A
DNA Mapping, Sequencing, and Analysis
Volume 30, 2019 - Issue 1
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Research Article

Evolutionary history of genus Macrobrachium inferred from mitochondrial markers: a molecular clock approach

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Pages 92-100 | Received 18 Sep 2017, Accepted 03 Apr 2018, Published online: 17 Apr 2018

References

  • Anger K. 2013. Neotropical Macrobrachium (Caridea: Palaemonidae): on the biology, origin, and radiation of freshwater-invading shrimp. J Crust Biol. 33:151–183.
  • Ashelby CW, Page TJ, De Grave S, Hughes JM, Johnson ML. 2012. Regional scale speciation reveals multiple invasions of freshwater in Palaemoninae (Decapoda). Zool Script. 41:293–306.
  • Bate CS. 1868. On a new genus with four new species of freshwater prawns. Proc Zool Soc Lond. 1868:363–368.
  • Botello A, Iliffe TM, Alvarez F, Juan C, Pons J, Jaume D. 2012. Historical biogeography and phylogeny of Typhlatya cave shrimps (Decapoda: Atyidae) based on mitochondrial and nuclear data. J Biogeogr. 40:594–607.
  • Bracken HD, Toon A, Felder DL, Martin JW, Finley M, Rasmussen J, Crandall KA. 2009. The decapod tree of life: compiling the data and moving toward a consensus of decapod evolution. Arthropod Syst Phylogeny. 67:99–116.
  • Brandley MC, Schmitz A, Reeder TW. 2005. Partitioned Bayesian analyses, partition choice, and the phylogenetic relationships of scincid lizards. Syst Biol. 54:373–390.
  • Cumberlidge N, Hobbs HH, Lodge DM. 2015. Chapter 32: class Malacostraca, order Decapoda. In: Thorp and Covichs freshwater invertebrates, fourth editions: ecology and general biology. San Diego (CA): Academic Press.
  • Dana JD. 1852. Conspectus Crustaceorum etc., Conspectus of the Crustacea of the exploring expedition under Captain C. Wilkes. U.S.N. Proc Acad Nat Sci. 6:10–28.
  • David CM, Kathy BRH, Max M, Dan V, John RC, Alma BM, Chris S. 2016. Inflation of molecular clock rates and dates: molecular phylogenetics, biogeography, and diversification of a global cicada radiation from Australasia (Hemiptera: Cicadidae: Cicadettini). Syst Biol. 65:16–34.
  • De Bruyn M, Wilson JA, Mather PB. 2004a. Huxley’s line demarcates extensive genetic divergence between eastern and western forms of the giant freshwater prawn, Macrobrachium rosenbergii. Mol Phylogenet Evol. 30:251–257.
  • De Bruyn M, Wilson JC, Mather PB. 2004b. Reconciling geography and genealogy: phylogeography of giant freshwater prawns from the Lake Carpentaria region. Mol Ecol. 13:3515–3526.
  • De Grave S, Cai Y, Anker A. 2008. Global diversity of shrimps (Crustacea: Decapoda: Caridea) in freshwater. Hydrobiologia. 595:287–293.
  • De Grave S, Chan TY, Chu KH, Yang CH, Landeira JM. 2015. Phylogenetics reveals the crustacean order Amphionidacea to be larval shrimps (Decapoda: Caridea). Nat Sci Rep. 5:17464.
  • De Grave S, Fransen CHJM. 2011. Carideorum catalogus: the recent species of the dendrobranchiate, stenopodidean, procarididean and caridean shrimps (Crustacea: Decapoda). Zool Mededel. 85:195.
  • De Grave S, Pentcheff ND, Ahyong ST, Chan TY, Crandall KA, Dworschak PC, Felder DL, Feldmann RM, Fransen CHJM, Goulding LYD, et al. 2009. A classification of living and fossil genera of decapod crustaceans. Raffles Bull Zool. 21:1–109.
  • Deepak J, Harikrishnan M. 2017. Non-homologous COI barcode regions: a serious concern in decapod molecular taxonomy. Mitochondrial DNA A DNA Mapp Seq Anal. 28:482–492.
  • Deepak J, Nidhin B, Anil Kumar KP, Pradeep PJ, Harikrishnan M. 2015. A molecular approach towards the taxonomy of fresh water prawns Macrobrachium striatum and M. equidens (Decapoda, Palaemonidae) using mitochondrial markers. Mitochondrial DNA A. 27:2585–2593.
  • Drummond AJ, Rambaut A. 2007. BEAST: Bayesian evolutionary analysis by sampling trees. BMC Evol Biol. 7:214.
  • Drummond AJ, Suchard MA, Xie D, Rambaut A. 2012. Bayesian phylogenetics with BEAUti and the BEAST 1.7. Mol Biol Evol. 29:1969–1973.
  • Gomez EPA, Álvarez F, Hiriart JLV, Eguiarte LE. 2013. Molecular phylogeny of Mexican species of freshwater prawn genus Macrobrachium (Decapoda: Palaemonidae: Palaemoninae) Filogenia molecular de las especies mexicanas de camarones dulceacuícolas del género Macrobrachium (Decapoda: Palaemonidae: Palaemoninae). Hydrobiologica. 23:399–409.
  • Hebert PD, Cywinska A, Ball SL. 2003. Biological identifications through DNA barcodes. Proc Biol Sci. 270:313–321.
  • Hebert PD, Ratnasingham S, de Waard JR. 2003. Barcoding animal life: cytochrome c oxidase subunit I divergences among closely related species. Proc R Soc Lond B Biol Sci. 270:S96–S99.
  • Hedges SB, Dudley J, Kumar S. 2006. TimeTree: a public knowledge-base of divergence times among organisms. Bioinformatics. 22:2971–2972.
  • Holthuis LB. 1950. The Decapoda of the Siboga Expedition. Part X. The Palaemonidae collected by the Siboga and Snellius expeditions, with remarks on other species. Part I: subfamily Palaemoninae. Siboga-Exped Leiden. 39a:1–268.
  • Holthuis LB. 1952. A general revision of the Palaemonidae (Crustacea, Decapoda, Natantia) of the Americas. II. The subfamily Palaemoninae. Occas Pap Allan Hancock Found. 12:1–396.
  • Jayachandran KV, Indira B. 2010. Prawn fishery resources of India for food security as well as for rural employment. 97th Indian Science Congress Symposium; Jan 3–7.
  • John JW, Eric F, Lindell B. 2005. Molecular dates for the “Cambrian Explosion”: the influence of prior assumptions. Syst Biol. 54:672–678.
  • Johnson DS. 1973. Notes on some species of the genus Macrobrachium. J Singapore Nat Acad Sci. 3:273–291.
  • Katoh K, Standley DM. 2016. A simple method to control over-alignment in the MAFFT multiple sequence alignment program. Bioinformatics. 32:1933–1942.
  • Kumar R, Gopalakrishnan A, Divya PR, Basheer VS, Singh RK, Mohindra V, Lal KK, Jena JK. 2017. Population genetic structure of Macrobrachium rosenbergii (Palaemonidae) from Indian waters using mitochondrial ATPase 6/8 gene. Mitochondrial DNA A DNA Mapp Seq Anal. 28:602–605.
  • Kumar S. 2005. Molecular clocks: four decades of evolution. Nat Rev Genet. 6:654–662.
  • Kumar S, Hedges SB. 1998. A molecular timescale for vertebrate evolution. Nature. 392:917–920.
  • Kumar S, Hedges SB. 2016. Advances in time estimation methods for molecular data. Mol Biol Evol. 33:863–869.
  • Lanfear R, Calcott B, Ho SY, Guindon S. 2012. Partitionfinder: combined selection of partitioning schemes and substitution models for phylogenetic analyses. Mol Biol Evol. 29:1695–1701.
  • Lavinia PD, Kerr KC, Tubaro PL, Hebert PD, Lijtmaer DA. 2016. Calibrating the molecular clock beyond cytochrome b: assessing the evolutionary rate of COI in birds. J Avian Biol. 47:84–91.
  • Laxmappa B, Krishna SM. 2015. Polyculture of the freshwater prawn Macrobrachium malcolmsonii (HM Edwards) in Koilsagar reservoir of Mahabubnagar district (TS), India. Int J Fish Aquat Stud. 2:147–152.
  • Lee CE. 1999. Rapid and repeated invasions of fresh water by the copepod Eurytemora affinis. Evolution. 53:1423–1434.
  • Lee CE, Bell MA. 1999. Causes and consequences of recent freshwater invasions by saltwater animals. Trends Ecol Evol (Amst). 14:284–288.
  • Liu MY, Cai YX, Tzeng CS. 2007. Molecular systematics of the freshwater prawn genus Macrobrachium Bate, 1868 (Crustacea: Decapoda: Palaemonidae) inferred from mtDNA sequences, with emphasis on East Asian species. Zool Stud. 46:272.
  • Macey JR, Schulte JA, Larson A, Tuniyev BS, Orlov N, Papenfuss TJ. 1999. Molecular phylogenetics, tRNA evolution, and historical biogeography in anguid lizards and related taxonomic families. Mol Phylogenet Evol. 12:250–272.
  • Marcos PL, Jens TH, Keith AC. 2004. Unravelling the evolutionary radiation of the Thoracican barnacles using molecular and morphological evidence: a comparison of several divergence time estimation approaches. Syst Biol. 53:244–264.
  • Molnar P, Tapponnier P. 1975. Cenozoic tectonics of Asia: effects of a continental collision: features of recent continental tectonics in Asia can be interpreted as results of the India-Eurasia collision. Science. 189:419–426.
  • Murphy NP, Austin CM. 2002. A preliminary study of 16S rRNA sequence variation in Australian Macrobrachium shrimps (Palaemonidae: Decapoda) reveals inconsistencies in their current classification. Invert Syst. 16:697–701.
  • Murphy NP, Austin CM. 2003. Molecular taxonomy and phylogenetics of some species of Australian palaemonid shrimps. J Crust Biol. 23:169–177.
  • Murphy NP, Austin CM. 2004. Multiple origins of the endemic Australian Macrobrachium (Decapoda: Palaemonidae) based on 16S rRNA mitochondrial sequences. Aust J Zool. 52:549–559.
  • Murphy NP, Austin CM. 2005. Phylogenetic relationships of the globally distributed freshwater prawn genus Macrobrachium (Crustacea: Decapoda: Palaemonidae): biogeography, taxonomy and the convergent evolution of abbreviated larval development. Zool Script. 34:187–197.
  • Parhi J, Lakra WS, Mazumdar K, Sahoo LM, Choudhury TG. 2014. Molecular phylogeny of Macrobrachium species of India: habitat preference, biogeography and taxonomy. Ind J Fisher. 61:129–134.
  • Pileggi L, Rossi N, Wehrtmann I, Mantelatto F. 2014. Molecular perspective on the American transisthmian species of Macrobrachium (Caridea, Palaemonidae). Zookeys. 457:109–131.
  • Poore GC. 2004. Marine decapod Crustacea of southern Australia: a guide to identification. Collingwood, Australia: CSIRO Publishing.
  • Rambaut A. 2009. FigTree v1.4.2; [accessed 2017 Sep 17]. http://tree.bio.ed.ac.uk/software/figtree/.
  • Rambaut A, Drummond AJ. 2009. Tracer v.1.5; [accessed 2017 Jun 22]. http://tree.bio.ed.ac.uk/software/tracer/.
  • Ronquist F, Huelsenbeck JP. 2003. MrBayes v3.2: Bayesian phylogenetic inference under mixed models. Bioinformatics. 19:1572–1574.
  • Russo CA, Solé-Cava AM, Thorpe JP. 1994. Population structure and genetic variation in two tropical sea anemones (Cnidaria, Actinidae) with different reproductive strategies. Mar Biol. 119:267–276.
  • Sharma C, Krishna G, Kumar AP, Nayak SK. 2014. Phylogeny of Macrobrachium species using mitochondrial 16S ribosomal DNA. J Cell Tissue Res. 14:4525–4529.
  • Short JW. 2004. A revision of Australian river prawns, Macrobrachium (Crustacea: Decapoda: Palaemonidae). Hydrobiologia. 525:1–100.
  • Sotelo G, Morán P, Posada D. 2009. Molecular phylogeny and biogeographic history of the European Maja spider crabs (Decapoda, Majidae). Mol Phylogenet Evol. 53:314–319.
  • Vergamini FG, Pileggi LG, Mantelatto FL. 2011. Genetic variability of the Amazon river prawn Macrobrachium amazonicum (Decapoda, Caridea, Palaemonidae). Contr Zool. 80:67–83.
  • Von Rintelen K, Page TJ, Cai Y, Roe K, Stelbrink B, Kuhajda BR, Iliffe TM, Hughes J, Von Rintelen T. 2012. Drawn to the dark side: a molecular phylogeny of freshwater shrimps (Crustacea: Decapoda: Caridea: Atyidae) reveals frequent cave invasions and challenges current taxonomic hypotheses. Mol Phylogenet Evol. 63:82–96.
  • Wowor D, Muthu V, Meier R, Balke M, Cai Y, Ng PK. 2009. Evolution of life history traits in Asian freshwater prawns of the genus Macrobrachium (Crustacea: Decapoda: Palaemonidae) based on multilocus molecular phylogenetic analysis. Mol Phylogenet Evol. 52:340–350.

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