DNA Barcoding of Birds in the University of the Philippines Diliman Campus, with Emphasis on Striated Grassbirds Megalurus palustris


Adrian U. Luczon*, Andrew F. Torres, Jonas P. Quilang,
Perry S. Ong and Ian Kendrich C. Fontanilla*
Institute of Biology, University of the Philippines Diliman,
Diliman, Quezon City 1101, Philippines

corresponding author: This email address is being protected from spambots. You need JavaScript enabled to view it.



DNA barcoding is increasingly being used by researchers across the globe to aid in the identification of species. Using this taxonomic tool on bird species in an urban green space within Manila, i.e. the University of the Philippines Diliman campus, Luzon, Philippines, DNA barcodes of eleven species were generated. Different haplotypes for some of the species were observed. Using BLAST, the cytochrome oxidase subunit 1 (COI) sequence of every species from this study was correctly matched with the corresponding species having a COI record in Genbank, with the exception of the Striated Grassbird Megalurus palustris, which is a new COI record. The three distinct haplotypes for M. palustris were then compared with COI sequences from other members of the sylviid “Old World Warblers” to determine the effectiveness of the DNA barcode in discriminating it with other species. Results show that COI was successful in placing M. palustris as a distinct taxon.



Taxonomy plays a key role in any biological study. Any experiment addressing scientific problems involving a taxon must first ascertain the correct identification of that taxon. Even today when there is an explosion in the number of species being discovered, morphology alone sometimes is unable to discriminate between species (Packer et al. 2009). DNA barcode profiles were developed as a taxonomic tool to address this limitation. . . . . . . . . . . . .





[ABBI] ALL BIRDS BARCODING INITIATIVE. 2012. Barcoding Life Takes Flight: Retrieved from http:// on 4 July 2010.

ALSTRÖM P, ERICSON PGP, OLSSON U, SUNDBERG P. 2006. Phylogeny and classification of the avian superfamily Sylvioidea. Molecular Phylogenetics and Evolution 38: 381-397.

ALSTRÖM P, FREGIN S, NORMAN JA, ERICSON PGP, CRISTIDIS L, OLSSON U. 2011. Multilocus analysis of a taxonomically densely sampled dataset reveals extensive non-monophyly in the avian family Locustellidae. Molecular Phylogenetics and Evolution 58: 513-526.

ALTSCHUL SF, GISH W, MILLER W, MYERS EW, LIPMAN DJ. 1990. Basic local alignment search tool. Journal of Molecular Biology 215: 403-410.

AQUILINO SVL, TANGO JM, FONTANILLA IKC, PAGULAYAN RC, BASIAO ZU, ONG PS, QUILANG JP. 2011. DNA barcoding of the ichthyofauna of Taal Lake, Philippines. Molecular Ecology Resources 11: 612-619.

BARKER FK, CIBOIS A, SCHIKLER P, FEINSTEIN J, CRACRAFT J. 2004. Phylogeny and diversification of the largest avian radiation. Proceedings of the National Academy of Sciences 101: 11040-45.

BERESFORD P, BARKER FK, RYAN PG, CROWE TM. 2005. African endemics span the tree of songbirds (Passeri): molecular systematics of several evolutionary 'enigmas'. Proceedings of the Royal Society of London B 272: 849-858.

CIBOIS A. 2003. Mitochondrial DNA phylogeny of babblers (Timaliidae). The Auk 120(1): 34-54.

CONSORTIUM FOR THE BARCODE OF LIFE. What is CBOL? Retrieved from http://www.barcodeoflife. org/what-is-cbol/ on 30 June 2010.

DEIGNAN HG. 1946. Races of the Striated Marsh Warbler. The Auk 63: 381-383.

DICKINSON EC, KENNEDY RS, PARKES KC. (eds). 1991. The birds of the Philippines: an annotated checklist. London, British Ornithologists’ Union.

ERICSON PER GP, JOHANSSON US. 2003. Phylogeny of Passerida (Aves: Passeriformes) based on nuclear and mitochondrial sequence data. Molecular Phylogenetics and Evolution 29: 126-138.

HALL TA. 1999. BioEdit: a user-friendly biological sequence alignment editor and analysis program for Windows 95/98/NT. Nucleic Acids Symposium Series 41: 95-98.

HEBERT PDN, CYWINSKA A, BALL SL, DEWAARD JR. 2003a. Biological identifications through DNA barcodes. Proceedings of the Royal Society of London B 270: 313-321.

HEBERT PDN, RATNASINGHAM S, DEWAARD JR. 2003b. Barcoding animal life: Cytochrome c oxidase subunit 1 divergences among closely related species. Proceedings of the Royal Society of London B 270: S596-S599.

HEBERT PDN, STOECKLE MY, ZEMLAK TS, FRANCIS CM. 2004. Identification of birds through DNA barcodes. Public Library of Science Biology 2(10): e312.

INTERNET BIRD COLLECTION. Striated Grassbird (Megalurus palustris). Retrieved from http://ibc. on 29 March 2011.

KERR KCR, BIRKS SM, KALYAKIN MV, RED’KIN YA, KOBLIK EA, HEBERT PDN. 2009. Filling the gap – COI barcode resolution in eastern Palearctic birds. Frontiers in Zoology 6: 29 (doi: 10.1186/1742- 9994-6-29).

KERR KCR, STOECKLE MY, DOVE CJ, WEIGT LA, FRANCIS CM, HEBERT PDN. 2007. Comprehensive DNA barcode coverage of North American birds. Molecular Ecology Notes 7: 535-543.

LOHMAN DJ, INGRAM KK, PRAWIRADILAGA DM, WINKER K, SHELDON FH, MOYLE RG, NG PKL, ONG PS, WANG LK, BRAILE TM, ASTUTI D, MEIER R. 2010. Cryptic genetic diversity in “widespread” Southeast Asian bird species suggests that Philippine avian endemism is gravely underestimated. Biological Conservation 143: 1885-90.

LUCZON AU, MOHAMMAD ISA AHM, QUILANG JP, ONG PS, FONTANILLA IKC. 2010. DNA barcoding of the White-Collared Kingfisher Todiramphus chloris (Boddaert 1783) (Alcedinidae) using the mitochondrial cytochrome c oxidase subunit I gene. Philippine Science Letters 3(2): 74-77.

MORITZ C, CICERO C. 2004. DNA barcoding: Promise and pitfalls. Public Library of Science Biology 2(10): e354.

MYERS N, MITTERMEIER RA, MITTERMEIER CG, DA FONSECA GAB, KENT J. 2000. Biodiversity hotspots for conservation priorities. Nature 403: 853-858.

ONG PS, LUCZON AU, QUILANG JP, SUMAYA AMT, IBANEZ JC, SALVADOR DJ, FONTANILLA IKC. 2011. DNA barcodes of Philippine accipitrids. Molecular Ecology Resources 11(2): 245-254. .

ONG PS, PEDREGOSA MDG, DE GUIA MG. 1999. Wildlife inventory of the University of the Philippines (UP) Diliman and the Ateneo de Manila University Campus Diliman, Quezon City, Luzon, Philippines. Science Diliman 11(1): 6-20.

PACKER L, GIBBS J, SHEFFIELD C, HANNER R. 2009. DNA barcoding and the mediocrity of morphology. Molecular Ecology Resources 9(suppl.1): 42-50.

SAITOU N, NEI M. 1987. The neighbor-joining method: a new method for reconstructing phylogenetic trees. Molecular Biology and Evolution 4: 406-425.

SIBLEY CG, AHLQUIST JE, MONROE JR BL. 1990. A classification of the living birds of the world based on DNA-DNA hybridization studies. The Auk 105(3): 409-423.

STADEN R, BEAL K, BONFIELD J. 2000. The Staden package, 1998. Methods in Molecular Biology 132: 115-130.

SWOFFORD D. 2002. PAUP*4.0. Sunderland, MA: Sinauer Associates.

VALLEJO JR. BM, ALOYA AB, ONG PS, TAMINO A, VILLASPER J. 2008. Spatial patterns of bird diversity and abundance in an urban tropical landscape: the University of the Philippines (UP) Diliman Campus. Science Diliman 20(1): 1-10.

WILD BIRD CLUB OF THE PHILIPPINES [WBCP]. 2010.Philippine Bird List. Retrieved from http:// on 17 July 2010.

XIA X, LEMEY P. 2009. Assessing substitution saturation with DAMBE. In: Lemey P. (ed.). The Phylogenetic Handbook. Cambridge, UK, Cambridge University Press, pp. 611-626.

XIA X, XIE Z. 2001. DAMBE: Data analysis in molecular biology and evolution. Journal of Heredity 92: 371-373.