Carrion fly-derived DNA metabarcoding is an effective tool for mammal surveys: evidence from a known tropical mammal community
文献类型：期刊论文
| 作者 | Rodgers TW*1,10; Jansen PA2,10; McMillan WO10; Somervuo P3; Yu DW4,9; Vargas M10; Xu CCY7,8,9; torrey.w.rodgers@gmail.com; Saltonstall K10; Kapheim KM5,10 |
| 刊名 | Molecular Ecology Resources
 |
| 出版日期 | 2017 |
| 卷号 | **期号:**页码:Epub ahead of print |
| 关键词 | Edna Barro Colorado Island Biodiversity Camera Trapping Transect Counts |
| 英文摘要 | Metabarcoding of vertebrate DNA derived from carrion flies has been proposed as a promising tool for biodiversity monitoring. To evaluate its efficacy, we conducted metabarcoding surveys of carrion flies on Barro Colorado Island (BCI), Panama, which has a well-known mammal community, and compared our results against diurnal transect counts and camera-trapping. We collected 1084 flies in 29 sampling days, conducted metabarcoding with mammal-specific (16S) and vertebrate-specific (12S) primers, and sequenced amplicons on Illumina MiSeq. For taxonomic assignment, we compared BLAST with the new program PROTAX, and we found that PROTAX improved species identifications. We detected 20 mammal, four bird, and one lizard species from carrion fly metabarcoding, all but one of which are known from BCI. Fly metabarcoding detected more mammal species than concurrent transect counts (29 sampling days, 13 species) and concurrent camera-trapping (84 sampling days, 17 species), and detected 67% of the number of mammal species documented by eight years of transect counts and camera-trapping combined, although fly metabarcoding missed several abundant species. This study demonstrates that carrion fly metabarcoding is a powerful tool for mammal biodiversity surveys, and has the potential to detect a broader range of species than more commonly used methods. |
| 语种 | 英语 |
| 资助机构 | This work was funded by a Smithsonian Tropical Research Institute fellowship (TR). Camera trapping and transect counts was funded by the STRI Terrestrial Environmental Studies Project, the U.S. Department of Education Math-Science Partnerships Project (JG), and private funds from Gregory E. Willis. We also thank Gregory E. Willis for years of mammals census field work. DY was supported by the National Natural Science Foundation of China (31400470, 41661144002, 31670536, 31500305, GYHZ1754), the Ministry of Science and Technology of China (2012FY110800), the University of East Anglia, and the State Key Laboratory of Genetic Resources and Evolution at the Kunming Institute of Zoology (GREKF13-13, GREKF14-13, GREKF16-09). ; This work was funded by a Smithsonian Tropical Research Institute fellowship (TR). Camera trapping and transect counts was funded by the STRI Terrestrial Environmental Studies Project, the U.S. Department of Education Math-Science Partnerships Project (JG), and private funds from Gregory E. Willis. We also thank Gregory E. Willis for years of mammals census field work. DY was supported by the National Natural Science Foundation of China (31400470, 41661144002, 31670536, 31500305, GYHZ1754), the Ministry of Science and Technology of China (2012FY110800), the University of East Anglia, and the State Key Laboratory of Genetic Resources and Evolution at the Kunming Institute of Zoology (GREKF13-13, GREKF14-13, GREKF16-09). ; This work was funded by a Smithsonian Tropical Research Institute fellowship (TR). Camera trapping and transect counts was funded by the STRI Terrestrial Environmental Studies Project, the U.S. Department of Education Math-Science Partnerships Project (JG), and private funds from Gregory E. Willis. We also thank Gregory E. Willis for years of mammals census field work. DY was supported by the National Natural Science Foundation of China (31400470, 41661144002, 31670536, 31500305, GYHZ1754), the Ministry of Science and Technology of China (2012FY110800), the University of East Anglia, and the State Key Laboratory of Genetic Resources and Evolution at the Kunming Institute of Zoology (GREKF13-13, GREKF14-13, GREKF16-09). ; This work was funded by a Smithsonian Tropical Research Institute fellowship (TR). Camera trapping and transect counts was funded by the STRI Terrestrial Environmental Studies Project, the U.S. Department of Education Math-Science Partnerships Project (JG), and private funds from Gregory E. Willis. We also thank Gregory E. Willis for years of mammals census field work. DY was supported by the National Natural Science Foundation of China (31400470, 41661144002, 31670536, 31500305, GYHZ1754), the Ministry of Science and Technology of China (2012FY110800), the University of East Anglia, and the State Key Laboratory of Genetic Resources and Evolution at the Kunming Institute of Zoology (GREKF13-13, GREKF14-13, GREKF16-09). |
| 源URL | [http://159.226.149.26:8080/handle/152453/12011]  |
| 专题 | 昆明动物研究所_遗传资源与进化国家重点实验室 昆明动物研究所_动物生态学研究中心 |
| 通讯作者 | torrey.w.rodgers@gmail.com |
| 作者单位 | 1.Department of Wildland Resources, Utah State University, 5230 Old Main Hill, Logan, UT 84322, USA 2.Department of Environmental Sciences, Wageningen University, PO Box 47, 6700 AA Wageningen, The Netherlands 3.Department of Biosciences, University of Helsinki, Finland 4.School of Biological Sciences, University of East Anglia, Norwich Research Park, Norwich, Norfolk NR4 7TJ, UK 5.Department of Biology, Utah State University, 5305 Old Main Hill, Logan, UT 84322, USA 6.College of Science and Mathematics, Montclair State University, Montclair, NJ 07043 USA 7.Redpath Museum and Department of Biology, McGill University, Montreal, QC, Canada 8.Groningen Institute for Evolutionary Life Sciences, University of Groningen, P.O. Box 11103, 9700 CC Groningen, The Netherlands 9.State Key Laboratory of Genetic Resources and Evolution, Kunming Institute of Zoology, Chinese Academy of Sciences, Kunming, Yunnan 650203, China 10.Smithsonian Tropical Research Institute, Apartado 0843–03092, Balboa, Panama |
| 推荐引用方式 GB/T 7714 | Rodgers TW*,Jansen PA,McMillan WO,et al. Carrion fly-derived DNA metabarcoding is an effective tool for mammal surveys: evidence from a known tropical mammal community[J]. Molecular Ecology Resources,2017,**(**):Epub ahead of print. |
| APA | Rodgers TW*.,Jansen PA.,McMillan WO.,Somervuo P.,Yu DW.,...&Giacalone J.(2017).Carrion fly-derived DNA metabarcoding is an effective tool for mammal surveys: evidence from a known tropical mammal community.Molecular Ecology Resources,**(**),Epub ahead of print. |
| MLA | Rodgers TW*,et al."Carrion fly-derived DNA metabarcoding is an effective tool for mammal surveys: evidence from a known tropical mammal community".Molecular Ecology Resources **.**(2017):Epub ahead of print. |
入库方式： OAI收割
来源：昆明动物研究所
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