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Aves: Galliformes: Phasianidae) Based on the Complete Mitochondrial Genome

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See discussions, stats, and author profiles for this publication at: https://www.researchgate.net/publication/260607280 Taxonomic Status of Tetraophasis obscurus and Tetraophasis szechenyii (Aves: Galliformes: Phasianidae) Based on the Complete Mitochondrial Genome ARTICLE in ZOOLOGICAL SCIENCE · MARCH 2014 Impact Factor: 0.86 · DOI: 10.2108/zsj.31.160 · Source: PubMed CITATIONS READS 3 48 8 AUTHORS, INCLUDING: Chengzhong Yang Feiyun Tu Chongqing Normal University Institute of Wildlife Conservation http://ww… 15 PUBLICATIONS 28 CITATIONS 22 PUBLICATIONS 45 CITATIONS SEE PROFILE SEE PROFILE Yu Xu Bisong Yue Pingdingshan University Sichuan University 17 PUBLICATIONS 81 CITATIONS 180 PUBLICATIONS 1,193 CITATIONS SEE PROFILE SEE PROFILE All in-text references underlined in blue are linked to publications on ResearchGate, Available from: Yu Xu letting you access and read them immediately. Retrieved on: 24 February 2016 Taxonomic Status of Tetraophasis obscurus and Tetraophasis szechenyii (Aves: Galliformes: Phasianidae) Based on the Complete Mitochondrial Genome Author(s): Feiwei Liu , Lele Ma , Chengzhong Yang , Feiyun Tu , Yu Xu , Jianghong Ran , Bisong Yue and Xiuyue Zhang Source: Zoological Science, 31(3):160-167. 2014. Published By: Zoological Society of Japan DOI: http://dx.doi.org/10.2108/zsj.31.160 URL: http://www.bioone.org/doi/full/10.2108/zsj.31.160 BioOne (www.bioone.org) is a nonprofit, online aggregation of core research in the biological, ecological, and environmental sciences. BioOne provides a sustainable online platform for over 170 journals and books published by nonprofit societies, associations, museums, institutions, and presses. Your use of this PDF, the BioOne Web site, and all posted and associated content indicates your acceptance of BioOne’s Terms of Use, available at www.bioone.org/page/terms_of_use. Usage of BioOne content is strictly limited to personal, educational, and non-commercial use. Commercial inquiries or rights and permissions requests should be directed to the individual publisher as copyright holder. BioOne sees sustainable scholarly publishing as an inherently collaborative enterprise connecting authors, nonprofit publishers, academic institutions, research libraries, and research funders in the common goal of maximizing access to critical research. ZOOLOGICAL SCIENCE 31: 160–167 (2014) ¤ 2014 Zoological Society of Japan Taxonomic Status of Tetraophasis obscurus and Tetraophasis szechenyii (Aves: Galliformes: Phasianidae) Based on the Complete Mitochondrial Genome Feiwei Liu1, Lele Ma1, Chengzhong Yang2, Feiyun Tu1, Yu Xu1, Jianghong Ran3, Bisong Yue3, and Xiuyue Zhang3* 1Sichuan Key Laboratory of Conservation Biology on Endangered Wildlife, College of Life Sciences, Sichuan University, Chengdu 610064, P.R. China 2Chongqing Key Laboratory of Animal Biology, College of Life Sciences, Chongqing Normal University, Chongqing 400047, P.R. China 3Key Laboratory of Bio-Resources and Eco-Environment, Ministry of Education, College of Life Sciences, Sichuan University, Chengdu 610064, P.R. China Tetraophasis szechenyii and T. obscurus are endangered phasianid birds endemic to China. Histor- ically, the question of whether T. obscurus and T. szechenyii are valid species or subspecies has been controversial. In order to clarify their phylogenetic relationship, we sequenced the complete mitochondrial genome of T. obscurus and, using the complete mitochondrial genome of T. szechenyii, which our lab had already sequenced, conducted Bayesian and maximum-likelihood phylogenetic analyses based on the sequences of 12 concatenated heavy-strand encoded protein-coding genes. Genetic distance and divergence time between the two species were also calculated. The complete mitochondrial genome of T. obscurus was 16,707 bases (accession no.: NC_018034), and its struc- ture was similar to mitochondrial genomes reported for other phasianids. The genetic distance between T. obscurus and T. szechenyii was 0.028, and the divergence time of T. obscurus and T. szechenyii was 1.75 Myr. Considering the genetic distance and divergence time, as well as geo- graphical distribution and morphological differences, we suggest that T. obscurus and T. szechenyii are two valid species. The Pleistocene glacial events in the Hengduan Mountains region may have played an important role in the speciation of T. obscurus and T. szechenyii. Key words: Tetraophasis obscurus, Tetraophasis szechenyii, mitochondrial genome, phylogenetic anal- ysis, species identification Phasianidae), also endemic to China, is distributed in Sichuan, INTRODUCTION Qinghai, Yunnan Provinces and Tibet, inhabiting conifer- The chestnut-throated partridge, Tetraophasis obscurus ous forest, alpine meadows, and rhododendron scrub (Lei (Galliformes: Phasianidae), a bird endemic to China, Cate- and Lu, 2006; Meng et al., 2008; Wen et al., 2009; Wen gory I in the List of Chinese State Key Protected Wild Ani- and Liu, 2010). The holotype specimen of this bird was cap- mals, is distributed in Gansu, southeast Tibet, southwestern tured in western Sichuan and was described as another new Sichuan, southern Qinghai, and northwest Yunnan in China species of Tetraophasis by Madarász (1886). The genus (MacKinnon et al., 2000; Lei and Lu, 2006; Meng et al., Tetraophasis then consisted of two species: T. obscurus 2008; Wen et al., 2009; Wen and Liu, 2010). This bird and T. szechenyii. However, it has been controversial mainly inhabits coniferous forests, mixed coniferous and whether T. szechenyii is a valid species or a subspecies of broadleaf forests, and rhododendron scrub at about 4600 T. obscurus (Johnsgard, 1998). Zheng et al. (1965) deter- m.a.s.l. (Lei and Lu, 2006; Wen et al., 2009; Wen and Liu, mined that they were two different subspecies based on 2010). This species was first found in Baoxing, Sichuan morphological features and geographic distributions. Zhao Province, and named Lophophorus obscurus by Verreaux (1995) suggested that T. szechenyii and T. obscurus were (1869). Based on its morphological differences from other two species in his “Manual for the Birds of China,” which species in Lophophorus, Elliot (1872) classified it into the was supported by Lei et al. (2002), Lei and Lu (2006), Zheng genus Tetraophasis, as Tetraophasis obscurus. The buff- (2002a), and Zheng (2002b), but they did not provide new throated partridge, Tetraophasis szechenyii (Galliformes: evidence for the taxonomic relationship of these two bird taxa. There is little molecular data available to support a * Corresponding author. Tel. : +86-28-85412488; phylogenetic relationship of the two taxa, except for a short Fax : +86-28-85414886; DNA sequence (cyt b, 828 bp), which was used to analyze E-mail: [email protected] their evolutionary relationship (Wen et al., 2009; Wen and doi:10.2108/zsj.31.160 Liu, 2010), and their findings supported that T. szechenyii Mitogenome of T. obscurus and Phylogeny 161 and T. obscurus were two different Table 1. Seven primer pairs for PCR amplification of the mtDNA of Tetraophasis obscurus. species. However, short sequence Primer sequence (5’-3’) data may lead to misleading conclu- Primer name sions regarding the resolution of their Forward (F) Reverse (R) taxonomic relationship due to the lim- UP-1* ACCATTATTAACATAAAACCCC TAGCTTAAAAGGCTAGTGCTG ited phylogenetic information provided UP-2* GTAACAAGGTAAGTGTACCGGAAGG GCTAGGGAGAGGATTTGAACCTC (Cummings et al., 1995; Zardoya and UP-3* TTCGAAGCAACCCTAATCCCAAC AGGCCAAATTGAGCGGATTTTCC Meyer, 1996; Saitoh et al., 2000). ZC-47 ATCATCGGTCAAATAGCATCC AGTGGGTTCTTGATGGTGGT Mitochondrial DNA is a useful molec- ZC-84 CACCTGAGAAATCCAACAAGC TGTTTCTGGTGGCAGGTTG ular marker due to its maternal inher- ZC-5 GCCAAAAGCCTCACACACAT GGGTGACCGAAGAATCAGAAT itance (Hassanin et al., 2005), rela- ZC-6 CGACCAGGAGTATTTTACGGAC GCACTGAGTCGTTCGGGTT tively small, easy amplification and * Universal primers for bird moderate evolutionary rate (Boore et al., 1999). Therefore, mitochondrial DNA has been widely Table 2. List of species and GenBank sequence accession num- used in molecular genetics and phylogenetic relationship bers used for phylogenetic analysis. research (Armstrong et al., 2001; Huang et al., 2009; Bao et Species GenBank No. al., 2010). In the present study, we sequenced the complete mitochondrial genome of T. obscurus to allow a detailed Alectoris chukar FJ752426 comparison with the complete mitochondrial genome of T. Alectura lathami* NC_007227 szechenyii, which our lab had already sequenced. Based on Anas platyrhynchos* NC_009684 the complete mitochondrial DNA sequence of the two spe- Arborophila rufipectus NC_012453 cies of Tetraophasis, along with the complete mitochondrial Bambusicola fytchii FJ752423 sequences of 32 other species in Phasianidae, we recon- Bambusicola thoracica NC_011816 structed their phylogenetic relationships. We hoped that the Bonasa bonasia FJ752435.1 knowledge of the mitochondrial genome sequence of T. Chrysolophus amherstiae FJ752434 obscurus could contribute to the clarification of the species Chrysolophus pictus FJ752433 status of T. obscurus and T. szechenyii, as well as their rela- Coturnix chinensis NC_004575 tionships to other genera, such as Lophophorus. Coturnix japonica NC_003408 Francolinus pintadeanus NC_011817 MATERIALS AND METHODS Gallus gallus NC_001323 Sample and DNA extraction Gallus lafayettei NC_007239 The muscle sample of a male T. obscurus was obtained from Gallus sonneratii NC_007240 the Chengdu Bird Conservation Center. Total DNA was extracted Gallus varius NC_007238 following the
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  • And a Host List of These Parasites

    And a Host List of These Parasites

    Onderstepoort Journal of Veterinary Research, 74:315–337 (2007) A check list of the helminths of guineafowls (Numididae) and a host list of these parasites K. JUNKER and J. BOOMKER* Department of Veterinary Tropical Diseases, Faculty of Veterinary Science, University of Pretoria Private Bag X04, Onderstepoort, 0110 South Africa ABSTRACT JUNKER, K. & BOOMKER, J. 2007. A check list of the helminths of guineafowls (Numididae) and a host list of these parasites. Onderstepoort Journal of Veterinary Research, 74:315–337 Published and personal records have been compiled into a reference list of the helminth parasites of guineafowls. Where data on other avian hosts was available these have been included for complete- ness’ sake and to give an indication of host range. The parasite list for the Helmeted guineafowls, Numida meleagris, includes five species of acanthocephalans, all belonging to a single genus, three trematodes belonging to three different genera, 34 cestodes representing 15 genera, and 35 nema- todes belonging to 17 genera. The list for the Crested guineafowls, Guttera edouardi, contains a sin- gle acanthocephalan together with 10 cestode species belonging to seven genera, and three nema- tode species belonging to three different genera. Records for two cestode species from genera and two nematode species belonging to a single genus have been found for the guineafowl genus Acryllium. Of the 70 helminths listed for N. meleagris, 29 have been recorded from domestic chick- ens. Keywords: Acanthocephalans, cestodes, check list, guineafowls, host list, nematodes, trematodes INTRODUCTION into the southern Mediterranean region several mil- lennia before turkeys and hundreds of years before Guineafowls (Numididae) originated on the African junglefowls from which today’s domestic chickens continent, and with the exception of an isolated pop- were derived.