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| Development and Application of the Genotyping System in Pigeon (Columba livia domestica) |
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Abstract The genotyping system based on short tandem repeats (STR) and sex locus can not only provide important molecular genetic marker information, but also effectively solve the problem of individual identification and genetic relationship in animals. To establish a multiplex detection system for STR and CHD (chromobox-helicase-DNA binding gene) of pigeon (Columba livia domestica) and evaluate its forensic application value, in present study, a 6-dye fluorescence-labelling multiplex PCR amplification system for 19 STR (short tandem repeats) loci and 1 CHD sex locus was established to evaluate its forensic application and population research. In total, CliμD11, PG4, PG1, PG2, CliμT02, CliμD17, CliμD35, CliμT17, CliμD16, PIGN04, CliμD32, PIGN57, PIGN26, PG5, PG6, CliμD19, PIGN12, PIGN15, PIGN10, and gender-identification gene CHD were picked up. The results showed that the multiplex amplification system was reliable and easy for identification via feather examples from 241 pigeons. It had been proved that the sensitivity could be low to 0.0625 ng DNA and the species identification was rather specific. The statistic analysis of all alleles of 19 STR loci in the pigeon population showed that all 19 STR loci could be qualified to be used in individual identification and paternity test. Finally it was proved that the pigeon STR loci multiplex amplification system established in present research was rather stable, sensitive and species-specific, which was the most effective pigeon detection system and the first report in China as well. The present study research provides molecular basis for individual identification and paternity testing in pigeons.
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Received: 01 June 2018
Published: 26 September 2018
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| [1]Bia?a A., Dybus A., Pawlina E., et al. 2015. Genetic diversity in eight pure breeds and urban form of domestic pigeon (Columba livia var. domestica) based on seven microsatellite loci[J]. Journal of Animal and Plant Sciences, 25:1741-5.
[2]Blechman A.D. 2007 Pigeons: the fascinating saga of the world's most revered and reviled bird Grove/Atlantic, Inc.
[3]Budowle B., Garofano P., Hellman A., et al. 2005. Recommendations for animal DNA forensic and identity testing[J]. International Journal of Legal Medicine, 119:295-302.
[4]Ciampolini R., Cecchi F., Bramante A., et al. 2012. Towards standardization of canine STRs: a proposed nomenclature for six markers from the ISAG comparison‐test panel[J]. Animal genetics, 43:463-467.
[5]Eggen A.2012. The development and application of genomic selection as a new breeding paradigm[J]. Animal frontiers, 2:10-15.
[6]Griffiths R., Double M.C., Orr K., et al. 1998. A DNA test to sex most birds[J]. Molecular ecology, 7:1071-1075.
[7]Groot M., Haeringen W. 2017. An evaluation of the International Society for Animal Genetics recommended parentage and identification panel for the domestic pigeon (Columba livia domestica)[J]. Animal genetics, 48:431-435.
[8]Hebert P.D., Stoeckle M.Y., Zemlak T.S., et al. 2004. Identification of birds through DNA barcodes[J]. PLoS biology, 2:e312.
[9]Iyengar A., Hadi S. 2014. Use of non-human DNA analysis in forensic science: a mini review[J]. Medicine, Science and the Law, 54:41-50.
[10]Jarvis E.D., Mirarab S., Aberer A.J., et al. 2014. Whole-genome analyses resolve early branches in the tree of life of modern birds[J]. Science, 346:1320-1331.
[11]Lee J.C.-I., Tsai L.-C., Hwa P.-Y., et al. 2010. A novel strategy for avian species and gender identification using the CHD gene[J]. Molecular and cellular probes, 24:27-31.
[12]Lee J.C.I., Tsai L.C., Kuan Y.Y., et al. 2007. Racing pigeon identification using STR and chromo‐helicase DNA binding gene markers[J]. Electrophoresis, 28:4274-4281.
[13]Linacre A., Gusmao L., Hecht W., et al. 2011. ISFG: recommendations regarding the use of non-human (animal) DNA in forensic genetic investigations[J]. Forensic Science International: Genetics, 5:501-505.
[14]Lipinski M., Amigues Y., Blasi M., et al. 2007. An international parentage and identification panel for the domestic cat (Felis catus)[J]. Animal genetics, 38:371-377.
[15]Ramadan S., Abe H., Hayano A., et al. 2011. Analysis of genetic diversity of Egyptian pigeon breeds[J]. The journal of poultry science, 48:79-84.
[16]Rohrer G., Freking B., Nonneman D. 2007. Single nucleotide polymorphisms for pig identification and parentage exclusion[J]. Animal genetics, 38:253-258.
[17]Sonoda S., Yamashita J., Kohara Y., et al. 2011. Population survey of spiders using mt-DNA (COI) sequences in Japanese peach orchards[J]. Applied entomology and zoology, 46:81-86.
[18]Stringham S.A., Mulroy E.E., Xing J., et al. 2012. Divergence, convergence, and the ancestry of feral populations in the domestic rock pigeon[J]. Current Biology, 22:302-308.
[19]Strucken E., Lee S., Lee H., et al. 2016. How many markers are enough? Factors influencing parentage testing in different livestock populations[J]. Journal of Animal Breeding and Genetics, 133:13-23.
[20]Traxler B., Brem G., Müller M., et al. 2000. Polymorphic DNA microsatellites in the domestic pigeon, Columba livia var. domestica[J]. Molecular Ecology, 9:366-368.
[21]Van de Goor L., Panneman H., Van Haeringen W. 2009. A proposal for standardization in forensic bovine DNA typing: allele nomenclature of 16 cattle‐specific short tandem repeat loci[J]. Animal genetics, 40:630-636.
[22]Van de Goor L., Panneman H., Van Haeringen W. 2010. A proposal for standardization in forensic equine DNA typing: allele nomenclature for 17 equine‐specific STR loci[J]. Animal genetics, 41:122-127.
[23]Walsh P.S., Fildes N.J., Reynolds R. 1996. Sequence analysis and characterization of stutter products at the tetranucleotide repeat locus vWA[J]. Nucleic acids research, 24:2807-2812.
[24]Wiltschko W., Wiltschko R. 1988 Magnetic orientation in birds, Current ornithology, Springer. pp. 67-121.
[25]Zhang G., Jarvis E.D., Gilbert M.T.P. 2014 A flock of genomes, American Association for the Advancement of Science.
[26]Zhang G., Li C., Li Q., et al. 2014b. Comparative genomics reveals insights into avian genome evolution and adaptation[J]. Science, 346:1311-1320.
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