A new subspecies identification and population study of the Asian small-clawed otter (Aonyx cinereus) in Malay Peninsula and southern Thailand based on fecal DNA method

The Scientific World Journal

Volumn 2014, Issue , 2014, Pages

  Rosli, M K A ^a   Syed Shabthar, S M F ^a   Abdul Patah, P ^b   Abdul Samad, Z ^a   Abdul, S N ^a   Burhanuddin, M N ^b   Zulkifli, N A ^a   Shukor, M N ^a   Budsabong, K ^c   Changtragoon, S ^c   Sekiguchi, T ^d   Sasaki, H ^e   Md Zain, B M ^a  

^a UNIVERSITI KEBANGSAAN MALAYSIA   (Malaysia)

^b Department of Wildlife and National Parks ^*  (Malaysia)

^c DEPARTMENT OF NATIONAL PARKS   (Thailand)

^d KYUSHU UNIVERSITY   (Japan)

^e Chikushi Jogakuen University   (Japan)

Author keywords

[No Author keywords available]

Indexed keywords

DNA;

AONYX CINEREUS; ARTICLE; CLADISTICS; FECES; GENETIC ANALYSIS; GENETIC DISTANCE; HAPLOTYPE; LUTRA SUMATRANA; LUTROGALE PERSPICILLATA; MALAYSIA; MITOCHONDRION; NUCLEIC ACID BASE SUBSTITUTION; OTTER; PHYLOGENY; POPULATION RESEARCH; SEASHORE; SEQUENCE ANALYSIS; SPECIES IDENTIFICATION; SUBSPECIES; THAILAND; ANIMAL; CLASSIFICATION; GENETICS;

ANIMALS; DNA; FECES; MALAYSIA; OTTERS; THAILAND;

EID: 84897478202     PISSN: None     EISSN: 1537744X     Source Type: Journal    
DOI: 10.1155/2014/457350     Document Type: Article

References (61)

1. Bellis C., Ashton K. J., Freney L., Blair B., Griffiths L. R., A molecular genetic approach for forensic animal species identification. Forensic Science International 2003 134 2-3 99 108 2-s2.0-0038354753 10.1016/S0379- 0738(03)00128-2 (Pubitemid 36808936)
2. Darling J. A., Blum M. J., DNA-based methods for monitoring invasive species: a review and prospectus. Biological Invasions 2007 9 7 751 765 2-s2.0-34548681208 10.1007/s10530-006-9079-4 (Pubitemid 47414776)
3. Wells J. D., Stevens J. R., Application of DNA-based methods in forensic entomology. Annual Review of Entomology 2008 53 103 120 2-s2.0-40349111684 10.1146/annurev.ento.52.110405.091423 (Pubitemid 351341933)
4. Rosli M. K. A., Zakaria S. S., Syed-Shabthar S. M. F., Zainal Z. Z., Shukor M. N., Mahani M. C., Abas-Mazni O., Md-Zain B. M., Phylogenetic relationships of Malayan gaur with other species of the genus Bos based on cytochrome b gene DNA sequences. Genetics and Molecular Research 2011 10 1 482 493 2-s2.0-79955844222 10.4238/vol10-1gmr1002
5. Pereira F., Carneiro J., Amorim A., Pereira F., Identification of species with DNA-based technology: current progress and challenges. Recent Patents on DNA & Gene Sequences 2008 2 3 187 200 2-s2.0-70350236393
6. Nsubuga A. M., Robbins M. M., Roeder A. D., Morin P. A., Boesch C., Vigilant L., Factors affecting the amount of genomic DNA extracted from ape faeces and the identification of an improved sample storage method. Molecular Ecology 2004 13 7 2089 2094 2-s2.0-3042741356 10.1111/j.1365-294X.2004.02207.x (Pubitemid 38847610)
7. Rogers N. L., Cole S. A., Lan H.-C., Crossa A., Demerath E. W., New saliva DNA collection method compared to buccal cell collection techniques for epidemiological studies. American Journal of Human Biology 2007 19 3 319 326 2-s2.0-34249661179 10.1002/ajhb.20586 (Pubitemid 46839443)
8. Yu Z., Morrison M., Improved extraction of PCR-quality community DNA from digesta and fecal samples. BioTechniques 2004 36 5 808 812 2-s2.0-2442510059 (Pubitemid 38620199)
9. Ang A., Srivasthan A., Md-Zain B. M., Ismail M. R. B., Meier R., Low genetic variability in the recovering urban banded leaf monkey population of Singapore. The Raffles Bulletin of Zoology 2012 60 2 589 594
10. Syed-Shabthar S. M. F., Rosli M. K. A., Mohd-Zin N. A. A., The molecular phylogenetic signature of Bali cattle revealed by maternal and paternal markers. Molecular Biology Reports 2013 40 8 5165 5176 10.1007/s11033-013-2619-y
11. Hussain S. A., Gupta S. K., Silva D. P. K., Biology and ecology of Asian small-clawed otter Aonyx cinereus (Illiger, 1815): a review. IUCN Otter Specialist Group Bulletin 2011 28 2 63 75
12. Koepfli K.-P., Wayne R. K., Phylogenetic relationships of otters (Carnivora: Mustelidae) based on mitochondrial cytochrome b sequences. Journal of Zoology 1998 246 4 401 416 2-s2.0-0032437238 10.1017/S0952836998009820 (Pubitemid 29064524)
13. Wilson D. E., Reeder D. M., Mammal Species of the World: A Taxonomic and Geographic Reference 1993 2nd Washington, DC, USA Smithsonian Institute Press
14. Koepfli K.-P., Kanchanasaka B., Sasaki H., Jacques H., Louie K. D. Y., Hoai T., Dang N. X., Geffen E., Gutleb A., Han S.-Y., Heggberget T. M., LaFontaine L., Lee H., Melisch R., Ruiz-Olmo J., Santos-Reis M., Sidorovich V. E., Stubbe M., Wayne R. K., Establishing the foundation for an applied molecular taxonomy of otters in Southeast Asia. Conservation Genetics 2008 9 6 1589 1604 2-s2.0-55949109996 10.1007/s10592-007-9498-5
15. Koepfli K.-P., Deere K. A., Slater G. J., Begg C., Begg K., Grassman L., Lucherini M., Veron G., Wayne R. K., Multigene phylogeny of the Mustelidae: resolving relationships, tempo and biogeographic history of a mammalian adaptive radiation. BMC Biology 2008 6, article 10 2-s2.0-41549131274 10.1186/1741-7007-6-10 (Pubitemid 351472339)
16. Shariff S. M., Some observations on otters at Kuala Gula, Perak and National Park, Pahang. Journal of Wildlife and Parks 1984 3 75 88
17. Burhanuddin H. M. N., Ahmad N., A survey on the distribution of otters in Pulau Pinang and Perlis. Journal of Wildlife and Parks 1990 9 53 58
18. Sivasothi N., Burhanuddin H. M. N., A review of otters (Carnivora: Mustelidae: Lutrinae) in Malaysia and Singapore. Hydrobiologia 1994 285 1-3 151 170 2-s2.0-0028565116 10.1007/BF00005663
19. van Zyll de Jong C. G., A phylogenetic study of the Lutrinae (Carnivora; Mustelidae) using morphological data. Canadian Journal of Zoology 1987 65 10 2536 2544 10.1139/z87-383
20. van Zyll de Jong C. G., A brief review of the systematics and a classification of the Lutrinae. Habitat 1991 6 79 83
21. Willemsen G. F., A Revision of the Pliocene and Quaternary Lutrinae from Europe 1992 101 Leiden, The Netherlands Nationaal Natuurhistorisch Museum Scripta Geologica
22. Lariviere S., Amblonyx cinereus. Mammalian Species 2003 720 1 5 10.1644/720
23. International Union for Conservation of Nature of Otter Specialist Group (IUCN OSG),. 2012, http://www.otterspecialistgroup.org/Species/Lutra-sumatrana. html
24. van Zyll de Jong C. G., A Systematic Review of the Nearctic and Neotropical River Otters (Genus Lutra, Mustelidae Carnivora) 1972 80 Toronto, Canada Royal Ontario Museum Life Sciences Contributions 10.5962/bhl.title.52088
25. Ruiz-Olmo J., Palazón S., The diet of the European otter (Lutra lutra L., 1758) in Mediterranean freshwater habitats. Journal of Wildlife Research 1997 2 2 171 181
26. Hussain S. A., Status of otter conservation in India. ENVIS Bulletin Wildlife and Protected Areas 1999 2 2 92 97
27. Hoffmann M., Hilton-Taylor C., Angulo A., The impact of conservation on the status of the world's vertebrates. Science 2010 330 6010 1503 1509 10.1126/science.1194442
28. Foster-Turley P., Santiapillai C., Foster-Turley P., Macdonald S., Mason C., Action plan for Asian otters. Otters: An Action Plan for Their Conservation 1990 Geneva, Switzerland IUCN/SSC Otter Specialist Group 52 63
29. Sebastian A., The hairy-nosed otter in Peninsular Malaysia. IUCN Otter Specialist Group Bulletin 1995 11, article 3 1 57
30. Melisch R., Asmoro P. B., Kusumawardhani L., Major steps taken towards otter conservation in Indonesia. IUCN Otter Specialist Group Bulletin 1994 10 21 24
31. Burhanuddin H. M. N., Preliminary study on food preference of Lutra perspicillata and Aonyx cinerea in Tanjung Piandang, Perak. Journal of Wildlife and Parks 1989 8 47 51
32. Foster-Turley P. A., Conservation aspects of the ecology of Asian small-clawed and smooth otters on the Malay Peninsula. IUCN Otter Specialist Group Bulletin 1992 7 26 29
33. Kruuk H., Kanchanasaka B., O'Sullivan S., Wanghongsa S., Niche separation in three sympatric otters Lutra perspicillata, L. lutra and Aonyx cinerea in Huai Kha Khaeng, Thailand. Biological Conservation 1994 69 1 115 120 2-s2.0-0028175325 10.1016/0006-3207(94)90334-4
34. Burhanuddin H. M. N., Ahmad N., A survey on the distribution of otters in Pulau Pinang and Perlis. Journal of Wildlife and Parks 1990 9 53 38
35. Hussain S. A., Conservation status of otters in the Tarai aand lower Himalayas of Uttar Pradesh, India. Proceedings of the 7th International Otter Colloquium 1998 Trebon, Czech Republic 131 142
36. Ang K. C., Leow J. W. H., Yeap W. K., Hood S., Mahani M. C., Md-Zain B. M., Phylogenetic relationships of the orang asli and iban of malaysia based on maternal markers. Genetics and Molecular Research 2011 10 2 640 649 2-s2.0-79955800198 10.4238/vol10-2gmr1011
37. Md-Zain B. M., Lee S. J., Lakim M., Ampeng A., Mahani M. C., Phylogenetic position of Tarsius bancanu s based on partial cytochrome b DNA sequences. Journal of Biological Sciences 2010 10 4 348 354 2-s2.0-77954751616
38. Md-Zain B. M., Mohamad M., Ernie-Muneerah M. A., Ampeng A., Jasmi A., Lakim M., Mahani M. C., Phylogenetic relationships of Malaysian monkeys, Cercopithecidae, based on mitochondrial cytochrome c sequences. Genetics and Molecular Research 2010 9 4 1987 1996 2-s2.0-78149422835 10.4238/vol9-4gmr942
39. Lim L. S., Ang K. C., Mahani M. C., Shahrom A. W., Md-Zain B. M., Mitochondrial DNA polymorphism and phylogenetic relationships of proto Malays in Peninsular Malaysia. Journal of Biological Sciences 2010 10 2 71 83 2-s2.0-77749270468 10.3923/jbs.2010.71.83
40. Khan W. A., Qasim M., Ahmad E., Bhaagat H. B., Distribution of smooth coated otter (Lutrogale perspicillata) in Sindh, Pakistan. 2008 WWF-P Sindh, Pakistan Islamabad and Sindh Wildlife Department
41. Cai X., Gou X., Jiang L., Mipam T., Bioinformatic analysis of phylogenetic evolution of Chinese cattle. Proceedings of the 5th International Conference on Bioinformatics and Biomedical Engineering (iCBBE '11) May 2011 Wuhan, China 1 3 2-s2.0-79960127167 10.1109/icbbe.2011.5780109
42. Jia S., Zhou Y., Lei C., Yao R., Zhang Z., Fang X., Chen H., A new insight into cattle's maternal origin in six Asian countries. Journal of Genetics and Genomics 2010 37 3 173 180 2-s2.0-77949905086 10.1016/S1673- 8527(09)60035-7
43. Ya P. Q., Chu Z.-T., Dai Q., Wei C.-D., Chu J. Y., Tajima A., Horai S., Mitochondrial DNA polymorphisms in Yunnan nationalities in China. Journal of Human Genetics 2001 46 4 211 220 2-s2.0-0035035317 10.1007/s100380170091 (Pubitemid 32435605)
44. Simonelli P., Troedsson C., Nejstgaard J. C., Zech K., Larsen J. B., Frischer M. E., Evaluation of DNA extraction and handling procedures for PCR-based copepod feeding studies. Journal of Plankton Research 2009 31 12 1465 1474 2-s2.0-70449657448 10.1093/plankt/fbp087
45. Sekiguchi T., Sasaki H., Kurihara Y., Watanabe S., Moriyama D., Kurose N., Matsuki R., Yamazaki K., Saeki M., New methods for species and sex determination in three sympatric Mustelids, Mustela itatsi, Mustela sibirica and Martes melampus. Molecular Ecology Resources 2010 10 6 1089 1091 2-s2.0-78650426189 10.1111/j.1755-0998.2010.02842.x
46. Pevsner J., Bioinformatics and Functional Genomics 2009 2nd Hoboken, NJ, USA Wiley-Blackwell
47. Swofford D. L., Phylogenetic Analysis Using Parsimony and Other Methods Version 4.0 Beta Version 2002 Sunderland, Mass, USA Sinauer Associates
48. Rozas J., Sanchez-DelBarrio J. C., Messeguer X., Rozas R., DnaSP, DNA polymorphism analyses by the coalescent and other methods. Bioinformatics 2003 19 18 2496 2497 2-s2.0-0347513220 10.1093/bioinformatics/btg359 (Pubitemid 38016658)
49. Tajima F., Statistical method for testing the neutral mutation hypothesis by DNA polymorphism. Genetics 1989 123 3 585 595 2-s2.0-0024313579 (Pubitemid 19274682)
50. Fu Y.-X., Statistical tests of neutrality of mutations against population growth, hitchhiking and background selection. Genetics 1997 147 2 915 925 2-s2.0-0030821992 (Pubitemid 27418596)
51. Fu Y.-X., Li W.-H., Statistical tests of neutrality of mutations. Genetics 1993 133 3 693 709 2-s2.0-0027453041 (Pubitemid 23066572)
52. Slatkin M., Hudson R. R., Pairwise comparisons of mitochondrial DNA sequences in stable & exponentially growing populations. Genetics 1991 129 2 555 562 2-s2.0-0025951996
53. Excoffier L., Laval G., Schneider S., Arlequin (version 3.0): an integrated software package for population genetics data analysis. Evolutionary Bioinformatics Online 2005 1 47 50
54. Donnelly M. J., Licht M. C., Lehmann T., Evidence for recent population expansion in the evolutionary history of the malaria vectors Anopheles arabiensis and Anopheles gambiae. Molecular Biology and Evolution 2001 18 7 1352 1364 2-s2.0-0034936430
55. Schneider S., Roessli D., Excoffier L., ARLEQUIN, Version 2.000: A Software for Population Genetics Data Analysis 2000 Geneva, Switzerland Genetics and Biometry Laboratory, University of Geneva
56. Alexandrino J., Arntzen J. W., Ferrand N., Nested clade analysis and the genetic evidence for population expansion in the phylogeography of the golden-striped salamander, Chioglossa lusitanica (Amphibia: Urodela). Heredity 2002 88 1 66 74 2-s2.0-0036008419 10.1038/sj/hdy/6800010 (Pubitemid 34171980)
57. Bandelt H.-J., Forster P., Rohl A., Median-joining networks for inferring intraspecific phylogenies. Molecular Biology and Evolution 1999 16 1 37 48 2-s2.0-0032900678 (Pubitemid 29024937)
58. Hwang Y. T., Lariviere S., Lutrogale perspicillata. Mammalian Species 2005 786 1 4 10.1644/786.1
59. Corbet G. B., Hill J. E., The Mammals of the Indomalayan Region: A Systematic Review 1992 New York, NY, USA Oxford University Press
60. Harris C. J., Otters: A Study of the Recent Lutrinae 1968 London, UK Weidenfeld & Nicolson
61. Lekagul B., McNeely J., Mammals of Thailand 1977 Bangkok, Thailand Kurusaphra Laprao Press